Title of Invention

"AN IN VITRO METHOD OF PRODUCING PLURIPOTENT HUMAN STEM CELLS"

Abstract Methods of producing human stem cells are disclosed for parthenogenetically activating human oocytes by manipulatin of 02 tension, including manipulation of CA2+ under high 02 tension and contacting oocytes with serine threonine kinase inhibitors under low 02 tension, isolating inner cell masses (ICMs) from the activated oocytes, and culturing the cells of the isolated ICMS under high 02 tension. Moreover, methods are described for the production of stems cells from activated oocytes in the absence of non-human animal products, including the use of human feeder cells/Products for culturing ICM/stem cells. Stem cells produced by the disclosed methods are also described.
Full Text FIELD OF THE INVENTION
[0001] The present invention relates generally to embryonic steins cells, and more
specifically to a process for obtaining human embryonic stem cells using parthenogenically
activated oocytes.
BACKGROUND INFORMATION
10002] Human embryonic stem cells (ES) cells are pluripotent cells that can differentiate
into a large array of cell types. When injected into immune-deficient mice, embryonic stem
cells form differentiated tumors (teratomas). However, embryonic stem cells that are induced
in vitro to form embryoid bodies (EBs) provide a source of embryonic stem cell lines that are
amenable to differentiation into multiple cell types characteristic of several tissues under
certain growth conditions. For example, ES cells become differentiated into neurons in the
presence of nerve growth factor and retinoic acid.
[0003] Human ES cells and their differentiated progeny are important sources of normal
human cells for therapeutic transplantation and for drug testing and development. Required
by both of these goals is the provision of sufficient cells that are differentiated into tissue
types suitable for a patient's needs or the appropriate pharmacological test. Associated with
this is a need for an efficient and reliable method of producing differentiated cells from
embryonic stem cells.
10004] Currently, human embryonic stem cells (hES) are derived from three sources:
blastocysts remaining after infertility treatments and donated foT research, blastocysts
generated from donated gametes (oocytes and sperm), and the products of nuclear transfer
(NT). Cadaveric fetal tissue is the only source of human embryonic germ cells (hEG). hES
and hEG cells offer remarkable scientific and therapeutic possibilities, involving potential for
generating more specialized cells or tissues. Ethical concerns about the sources of hES and
hEG cells, however, and fears that use of NT for research could lead to use of NT to produce
a human being, have fostered a great deal of public discussion and debate.
[0005] Parthenogenic activation of mammalian oocytes may be used as an alterative to
fertilization by sperm/NT to prepare oocytes for embryonic stem cell generation.
Parthenogenic activation is the production of embryonic cells, with or without eventual
development into an adult, from a female gamete in the absence of any contribution from a
male gamete.
[0006] Parthenogenetic activation of mammalian oocytes has been induced in a number of
ways. Using an electrical stimulus to induce activation is of particular interest because
electrofusion is part of the current nuclear transfer procedure. Parthenogenetic activation in
vitro by electrical stimulation with electrofusion apparatus used for embryonic cell-oocyte
membrane fusion has been reported.
[0007] Mouse oocytes have been activated by exposure to Ca+2 -Mg+2 free medium,
medium containing hyaluronidase, exposure to ethanol, Ca+2 ionophores or chelators,
inhibitors of protein synthesis, and electrical stimulation. These procedures have led to high
rates of parthenogenic activation and development of mouse oocytes, but did not activate
and/or lead to a lower development rate of young bovine oocytes. Further, fertilization and
parthenogenic activation of mouse oocytes is also dependent on post ovulatory aging.
[0008] Activation of bovine oocytes has been reported by ethanol, electrical stimulation,
exposure to room temperature, and a combination of electrical stimulation and protein
inhibition with cycloheximide. While these processes are thought to raise intracellular Ca+2,
they are most successful when the oocytes have been aged for more than 28 hours.
SUMMARY OF THE INVENTION
[0010] The present invention is based on the seminal discovery that certain conditions are
optimal for parthenogenically activating human oocytes.
[0011] In one embodiment, a method of producing human stem cells is provided including
parthenogenetically activating an oocyte, where activation includes contacting the oocyte
with an ionophore at high oxygen (O2) tension and contacting the oocyte with a serine-
threonine kinase inhibitor under low O2 tension, cultivating the activated oocyte at low O2
tension until blastocyst formation, transferring the blastocyst to a layer of feeder cells, and
culturing the transferred blastocyst under high O2 tension, mechanically isolating an inner
cell mass (ICM) from trophectoderm of the blastocyst, and culturing the cells of the ICM on a
layer of feeder cells, where culturing the ICM cells is carried out under high O2 tension.
Preferably, the oocyte is human.

|0012] In a related aspect, low O2 tension is maintained by incubation in a gas mixture
environment comprising an O2 concentration of about 2% O2 to about 5% O2, where the gas
mixture environment further comprises about 5% CO2 and about 90% nitrogen (N2) to 93%
N2.
[0013] In another embodiment, a method of activating human metaphase II oocytes is
provided including incubating human metaphase II oocytes in in vitro fertilization (IVF)
media under high O2 tension, activating by incubating the cells in IVF media comprising an
ionophore under high O2 tension, and subsequently incubating the cells in IVF media
comprising a serine-threonine kinase inhibitor (STKI) under low O2 tension, and incubating
the STKI treated cells until blastocyst formation under low O2 tension, where inner cell
masses (ICM) obtained from the blastocyst produce culturable stem cells. High O2 tension
may be maintained by incubating the cells in a gas mixture environment having about 5%
CO2, about 20% O2, and about 75% N2.
[0014] . In a related aspect, the O2 tension for the incubating steps subsequent to activation
is maintained by incubating the cells in a gas mixture environment comprising an O2
concentration of about 2% O2 to about 5% O2, where the gas mixture environment further
includes about 5% CO2 and about 90% N2 to about 93% N2.
[0015] In another related aspect, the IVF media is essentially free of non-human products.
[0016] In a further related aspect, isolated oocytes prepared by the invention methods are
provided, including isolated inner cell masses (ICM) prepared from such oocytes and
corresponding stem cells isolated therefrom.
[0017] In another embodiment, human parthenogenic activation of mammalian oocytes
resulting in embryogenic stem cells and their differentiated progeny is provided. Such cells
and progeny are substantially isogenic to the oocyte donor, thus allowing for autologous
transplantation of cells relative to the oocyte donor, and rejection by the oocyte donor's
immune system is typically avoided.
[0018] In a related aspect, a cell bank of hES cell lines derived from parthenogenically
activated oocytes is provided.
[0019] In one embodiment, a method for producing human stem cells from a
cryopreserved oocyte OT parthenote is provided, including microinjecting into the cytoplasm

of the oocyte or parthenote a cryopreservation agent, freezing the oocyte or parthenote to a
cryogenic temperature to cause it to enter a dormant state, storing the oocyte or parthenote in
the dormant state, thawing the oocyte or parthenote, parthenogenically activating the oocyte,
where the activation includes contacting the oocyte with an ionophore at high O2 tension and
contacting the oocyte with a serine-threonine kinase inhibitor under low 02 tension,
cultivating the parthenote or activated oocyte under low O2 tension until blastocyst formation,
isolating an inner cell mass (ICM) from the trophectoderm of the blastocyst, and culturing the
cells of the ICM on a layer of feeder cells, where culturing is carried out under high O2
tension.
[0020] In another embodiment, autologous stem cells derived from parthenogenetically
activated oocytes from a human donor are provided. In one aspect, the stem cells possess a
substantially identical haplotype as the donor cell. In a related aspect, stem cells are
substantially identical genetically to the donor cell.
[0021J In one aspect, a stem cell is identified as a full sibling of the donor according to
single nucleotide polymorphism (SNP) markers. In another aspect, a stem cell is genomically
imprinted according to donor origin.
[0022] In one embodiment, a differentiated cell derived from a stem cell obtained from a
parthenogenetically activated oocyte from a human donor is disclosed. In a related aspect,
the differentiated cell includes, but is not limited to, a neuronal cell, a cardiac cell, a smooth
muscle cell, a striated muscle cell, an endothelial cell, an osteoblast, an oligodendrocyte, a
hematopoietic cell, an adipose cell, a stromal cell, a chondrocyte, an astrocyte, a dendritic
cell, a keratinocyte, a pancreatic islet, a lymphoid precursor cell, a mast cell, a mesodermal
cell, and an endodermal cell. In a further related aspect, the differentiated cell expresses one
or more markers, including but not limited to, neurofiliment 68, NCAM, beta m-tubulin,
GFAP, alpha-actinin, desmin, PECAM-1; VE-Cadherin, alpha-fetoprotein, or a combination
thereof.
[0023] In another embodiment, a cell line comprising autologous stem cells is disclosed,
where the stem cells are derived from parthenogenetically activated oocytes from a human
donor. In one aspect, the cells do not express SSEA-1. In another aspect, the cells of the cell
line give rise to ectodermal, mesodermal, and endodermal germ lines.

[0024] In one embodiment, a cell bank is disclosed including cryopreserved parthenotes,
where the parthenotes are derived from parthenogenetically activated oocytes from one or
more human donors. In a related aspect, the parthenotes have been cultivated under low O2
tension until blastocyst formation.
[0025] In one embodiment, a cell bank is disclosed including cryopreserved autologous
stem cells, where the stem cells are derived from parthenogenetically activated oocytes from
one or more human donors.
[0026] In another embodiment, a method of treating a subject in need thereof, comprising
administering a cellular composition comprising differentiated cells, wherein the
differentiated cells are derived from a stem cell obtained from a parthenogenetically activated
oocyte from a human donor. In one aspect, the differentiated cell is selected from the group
consisting of a neuronal cell, cardiac cell, smooth muscle cell, striated muscle cell,
endothelial cell, osteoblast, oligodendrocyte, hematopoietic cell, adipose cell, stromal cell,
chondrocyte, astrocyte, dendritic cell, keratinocyte, pancreatic islet, lymphoid precursor cell,
mast cell, mesodermal cell, and endodermal cell.
[0027] In a related aspect, the subject presents a disease selected from the group
consisting of Parkinson's disease, Huntington's disease, Alzheimer's disease, ALS, spinal cord
defects or injuries, multiple sclerosis, muscular dystrophy, cystic fibrosis, liver disease,
diabetes, heart disease, retinal disease (such as macular degeneration and retinitis
pigmentosa), cartilage defects or injuries, burns, foot ulcers, vascular disease, urinary tract
disease, AIDS, and cancer.
[0028] In one embodiment, a method of generating cloned human embryonic stem cells is
disclosed, including removing a first pronuclei from a previously fertilized human oocyte,
transferring a second pro-nuclei into the enucleated oocyte, where the second pro-nuclei is
derived from a donor oocyte or an oocyte from the mother of the donor, or a
parthenogenetically activated oocyte, where the pro-nuclei of the oocyte has been replaced by
the nucleus of a donoT somatic cell prior to activation, and cultivating the resulting oocyte
until blastocyst formation, where an inner cell mass from the blastocyst contains the
embryonic stem cells.
[0029] Exemplary methods and compositions according to this invention are described in
greater detail below.

BRIEF DESCRIPTION OF THE DRAWINGS
[0030] Figure 1A shows a micrograph of the surface marker expression of alkaline
phosphatase for the parthenogenically derived hES cells.
[0031] Figure IB shows a micrograph of the expression for the surface marker Oct4.
[0032] Figure 1C shows a micrograph of the expression for the surface marker SSEA-].
[0033] Figure ID shows a micrograph of the expression for the surface marker SSEA-3.
[0034] Figure IE shows a micrograph of the expression for the surface marker SSEA-4.
[0035] Figure IF shows a micrograph of the expression for the surface marker TRA-1-60.
[0036] Figure 1G shows a micrograph of the expression for the surface marker TRA-1-81.
[0037] Figure 2A shows the analysis of telomerase activity for the parthenogenically
derived hES cells. 500,1000, and 10000 (units) of extract was used to perform the analysis.
AH-heat treated test extract (negative control); positive control-telomerase positive cells;
CHAPS-lysis buffer; TSR8-control template.
[0038] Figure 2B shows a micrograph of embryoid body formation from
parthenogenically derived hES cells, 9 day culture.
[0039] Figure 2C shows a micrograph of embryoid body formation from
parthenogenically derived hES cells, 10 day culture.
[0040] Figure 2D illustrates the karyotype of parthenogenically derived hES cells.
[0041] Figure 2E shows the results from DNA finger printing analysis of
parthenogenically derived hES cells. 1- DNA from the blood of the oocyte donor; 2 - DNA
from the parthenogenic hES cells derived from the same donor, 3 - DNA from human feeder
fibroblasts.
[0042] Figure 3 shows a Northern blot characterizing the expression of genes associated
with genomic imprinting. DNA probes: SNKPN, Pegl_2, Pegl__A, HI9, and GAPDH (as an
internal control). NSF, neonatal skin fibroblasts; hES, human embryonic stem cell line
derived from fertilized oocytes; 1, phESC-1; 2, phESC-3, 3, phESC-4, 4, phESC-5; 5,
phESC-6; 6 phESC-7. NSF RT-, hES RT-, 1 RT- are negative controls.

[0043] Figure 4 shows the differentiation of phESC into derivatives of all three germ
layers. Ectoderm differentiation is presented by positive immunocytocheniical staining for
neuron specific markers 68 (A), NCAM (B), beta HI-tubulin (C) and glial cell marker GFAP
(D, M). Differentiated cells were positive for mesodermal markers: muscle specific alpha
actinin (G) and desmin (J), endothelial markers PECAM-1 (E) and VE-Cadherin (F).
Endoderm differentiation is presented by positive staining for alpha-fetoprotein (H, L). The
phESC produce pigmented epithelial-like cells (I, K). Magnification (I) x 100; (A-H, J-M), x
400.
[0044] Figure 5 shows the characterization of phESC lines for specific markers.
Undifferentiated colonies of phESC on human feeder layer cells (A-F), negative staining for
SSEA-1 (G-L), expression of cell surface markers SSEA-3 (M-R), SSEA-4 (S-X).
Magnification (A) to (E) x 100; (F) x 200; (G) to (X) x 400. Alkaline phosphatase positive
staining of phESC colonies on feedeT cells (A-F), OCT-4 (G-L), TRA-1-60 (K-R) and TRA-
1-81 (S-X). Magnification (A, B, O, R) x 100; (C-F, M, S, X) x 200; (G-L, N, P, Q, T-W) x
400.
[0045] Figure 6 demonstrates that phESC cells possess high levels of telomerase activity
by comparison with positive control cells: "+"-extract from 500 cells; "-"-heat treated cell
extract with inactivated telomerase; "Control +"-telomerase positive cell extract (applied with
TRAPEZE Kit); "B"-CHAPS lysis buffer, primer-dimer/PCR contamination control; TSR8-
telomerase quantitative control template (0.1 and 0.2 amole/ul); "M"-marker, DNA ladder.
[0046] Figure 7 shows the G-banded karyotyping of phESC lines. The phESC-1 (A),
phESC-3 (B), phESC-4 (C), phESC-5 (D) and phESC-6 (E) lines have normal 46, XX
karyotype. The phESC-7 line has 47, XXX karyotype (F).
DETAILED DESCRIPTION OF THE INVENTION
10047) Before the present composition, methods, and culturing methodologies are
described, it is to be understood that this invention is not limited to particular compositions,
methods, and experimental conditions described, as such compositions, methods, and
conditions may vary. It is also to be understood that the terminology used herein is for
purposes of describing particular embodiments only, and is not intended to be limiting, since
the scope of the present invention will be limited only in the appended claims.

[0048] As used in this specification and the appended claims, the singular forms "a", "an",
and "the" include plural references unless the context clearly dictates otherwise. Thus, for
example, references to "the method" includes one or more methods, and/or steps of the type
described herein which will become apparent to those persons skilled in the art upon reading
this disclosure and so forth.
[0049] "Differentiation" refers to a change that occurs in cells to cause those cells to
assume certain specialized functions and to lose the ability to change into certain other
specialized functional units. Cells capable of differentiation may be any of totipotent,
pluripotent or multipotent cells. Differentiation may be partial or complete with respect to
mature adult cells.
[0050] Gynogenesis refers to the production of an embryo containing a discernible
trophectoderm and inner cell mass that results upon activation of a cell, such as an oocyte, or
other embryonic cell type, containing mammalian DNA of all female origin, preferably
human female origin, e.g., human or non-human primate oocyte DNA. Such female
mammalian DNA may be genetically modified, e.g., by insertion, deletion or substitution of
at least one DNA sequence, or may be unmodified. For example, the DNA may be modified
by the insertion or deletion of desired coding sequences, or sequences that promote or inhibit
embryogenesis. Typically, such an embryo will be obtained by in vitro activation of an
oocyte that contains DNA of all female origin. Gynogenesis is inclusive of parthenogenesis
which is defined below. It also includes activation methods where the spermatozoal DNA
does not contribute to the DNA in the activated oocyte.
[0051] In a related aspect, oocytes are obtained from superovulating subjects prepared for
IVF. "Superovulation" techniques, such as treatment of a female subject with hormones,
used in IVF are designed to stimulate the ovaries to produce several eggs (oocytes) rather
than the usual single egg as in a natural cycle.
[0052] The medications required to boost egg production may include, but are not limited
to the following: Lupron (gonadotropin releasing hormone-agonist), Orgalutran, Antagon or
Cetrotide (gonadotropin releasing hormone-antagonist), Follistim, Bravelle or Gonal-F (FSH,
follicle stimulating hormone), Repronex (combination of FSH and LH, luteinizing hormone),
and Pregnyl or Novarel (hCG, human chorionic gonadotropin).

[0053] In a related aspect, collection of eggs can be performed under transvaginal
ultrasound guidance. To accomplish this, a needle is inserted (e.g., under IV sedation)
through the vaginal wall into the ovaries using ultrasound to locate each follicle. The
follicular fluid is drawn up into a test tube to obtain the eggs.
[0054] "Parthenogenesis" ("parthenogenically activated" and"parthenogenetically
activated" is used interchangeably) the process by which activation of the oocyte occurs in
the absence of sperm penetration, and refers to the development of an early stage embryo
comprising trophectoderm and inner cell mass that is obtained by activation of an oocyte or
embryonic cell, e.g., blastomere, comprising DNA of all female origin. In a related aspect, a
"parthenote" refers to the resulting cell obtained by such activation. In another related aspect,
"blastocyst" refers to a cleavage stage of a fertilized or activated oocyte comprising a hollow
ball of cells made of outer trophoblast cells and an inner cell mass (ICM). In a further related
aspect, "blastocyst formation" refers to the process, after oocyte fertilization or activation,
where the oocyte is subsequently cultured in media for a time to enable it to develop into a
hollow ball of cells made of outer trophoblast cells and ICM (e.g., 5 to 6 days).
[0055] In one embodiment, the process of creating cloned human embryonic stem cell line
by parthenogenetically activated oocytes is disclosed. While pathogenesis is not an
uncommon form of reproduction in nature, mammals are not known to be capable of this
form of reproduction. However, a 10% rate of spontaneous parthenogenesis can be found in
oocytes from females of the inbred mouse strain LT/Sv (Ozil and Huneau., Development
(2001) 128:917-928; Vrana et al., Proc Natl Acad SciUSA (2003) 100(Suppl 1):11911-
11916; Berkowitz and Goldstein, New Eng J Med (1996) 335(23).1740-1748). Oocytes from
placental mammals can be induced to undergo parthenogenesis in vitro; however, embryonic
development is unsuccessful.
[0056] Following parthenogenic activation of mammalian oocytes and transfer of the
activated oocyte into a surrogate mother, there is limited embryonic survival: ten days in
mice; 21 days in sheep; 29 days in pigs; and 11.5 days in rabbits (Rure-bayashi et al.,
Theriogenology (2000) 53:1105-1119; Hagemann et al., Mol Reprod Dev (1998) 50:154-162;
Surani and Barton, Science (1983) 222:1034-1036). The reason for this arrested development
is likely due to genetic imprinting. It has been shown that maternal and paternal genomes are
epigentically different and that both sets are required for successful embryonic development
(Surani, Cell (1998) 93:309-312; Sasaki et al., (1992) 6:1843-1856). In parthenotes, all of the

genetic material should be of maternal origin, a therefore should lack paternal imprinting.
Paternal imprinting is thought to be responsible for extra-embryo tissue development, thus
the development of trophoblastic tissue following fertilization of an enucleated oocyte
(Stevens, Nature (1978) 276:266-267). In animals, therefore, enucleated zygotes may be
useful for nucleaT transfer with subsequent parthenogenic activation.
[0057] Mammalian parthenotes undergo only limited development with eventual death of
the embryo. In Macac fascicularis, only 14 percent of oocytes in stage II rnetaphase
following in vitro Parthenogenetic activation developed to the blastocyst stage following 8
days of culture (Monk, Genes Dev (1988) 2:921-925). Similarly, 12 percent of human
oocytes that were parthenogenetically activated in vitro following nuclear transfer developed
to the blastocyst state (Monk, 1988). In both cases, one stem cell line was created.
(0058] Embryos formed in spontaneously activated parthenotes in virgin females of the
LT/Sv inbred mouse strain die within a few days. When nuclear transfer is performed from
cells comprising the inner cell mass (ICM) of these embryos into fertilized enucleated
C57BL/6J mouse oocytes, cloned mice with the LT/Sv genome are obtained (Kaufman et al.,
Nature (1977) 265:53-55). Thus, the use of a fertilized oocyte allows for full-term
development of a parthenote. In one aspect, a fertilized enucleated human oocyte can be used
to support development of a parthenogenetic embryo containing a donor's nuclei until the
blastocyst stage.
[0059] In one embodiment, the pronuclei of a donor's oocyte or from the oocyte of the
mother of a donoT, following parthenogenetic activation, can be transferred into a fertilized
human oocyte from which the male and female pronuclei have been extracted.
[0060] In another embodiment, a two stage process is disclosed foT generating human
stem cells including transferring the nucleus of a donor's somatic cell into a donor oocyte,
where the oocyte is subsequently activated by parthenogenesis and transferring the pronuclei
of the activated oocyte into a fertilized oocyte, where the male and female pronuclei have
been extracted.
[0061] In another embodiment, the nucleus from a donor's somatic cell can be transferred
into a fertilized enucleated human oocyte with subsequent parthenogenetic activation. The
three embodiments above are illustrated by the following flow diagrams:

Case 1
Female patient -> Remove oocyte -> Parthenogenetic -> Remove -> Add pronuclei to
activation pronuclei enucleated fertilized
oocyte
Male patient -> Obtain oocyte from -> Parthenogenetic -> Remove -> Add pronuclei to
patient's mother activation pronuclei enucleated fertilized
oocyte
Case 2
Obtain donor -> Remove -> Add nucleus from -> Parthenogenetic -> Remove -> Add
pronuclei oocyte pronuclei patient's somatic activation pronuclei
to enucleated
cell using nuclear fertilized
transfer
oocyte
Case 3
Obtain donor oocyte -> Fertilize -> Remove nucleus -> Add patient's -> Parthenogenetic
somatic cell activation
nucleus
[0062] "Pluripotent cell" refers to a cell derived from an embryo produced by activation of
a cell containing DN A of all female or male origin that can be maintained in vitro for
prolonged, theoretically indefinite period of time in an undifferentiated state, that can give
rise to different differentiated tissue types, i.e., ectoderm, mesoderm, and endoderm. The
pluripotent state of the cells is preferably maintained by culturing inner cell mass or cells
derived from the inner cell mass of an embryo produced by androgenetic or gynogenetic
methods under appropriate conditions, for example, by culturing on a fibroblast feeder layer
or another feeder layer or culture that includes leukemia inhibitory factor (LIF). The
pluripotent state of such cultured cells can be confirmed by various methods, e.g., (i)
confirming the expression of markers characteristic of pluripotent cells; (ii) production of
chimeric animals that contain cells that express the genotype of the pluripotent cells; (iii)
injection of cells into animals, e.g., SCID mice, with the production of different differentiated
cell types in vivo; and (iv) observation of the differentiation of the cells (e.g., when cultured
in the absence of feedeT layer or LIF) into embryoid bodies and other differentiated cell types
in vitro.
[0063] "Diploid cell" refers to a cell, e.g., an oocyte or blastomere, having a diploid DNA
content of all male or female origin.

[0064] "Haploid cell" refers to a cell, e.g., an oocyte or blastomere, having a haploid DNA
content, where the haploid DNA is of all male or female origin.
[0065] Activation refers to a process where a fertilized or unfertilized oocyte, for example,
but not limited to, in metaphase II of meiosis, undergoes a process typically including
separation of the chromatid pairs, extrusion'of the second polar body, resulting in an oocyte
having a haploid number of chromosomes, each with one chromatid. Activation includes
methods whereby a cell containing DNA of all male or female origin is induced to develop
into an embryo that has a discernible inner cell mass and trophectoderm, which is useful for
producing pluripotent cells but which is itself is likely to be incapable of developing into a
viable offspring. Activation may be carried out, for example, under one of the following
conditions: (1) conditions that do not cause second polar body extrusion; (ii) conditions that
cause polar body extrusion but where the polar body extrusion is inhibited; or (iii) conditions
that inhibit first cell division of the haploid oocyte.
[0066] "Metaphase II" refers to a stage of cell development wheie the DNA content of a
cell consists of a haploid number of chromosomes with each chromosome represented by two
chromatids.
[0067] In one embodiment, metaphase II oocytes are activated by incubating oocytes
under various O2 tension gas environments. In a related aspect, the low O2 tension gas
environment is created by a gas mixture comprising an O2 concentration of about 2%, 3%,
4%, or 5%. In a further related aspect, the gas mixture comprises about 5% CO2. Further,
the gas mixture comprises about 90% N2, 91% N2, or 93% N2. This gas mixture is to be
distinguished from 5% CO2 air, which is approximately about 5% CO2,20% O2, and 75% N2.
J0068] "O2 tension" refers to the partial pressure (pressure exerted by a single component
of a gas mixture) of oxygen in a fluid (i.e., liquid or gas). Low tension is when the partial
pressure of oxygen (PO2) is low and high tension is when the pO2 is high.
[0069] "Defined-medium conditions" refer to environments for culturing cells where the
concentration of components therein required for optimal growth are detailed. For example,
depending on the use of the cells (e.g., therapeutic applications), removing cells from
conditions that contain xenogenic proteins is important; i.e., the culture conditions are
animal-free conditions or free of non-human animal proteins. In a related aspect, "in vitro

fertilization (TVF) media" refers to a nutrient system which contains chemically defined
substances on or in which fertilized oocytes can be grown.
[0070] "Extracellular matrix (ECM) substrates" refer to a surface beneath cells which
supports optimum growth. For example, such ECM substrates include, but are not limited to,
Matrigel, laminin, gelatin, and fibronectin substrates. In a related aspect, such substrates may
comprise collagen IV, entactin, heparin sulfate proteoglycan, to include various growth
factors (e.g., bFGF, epidermal growth factor, insulin-like growth factor-1, platelet derived
growth factor, nerve growth factor, and TGF-P-1).
[0071] "Embryo" refers to an embryo that results upon activation of a cell, e.g., oocyte or
other embryonic cells containing DNA of all male or female origin, which optionally may be
modified, that comprises a discernible trophectoderm and inner cell mass, which cannot give
rise to a viable offspring and where the DNA is of all male or female origin. The inner cell
mass or cells contained therein are useful for the production of pluripotent cells as defined
previously.
[0072] "Inner cell mass (ICM)" refers to the inner portion of an embryo which gives rise
to fetal tissues. Herein, these cells are used to provide a continuous source of pluripotent cells
in vitro. Further, the ICM includes the inner portion of the embryo that results from
androgenesis or gynogenesis, i.e., embryos that result upon activation of cells containing
DNA of all male or female origin. Such DNA, for example, will be human DNA, e.g., human
oocyte or spermatozoal DNA, which may or may not have been genetically modified.
[0073] "Trophectoderm" refers to another portion of early stage embryo which gives rise
to placental tissues, including that tissue of an embryo that results from androgenesis or
gynogenesis, i.e., embryos that result from activation of cells that contain DNA of all male or
female origin, e.g., human ovarian or spermatozoan.
[0074] "Differentiated cell" refers to a non-embryonic cell that possesses a particular
differentiated, i.e., non-embryonic, state. The three earliest differentiated cell types are
endoderm, mesoderm, and ectoderm.
[0075] "Substantially identical" refers to a quality of sameness regarding a particular
characteristic that is so close as to be essentially the same within the ability to measure
difference (e.g., by HLA typing, SNP analysis, and the like).

[0076] "Histocompatible" refers to the extent to which an organism will tolerate a graft of
a foreign tissue.
[0077] "Genomic imprinting" refers to the mechanism by which a number of genes
throughout the genome are monoallelically expressed according to their parental origin.
[0078] "Homoplasmy," including grammatical variations thereof, refers to the presence of
the same type of the mitochondrial DNA (mtDNA) within a cell or individual.
[0079] "Heteroplasmy," including grammatical variations thereof, refers to the presence of
a mixture of more than one type of mitochondrial DNA (mtDNA) within a cell or individual.
[0080] "Uniparental" refers to one or more cells or individuals from which another arises
and to which it remains subsidiary.
[0081] "Mechanically isolating" refers to the process of separating cell aggregates by
physical forces. For example, such a process would exclude the use of enzymes (or other cell
cleavage products) which might contain non-human materials.
[0082] In the native environment, immature oocytes (eggs) from the ovary undergo a
process of maturation which results in the progression through meiosis to metaphase II of
meiosis. The oocytes then arrest at metaphase If. In metaphase II, the DNA content of the
cell consists of a haploid number of chromosomes, each represented by two chromatids.
[0083] Such oocytes may be maintained indefinitely by cryopreserving by, for example,
but not limited to, microinjection with a sugar.
[0084] In one embodiment, a method for producing human stem cells from a
cryopreserved oocyte or parthenote is provided, including microinjecting into the cytoplasm
of the oocyte or parthenote a cryopreservation agent, freezing the oocyte or parthenote to a
cryogenic temperature to cause it to enteT a dormant state, storing the oocyte or parthenote in
the dormant state, thawing the oocyte OT parthenote, parthenogenically activating the oocyte
under high O2 tension in the presence or an ionophore followed by contacting the oocyte with
a serine—threonine kinase inhibitor under low O2 tension, culturing the activated oocyte or
parthenote until blastocyst formation, isolating an inner cell mass (ICM) from the blastocyst,
and culturing the cells of the ICM on a layer of human feeder cells, where culturing the ICM
cells is carried out under high O2 tension.

[0085] In one aspect, oocytes obtained as described are transferred to modified, isotonic
IVF covered with embryo-tested mineral oil (Sigma), or any other suitable medium. If
desired, the oocytes may be incubated with an extracellular sugar at the same concentration
as the amount planned for microinjection. For example, to inject 0.1 M sugar, oocytes may
be equilibrated in DMEM/F-12 with 0.1 M sugar. In one aspect, the cryopreservation agent
comprises a lower Na+ concentration than standard DMEM (i.e., Na+ low media). In a related
aspect, the cryopreservation agent comprises a higher K+ concentration than standard DMEM
(i.e., K high). In a further related aspect, the cryopreservation agent comprises both a lower
Na+ and higher K+ concentration than standard DMEM (i.e., Na+ low/ K+ high media). In one
aspect, the cryopreservation agent comprises an organic buffer, including but not limited to,
HEPES. In another aspect, the cryopreservation agent comprises moieties that inhibit
apoptotic protein (e.g., capases).
[0086] Alternatively, the oocytes may be optionally equilibrated with any other
substantially non-permeable solute, such a NaCl, to decrease their cell volume prior to
microinjection. This initial decrease in cell volume may result in a smaller final volume of
the microinjected oocytes compared to oocytes not incubated in a hypertonic media prior to
microinjection. This smaller final volume may minimize any potential adverse effect from
the swelling of the oocytes. This general procedure for the preparation of cells for
microinjection may also be used for other cell types (e.g., activated oocytes, hES cells, and
the like).
[0087] The oocytes are then microinjected with a cryopreservation agent. Microinjection
equipment and procedures are well characterized in the art and microinjection equipment
known for use in injecting small molecules into cells may be used with the invention. In an
exemplary microinjection step, oocytes can be microinjected at a pressure of 10 psi for 30
milliseconds. Another example of a standard microinjection technique is the method
described by Nakayama and Yanagimachi (Nature Biotech. 16:639-642, 1998).
[0088] A cryopreservation agent useful in this process includes any chemical that has
cryo-protective properties and is ordinarily non-permeable. In particular, the
cryopreservation agent can include sugars either alone or mixed together v/ith other
traditional cryopreservation agents. Carbohydrate sugars such as trehalose, sucrose, fructose,
and raffinose, may be microinjected to concentrations less than or equal to about 1.0 M, and
more preferably, less than or equal to about 0.4 M. In one aspect, the concentration is

between 0.05 and 0.20 M, inclusive. Additionally, an extracellular sugar or traditional
cryopreservation agent may be added prior to storage. If the cells were incubated in a
hypertonic solution prior to microinjection, the substantially non-permeable solute may be
allowed to remain in the media after microinjection or may be removed from the media by
washing the cells with media containing a lower concentration, or none, of this solute.
[0089] Certain sugars or polysaccharides which ordinarily do not permeate cell
membranes because they are too large to pass through the membrane have superior
physiochemical and biological properties for cryopreservation purposes. While these sugars
oTdinarily do not permeate cell membranes on their own, using the method as described, these
ordinarily non-permeating sugars may be microinjected intracellularly to result in a beneficial
effect.
[0090] Non-permeating sugars having a stabilizing or preserving effect on cells that ate
especially useful as the cryopreservation agent in the present method include sucrose,
trehalose, fructose, dextran, and raffinose. Among these sugars, trehalose, a non-reducing
disaccharide of glucose, has been shown to be exceptionally effective in stabilizing cell
structures at low concentrations. The addition of extracellular glycoVipids or glycoproteins
may also stabilize the cell membrane.
[0091] Following the microinjection of the cryopreservation agent, the cells are prepared
for storage. A variety of methods for freezing and/or drying may be employed to prepare the
cells for storage. In particular, three approaches are described herein: vacuum or air drying,
freeze drying, and freeze-thaw protocols. Drying processes have the advantage that the
stabilized biological material may be transported and stored at ambient temperatures.
[0092] Typically, oocytes loaded with 1 to 2M DMSO are cooled at a very slow cooling
rate (0.3 to 0.5°C/min) to an intermediate temperature (-60°C. to -80°C.) before plunging in
liquid nitrogen for storage. The sample can then be stored at this temperature.
[0093] The suspended material can then be stored at cryopreservation temperatures, for
example, by leaving the vials in liquid nitrogen (LN2), for the desired amount of time.
[0094] Protocols for vacuum or air drying and for freeze drying proteins are well
characterized in the art (Franks et al., "Materials Science and the Production of Shelf-Stable
Biologicals," BioPharm, October 1991, p. 39; Shalaev et al., "Changes in the Physical State
of Model Mixtures during Freezing and Drying: Impact on Product Quality," Cryobiol. 33,

14-26 (1996)) and such protocols may be used to prepare cell suspensions for storage with
the method as described. In addition to air drying, other convective drying methods that may
be used to remove water from cell suspensions include the convective flow of nitrogen or
other gases.
[0095} An exemplary evaporative vacuum drying protocol useful with the method of the
invention may include placing 20ul each into wells on 12 well plates and vacuum drying for
2 hours at ambient temperature. Of course, other drying methods could be used, including
drying the cells in vials. Cells prepared in this manner may be stored dry, and rehydrated by
diluting in DMEM or any other suitable media.
[0096] A method of the invention using freeze drying to prepare the cells for storage
begins with freezing the cell suspension. While methods of freezing known in the art may be
employed, the simple plunge freezing method described herein for the freeze-thaw method
may also be used for the freezing step in the freeze drying protocol.
[0097] After freezing, a two stage drying process may be employed. In the first stage,
energy of sublimation is added to vaporize frozen water. Secondary drying is performed after
the pure crystalline ice in the sample has been sublimated. Freeze dried cells can be stored
and hydrated in the same manner as described above for vacuum drying. Viable cells may
then be recovered.
[0098] After the recovery of cells from a frozen or dried state, any external
cryopreservation agent may be optionally removed from the culture media. For example, the
media may be diluted by the addition of the corresponding media with a lower concentration
of cryopreservation agent. For example, the recovered cells may be incubated for
approximately five minutes in media containing a lower concentration of sugar than that used
for cell storage. For this incubation, the media may contain the same sugar that was used as
the cryopreservation agent; a different cryopreservation agent, such as galactose; or any other
substantially non-permeable solute. To minimize any osmotic shock induced by the decrease
in the osmolarity of the media, the concentration of the extracellular cryopreservation agent
may be slowly decreased by performing this dilution step multiple times, each time with a
lower concentration of cryopreservation agent. These dilution steps may be repeated until
there is no extracellular cryopreservation agent present or until the concentration of
cryopreservation agent or the osmolarity of the media is reduced to a desired level.

[0099] The parthenogenetically activated oocytes, blastocysts, ICM, and autologous stem
cells can be stored or "banked" in a manner mat allows the cells to be revived as needed in
the future. An aliquot of the parthenogenetically activated oocytes and autologous stem cells
can be removed at any time, to be grown into cultures of many undifferentiated cells and then
differentiated into a particular cell type or tissue type, and may then be used to treat a disease
or to replace malfunctioning tissues in a subject. Since the cells are parthenogenetically
derived from the donor, the cells can be stored so that an individual or close relative can have
access to cells for an extended period of time.
[0100] In one embodiment, a cell bank is provided for storing parthenogenetically
activated oocytes, blastocysts, ICM, and/or autologous stem cell samples. In another
embodiment, methods for administering such a cell bank are provided. U.S. Published Patent
Application No. 20030215942, which is incorporated by reference herein in its entirety,
provides an example of a stem cell bank system.
[0101] Using methods such as those described above, the isolation and in vitro
propagation of parthenogenetically activated oocytes, blastocysts, ICM, and autologous stem
cell samples and their cryopreservation facilitates the establishment of a "bank" of
transplantable human stem cells. Because it is possible to store smaller aliquots of cells, the
banking procedure could take up a relatively small space. Therefore, the cells of many
individuals could be stored or "banked" on a short term or long term basis, with relatively
little expense.
[0102] In one embodiment, a portion of the sample is made available for testing, either
before or after processing and storage.
[0103] This invention also provides methods of recording or indexing the
parthenogenetically activated oocyte, blastocyst, ICM, and/or autologous stem cell samples
so that when a sample needs to be located, it can be easily retrieved. Any indexing and
retrieval system can be used to fulfill this purpose. Any suitable type of storage system can
be used so that the parthenogenetically activated oocytes, blastocysts, ICM, and/or
autologous stem cells can be stored. The samples can be designed to store individual
samples, or can be designed to store hundreds, thousands, and even millions of different cell
samples.

[0104] The stored parthenogenetically activated oocyte, blastocyst, ICM, and/or •
autologous stem cell samples can be indexed for reliable and accurate retrieval. For example,
each sample can be marked with alphanumeric codes, bar codes, or any other method or
combinations thereof. There may also be an accessible and readable listing of information
enabling identification of each parthenogenetically activated oocyte, blastocyst, ICM, and/or
autologous stem cell sample and its location in the bank and enabling identification of the
source and/or type the cell sample, which is outside of the bank. This indexing system can be
managed in any way known in the art, e.g., manually or non-manually, e.g. a computer and
conventional software can be used.
[0105] In one embodiment, the cell samples are organized using an indexing system so
that the sample will be available for the donor's use whenever needed. In other embodiments,
the cell samples can be utilized by individuals related to the original donor. Once recorded
into the indexing system, the cell sample can be made available for matching purposes, e.g., a
matching program will identify an individual with matching type information and the
individual will have the option of being provided the matching sample.
[0106] The storage banking system can comprise a system for storing a plurality of
records associated with a plurality of individuals and a plurality of cell samples. Each record
may contain type information, genotypic information or phenotypic information associated
with the cell samples or specific individuals. In one embodiment, the system will include a
cross-match table that matches types of the samples with types of individuals who wish to
receive a sample.
[0107] In one embodiment, the database system stores information for each
parthenogenetically activated oocyte, blastocyst, ICM, and/or autologous stem cell sample in
the bank. Certain information is stored in association with each sample. The information may
be associated with a particular donor, for example, an identification of the donor and the
donor's medical history. For example, each sample may be HLA typed and the HI A type
information may he stored in association with each sample. The information stored may also
be availability information. The information stored with each sample is searchable and
identifies the sample in such a way that it can be located and supplied to the client
immediately.
[0108] Accordingly, embodiments of the invention utilize computer-based systems that
contain information such as the donor, date of submission, type of cells submitted, types of
cell surface markers present, genetic information relating to the donor, or other pertinent
information, and storage details such as maintenance records and the location of the stored
samples, and other useful information.
10109] The term "a computer-based system" refers to the hardware, software, and any
database used to store, search, and retrieve information about the stored cells. The computer-
based system preferably includes the storage media described above, and a processor for
accessing and manipulating the data. The hardware of the computer-based systems of this
embodiment comprises a central processing unit (CPU) and a database. A skilled artisan can
readily appreciate that any one of the currently available computer-based systems are
suitable.
[0110] In one embodiment, the computer system includes a processor connected to a bus
that is connected to a main memory (preferably implemented as RAM) and a variety of
secondary storage devices, such as a hard drive and removable medium storage device. The
removable medium storage device can represent, for example, a floppy disk drive, a DVD
drive, an optical disk drive, a compact disk drive, a magnetic tape drive, etc. A removable
storage medium, such as a floppy disk, a compact disk, a magnetic tape, etc. containing
control logic and/or data recorded therein can be inserted into the removable storage device.
The computer system includes appropriate software for reading the control logic and/or the
data from the removable medium storage device once inserted in the removable medium
storage device. Information relating to the parthenogenetically activated oocyte, blastocyst,
ICM, and/or autologous stem cell can be stored in a well known manner in the main memory,
any of the secondary storage devices, and/or a removable storage medium, Software for
accessing and processing these data (such as search tools, compare tools, etc.) reside in main
memory during execution.
[0111] As used herein, "a database" refers to memory that can store any useful
information relating to the parthenogenetically activated oocyte and/or autologous stem cell
collections and the donors.
[0112] The data relating to the stored parthenogenetically activated oocyte, blastocyst,
ICM, and/or autologous stem cell can be stored and manipulated in a variety of data
processor programs in a variety of formats. For example, the data can be stored as text in a
word processing file, such as Microsoft WORD or WORDPERFECT, an ASCII file, an html

file, or a pdf file in a variety of database programs familiar to those of skill in the art, such as
DB2, SYBASE, or ORACLE.
{0113) A "search program" refers to one or more programs that are implemented on the
computer-based system to search for details or compare information relating to the
cryopreserved samples within a database. A "retrieval program" refers to one or more
programs that can be implemented on the computer-based system to identify parameters of
interest in the database. For example, a retrieval program can be used to find samples that fit
a particular profile, samples having specific markers or DNA sequences, or to find the
location of samples corresponding to particular individuals.
[0114] There is no upper limit on the number of cell samples that can be stored in one cell
bank. In one embodiment, hundreds of products from different individuals will be stored at
one bank or storage facility. In another embodiment, up to millions of products may be stored
in one storage facility. A single storage facility may be used to store parthenogenetically
activated oocyte and/or autologous stem cell samples, or multiple storage facilities may be
used.
[0115] In some embodiments of the present invention, the storage facility may have a
means for any method of organizing and indexing the stored cell samples, such as, for
example, automated robotic retrieval mechanisms and cell sample manipulation mechanisms.
The facility may include micromanipulation devices for processing cell samples. Known
conventional technologies can be used for efficient storage and retrieval of the cell samples.
Exemplary technologies include but are not limited to Machine Vision, Robotics, Automated
Guided Vehicle System,. Automated Storage and Retrieval Systems, Computer Integrated
Manufacturing, Computer Aided Process Planning, Statistical Process Control, and the like.
[0116] The type information or other information associated with the individual in need of
a sample may be recorded into a system that can be used to identify an appropriate matching
product, such as, for example, a database system, an indexing system, and the like. Once
recorded in the system, a match can be made between the type of the individual and a donor
cell sample. In preferred embodiments, the donor sample is from tire same individual as the
individual in need of the sample. However, similar but not identical donor/recipient matches
can also be used. The matching sample is available for the individual possessing the
matching type identifier. In one embodiment of this invention, the individual's identification
information is stored in connection with the cell sample. In some embodiments, the matching

process occurs around the time of harvesting the sample, or can occur at any time during
processing, storage, or when a need arises. Accordingly, in some embodiments of the
invention, the matching process occurs before the individual is in actual need of the cell
sample.
[0117] When the parthenogenetically activated oocyte, blastocyst, ICM, and/or autologous
stem cell sample is needed by an individual, it may be retrieved and made available for
research, transplantation or other purposes within minutes, if desired. The sample may also be
further processed to prepare it for transplantation or other needs.
[0118] Normally, the oocyte is ovulated at this stage and fertilized by the sperm. The
sperm initiates the completion of meiosis in a process called activation. During activation,
the pairs of chromatids separate, the second polar body is extruded, and the oocyte retains a
haploid number of chromosomes, each with one chromatid. The sperm contributes the other
haploid complement of chromosomes to make a full diploid cell with single chromatids. The
chromosomes then progress through DNA synthesis during the first cell cycle. These cells
then develop into embryos.
[0119] By contrast, embryos described herein are developed by artificial activation of
cells, typically mammalian oocytes or blastomeres containing DNA of all male or female
origin. As discussed in the background of the invention, many methods have been reported in
the literature for artificial activation of unfertilized oocytes. Such methods include physical
methods, e.g., mechanical methods such as pricking, manipulation or oocytes in culture,
thermal methods such as cooling and heating, repeated electric pulses, enzymatic treatments,
such as trypsin, pronase, hyaluronidase, osmotic treatments, ionic treatments such as with
divalent cations and calcium ionophores, such as ionomycin and A23187, the use of
anesthetics such as ether, ethanol, tetracaine, lignocaine, procaine, phenothiazine,
tranquilizers such as thioridazine, trifluoperazine, fluphenazine, chlorpromazine, the use of
protein synthesis inhibitors such as cycloheximide, puromycin, the use of phosphorylation
inhibitors, e.g., protein kinase inhibitors such as staurosporine, 2-aminopurine, sphingosine,
and DMAP, combinations thereof, as well as other methods.
[0120] Such activation methods are well known in the art and are discussed U.S. Pat. No.
5,945,577, incorporated herein by reference.

10121] In one embodiment, a human cell in metaphase II, typically an oocyte or
blastomere comprising DNA of all male or female origin, is artificially activated for effecting
artificial activation of oocytes.
[0122] In a related aspect, the activated cell, e.g., oocyte, which is diploid, is allowed to
develop into an embryo that comprises a trophectoderm and an inner cell mass. This can be
effected using known methods and culture media that facilitate blastocyst development.
[0123] After the gynogenetic embryos have been cultured to produce a discemable
trophectoderm and inner cell mass, the cells of the inner cell mass are then used to produce
the desired pluripotent cell lines. This can be accomplished by transferring cells derived
from the inner cell mass or the entire inner cell mass onto a culture that inhibits
differentiation. This can be effected by transferring the inner cell mass cells onto a feeder
layer that inhibits differentiation, e.g., fibroblasts or epithelial cells, such as fibroblasts
derived from postnatal human tissues, etc., or other cells that produce LIF. Other
factors/components may be employed to provide appropriate culture conditions for
maintaining cells in the undifferentiated state including, but not limited to, addition of
conditioned media (Amit et al., Developmental Biol (2000) 227:271-278), bFGF and TGF-ßl
(with or without LIF) (Amit et al., Biol Reprod (2004) 70:837-845), factors which activate
the gpl30/STAT3 pathway (Hoffman and Carpenter, Nature Biotech (2005) 23(6):699-708),
factors which activate the PDK/Akt, PKB pathway (Kim et al., FEBS Lett (2005) 579:534-
540), factors that are members of the bone morphogenetic protein (BMP) super family
(Hoffman and Carpenter (2005), supra), and factors which activate the canonical/p-catenin
Wnt signaling pathway (e.g., GSK-3-specific inhibitor; Sato et al„ Nat Med (2004) 10:55-
63). In a related aspect, such factors may comprise culture conditions that include feeder
cells and/or ECM substrates (Hoffman and Carpenter (2005), supra).
[0124] In one aspect, the inneT cell mass cells are cultured on human postnatal foreskin or
dermal fibroblast cells or other cells which produce leukemia inhibitory factor, or in the
presence of leukemia inhibitory factor. In a related aspect, feeder cells are inactivated prior
to seeding with the ICM. For example, the feeder cells can be mitotically inactivated using
an antibiotic. In a related aspect, the antibiotic can be, but is not limited to, mitomycin C.
[0125] Culturing will be effected under conditions that maintain the cells in an
undifferentiated, pluripotent state, for prolonged periods, theoretically indefinitely. In one
embodiment, oocytes are parthenogenically activated with calcium ionophores under high O2

tension followed by contacting the oocytes with a serine-threonine kinase inhibitor under low
O2 tension. The resulting ICM from the parthenogenically activated oocytes is cultured under
high O2 tension, where the cells, for example, are maintained using a gas mixture comprising
20% O2. In one aspect, culturable refers to being capable of, or fit for, being cultivated. In a
related aspect, ICM isolation is carried out mechanically after four days of blastocyst
cultivation, where the cultivation is carried out on feeder cells. Such cultivation, for example,
eliminates the need to use materials derived from animal sources, as would be the case for
immunosurgery.
[0126] In a related aspect, culture media for the ICM is supplemented with non-animal
sera, including but not limited to, human umbilical cord serum, where the serum is present in
defined media (e.g., IVF, available from MediCuIt A/S, Denmark; Vitrolife, Sweden; or
Zander IVF, Inc., Vero Beach, FL). In another aspect, the media and processes as provided
are free of animal products. In a related aspect, animal products are those products, including
serum, interferons, chemokines, cytokines, hormones, and growth factors, that are from non-
human sources.
[0127] The pluripotent state of the cells produced by the present invention can be
confirmed by various methods. For example, the cells can be tested for the presence or
absence of characteristic ES cell markers. In the case of human ES cells, examples of such
markers are identified supra, and include SSEA-4, SSEA-3, TRA-1-60, TRA-1-81 and OCT
4, and are known in the art.
[0128] Also, pluripotency can be confirmed by injecting the cells into a suitable animal,
e.g., a SCID mouse, and observing the production of differentiated cells and tissues. Still
another method of confirming pluripotency is using the subject pluripotent cells to generate
chimeric animals and observing the contribution of the introduced cells to different cell types.
Methods for producing chimeric animals are well known in the art and are described in U.S.
Pat. No. 6,642,433, incorporated by reference herein.
[0129] Yet another method of confirming pluripotency is to observe ES cell differentiation
into embryoid bodies and other differentiated cell types when cultured under conditions that
favor differentiation (e.g., removal of fibroblast feeder layers). This method has been utilized
and it has been confirmed that the subject pluripotent cells give rise to embryoid bodies and
different differentiated cell types in tissue culture.

[0130] The resultant pluripotent cells and cell lines, preferably human pluripotent cells
and cell lines, which are derived from DNA of entirely female original, have numerous
therapeutic and diagnostic applications. Such pluripotent cells may be used for cell
transplantation therapies or gene therapy (if genetically modified) in the treatment of
numerous disease conditions.
10131] In this regard, it is known that mouse embryonic stem (ES) cells are capable of
differentiating into almost any cell type. Therefore, human pluripotent (ES) cells produced
according to the invention should possess similar differentiation capacity. The pluripotent
cells according to the invention will be induced to differentiate to obtain the desired cell types
according to known methods. For example, human ES cells produced according to the
invention may be induced to differentiate into hematopoietic stem cells, muscle cells, cardiac
muscle cells, liver cells, islet cells, retinal cells, cartilage cells, epithelial cells, urinary tract
cells, etc., by culturing such cells in differentiation medium and under conditions which
provide for cell differentiation. Medium and methods which result in the differentiation of
ES cells are known in the art as are suitable culturing conditions.
[0132] For example, Palacios et al, Proc. Natl. Acad. Sci., USA, 92:7530-7537 (1995)
teach the production of hematopoietic stem cells from an embryonic cell line by subjecting
stem cells to an induction procedure comprising initially culturing aggregates of such cells in
a suspension culture medium lacking retinoic acid followed by culturing in the same medium
containing retinoic acid, followed by transferal of cell aggregates to a substrate which
provides for cell attachment.
[0133] Moreover, Pedersen, J. Reprod. Fertil. Dev., 6:543-552 (1994) is a review article
which references numerous articles disclosing methods for in vitro differentiation of
embryonic stem cells to produce various differentiated cell types including hematopoietic
cells, muscle, cardiac muscle, nerve cells, among others.
[0134] Further, Bain et al, Dev. Biol, 168:342-357 (1995) teach in vitro differentiation of
embryonic stem cells to produce neural cells which possess neuronal properties. These
references are exemplary of reported methods for obtaining differentiated cells from
embryonic or stem cells. These references and in particular the disclosures therein relating to
methods for differentiating embryonic stem cells are incorporated by reference in their
entirety herein. Thus, using known methods and culture medium, one skilled in the art may
culture the subject ES cells, including genetically engineered or transgenic ES cells, to obtain

desired differentiated cell types, e.g., neural cells, muscle cells, hematopoietic cells, etc.
Pluripotent cells produced by the methods described herein may be used to obtain any desired
differentiated cell type. Therapeutic usages of differentiated human cells are unparalleled.
For example, human hematopoietic stem cells may be used in medical treatments requiring
bone marrow transplantation. Such procedures are used to treat many diseases, e.g., late
stage cancers such as ovarian cancer and leukemia, as well as diseases that compromise the
immune system, such as AIDS. Hematopoietic stem cells can be obtained, e.g., by
incorporating male or female DNA derived from a male or female cancer or AIDS patient
with an enucleated oocyte, obtaining pluripotent cells as described above, Eind culturing such
cells under conditions which favor differentiation, until hematopoietic stem cells are
obtained. Such hematopoietic cells may be used in the treatment of diseases including cancer
and AIDS.
[0135] Alternatively, the subject pluripotent cells may be used to treat a patient with a
neurological disorder by culturing such cells under differentiation conditions that produce
neural cell lines. Specific diseases treatable by transplantation of such human neural cells
include, by way of example, Parkinson's disease, Alzheimer's disease, ALS and cerebral
palsy, among others. In the specific case of Parkinson's disease, it has been demonstrated that
transplanted fetal brain neural cells make the proper connections with surrounding cells and
produce dopamine. This can result in long-term reversal of Parkinson's disease symptoms.
In a related aspect, nerve precursors can be used to reanneal severed/damaged nerve fibers to
restore movement after hand, leg, and spinal cord injuries.
[0136] One object of the subject invention is that it provides an essentially limitless supply
of pluripotent, human cells that can be used to produce differentiated cells suitable for
autologous transplantation for the oocyte donor. Human embryonic stem cells and their
differentiated progeny derived from blastocysts remaining after infertility treatments, or
created using NT, will likely be rejected by a recipient's immune system when used in
allogenic cell transplantation therapy. Parthenogenically derived stem cells should result in
differentiated cells that could alleviate the significant problem associated with current
transplantation methods, i.e., rejection of the transplanted tissue which may occur because of
host-vs-graft or graft-vs-host rejection relative to the oocyte donor. Conventionally, rejection
is prevented or reduced by the administration of anti-rejection drugs such as cyclosporin.
However, such drugs have significant adverse side-effects, e.g., immunosuppression,
carcinogenic properties, as well as being very expensive. Cells produced by the methods as

disclosed should eliminate, or at least greatly reduce, the need for anti-rejection drugs relative
to the oocyte donor.
10137] Another object of the subject invention is that it provides an essentially limitless
supply of pluripotent, human cells that can be used to produce differentiated cells suitable for
allogenic transplantation to members of the oocyte donor's family (e.g., siblings). The cells
will be immunologically and genetically similar to those of the oocytes donor's direct family
members and thus less likely to be rejected by the donor's family members.
[0138] Another object of this method is that parthenogenic activation of mammalian
oocytes is a relatively simple procedure when compared to SCNT and results in the creation
of stem cells with less cell manipulation.
[0139] Parthenogenic activation of mammalian oocytes has shown to be more efficient in
the creation of stem cells than methods requiring mechanical manipulation of the oocyte (e.g.,
SCNT).
[0140] One drawback of SCNT is that subjects with deficient mitochondrial respiratory
chain activity present phenotypes with striking similarities to abnormalities commonly
encountered in SCNT fetuses and offspring (Hiendleder et al, Repro Fertil Dev (2005) 17(1-
2):69-83). Cells normally contain only one type of mitochondrial DNA (mtDNA), termed
homoplasmy, however, heteroplasmy does exist, usually as a combination of mutant and
wild-type mt DNA molecules or form a combination of wild-type variants (Spikings et al.,
Hum Repro Update (2006) 12(4):401-415). As heteroplasmy can result in mitochondrial
disease, various mechanisms exist to ensure maternal-only transmission. However, with the
increasing use of protocols which bypass normal mechanisms for homoplasmy maintenance
(e.g., cytoplasmic transfer (CT) and SCNT), perturbed mitochondrial function may be
intrinsic to stem cells derived from these sources.
[0141] In one aspect, as the parthenotes are uniparental, the possibility of heteroplasmy is
minimized.
[0142] Other diseases and conditions treatable by cell therapy include, by way of example,
spinal cord injuries, multiple sclerosis, muscular dystrophy, diabetes, liver diseases Including
acute diseases (viral hepatitis, drug overdoses (acetaminophen) and others), chronic diseases
(chronic hepatitis and others (generally leading to cirrhosis)), heritable liver defects
(hemophilia B, factor IX deficiency, bulirubin metabolism defects, urea cycle defects,

lysosomal storage disease, al -antitrypsin deficiency and others), heart diseases, cartilage
replacement, burns, foot ulcers, gastrointestinal diseases, vascular diseases, kidney disease,
retinal disease, urinary tract disease, and aging related diseases and conditions.
[0143} This methodology can be used to replace defective genes, e.g., defective immune
system genes, cystic fibrosis genes, or to introduce genes which result in the expression of
therapeutically beneficial proteins such as growth factors, lymphokines, cytokines, enzymes,
etc.
[0144] For example, the gene encoding brain derived growth factor may be introduced
into human pluripotent cells produced according to the invention, the cells differentiated into
neural cells and the cells transplanted into a Parkinson's patient to retard the loss of neural
cells during such disease,
[0145] Also, the subject pluripotent human ES cells, may be used as an in vitro model of
differentiation, in particular for the study of genes which are involved in the regulation of
early development Also, differentiated cell tissues and organs produced using the subject ES
cells may be used in drug studies.
[0146] Further, the subject ES cells or differentiated cells derived therefrom may he used
as nuclear donors for the production of other ES cells and cell colonies.
[0147] Still further, pluripotent cells obtained according to the present disclosure may be
used to identify proteins and genes that are involved in embryogenesis. This can be effected,
e.g., by differential expression, i.e., by comparing mRNAs that are expressed in pluripotent
cells provided according to the invention to mRNAs that are expressed as these cells
differentiate into different cell types, e.g., neural cells, myocardiocytes, other muscle cells,
skin cells, etc. Thereby, it may be possible to determine what genes are involved in
differentiation of specific cell types.
[0148] Further, ES cells and/or their differentiated progeny that have specific genetic
defects, such as the genetic defect that leads to Duchene's Muscular Dystrophy, may be used
as models to study the specific disease associated with the genetic defect.
[0149] Also, it is another object of the present disclosure to expose pluripotent cell lines
produced according to the described methods to cocktails of different growth factors, at
different concentrations and under different cell culture conditions such as cultured on

different cell matrices or under different partial pressures of gases so as to identify conditions
that induce the production and proliferation of desired differentiated cell types.
[0150] The following examples are intended to illustrate but not limit the invention.
EXAMPLE 1
Production of Human Parthenogenic Embryogenic Stem Cells
[0151] Materials and Methods
[0152] Donors voluntarily donated oocytes, cumulous cells, and blood (for DNA analysis)
with no financial payment. Donors signed comprehensive informed consent documents and
were informed that all donated materials were to be used for research and not for
reproductive purposes. Before ovarian stimulation, oocyte donors underwent medical
examination for suitability according to FDA eligibility determination guidelines for donors
of human cells, tissues, and cellular and tissue-based products (Food and Drug
Administration. (Draft) Guidance for Industry: Eligibility Determination for Donors of
Human Cells, Tissues, and Cellular and Tissue Based Products (HCT/Ps) dated May 2004)
and order N 67 (02.26.03) of Russian Public Health Ministry. It included X-ray, blood and
urine analysis, and liver function test. Donors were also screened for syphilis, HIV, HBV,
and HCV.
[0153] Oocytes were obtained using standard hormonal stimulation to produce
superovulation in the subject donor. Each donor egg underwent ovarian stimulation by FSH
from the 3rd to the 13th days of their menstrual cycle. A total of 1500IU of FSh was given.
From the 10th to the 14th day of the donor's menstrual cycle, gonadoliberin antagonist
Orgalutran (Organon, Holland) was injected at 0.25 mg/day. From the 12th to the 14th day
of the donor's menstrual cycle a daily injection of 75IU FSH + 75IU LH (Menopur, Ferring
GmbH, Germany( was given, If an ultrasound examination displayed follicles between 18
and 20mm in diameter, a single 8000IU dose of hGC (Choragon, Ferring GmbH, Germany)
was administered on the 14th day of the donor's menstrual cycle. Trans-vaginal punction
was performed 35 hours after hCG injection on approximately the 16th day. Follicular fluid
was collected from the antral follicles of anesthetized donors by ultrasound-guided needle
aspiration into sterile tubes.
[0154] Cumulus oocyte complexes (COCs) were picked from the follicular fluid, washed
in Flushing Medium (MediCult) and then incubated in Universal IVF medium (MediCult, see
Table 1) with a Liquid Paraffin (MediCult) overlay for 2 hours in a 20% 02, 5% C02, at
37°C humidified atmosphere.
(Table-Removed)
[0155] Before activation, cumulus-oocyte complexes (COCs) were treated with SynVitro
Hyadase (MediCult, A/S, Denmark) to remove cumulus cells followed by incubation in
Universal IVF medium with a paraffin overlay for 30 minutes.
[0156] From this point onward, the culture of oocytes and embryos was performed in a
humidified atmosphere at 37°C using Oa-reduced gas mixture (90% N2 + 5% O2 + 5% CO2),
with the exception of the ionomycin treatment. The oocytes were activated by incubation in

5 uM ionomycin for 5 minutes in a C02 incubator at 37°C in a gas environment of 20% 02,
5% C02, followed by culture with 1 mM 6-dimethylaminopurine (DMAP) for 4 hours in IVF
medium, with paraffin overlay, in a gas environment of 90% N2, 5% 02, and 5% C02 at
37°C. The oocytes were then washed 3 times in IVF. Activation and cultivation were carried
out in 4-well plates (Nunclon, A/S, Denmark) in 500 µl of medium overlaid with liquid
paraffin oil (MediCult, A/S, Denmark).
[0157] Activated oocytes were cultivated in IVF medium in a gas environment comprising
5% 02, 5% C02, and 90% N2, and embryos generated from the activated oocytes were
cultured in the same gas mixture.
[0158J Activated oocytes were allowed to incubate in IVF under the above conditions
(i.e., low 02 tension) until fully expanded blastocysts containing an inner cell mass (ICM) at
a Blastocyst Scoring Modification of 1AA or 2AA (Shady Grove Fertility Center, Rockville,
MD, and Georgia Reproductive Specialists, Atlanta, GA) was observed.
[0159] The zona pellucida was removed by 0.5% pronase (Sigma, St. Louis) treatment.
The ICM from blastocysts was isolated by immuno-surgery where the blastocysts were
incubated with horse antiserum to human spleen cells followed by exposure to guinea pig
complement. Trophoectodern cells were removed from the ICM by gently pipetting the
treated blastocysts.
[0160] For the derivation of ICM from whole blastocysts, the blastocysts were placed on a
feeder layer in medium designed for culture of phESC (i.e., VitroHES™ media (e.g.,
DMEM/high glucose medium, VitroLife, Sweden) supplemented with 10% human umbilical
cord blood serum, 5 ng/ml human recombinant LIF (Chemicon Int'l, Inc., Temecula, CA), 4
ng/ml recombinant human FGF (Chemicon Int'l, Inc., Temecula, CA) and penicillin-
streptomycin (lOOU/lOOug)). When blastocysts attached and trophoplast cells spread, the
ICM became visible. Through three to four days of additional culture, the ICM was isolated
through mechanical slicing of the ICM from the trophoectoderm outgrowth using a finely
drawn glass pipette. Further, the IMC cells were cultured on a feeder cell layer of mitotically
inactivated post natal human dermal fibroblasts, in VirtroHES™ media (as formulated above)
in a 96-well plate in 5% C02 and 20% 02 at 37°C. This gas mixture was used to culture stem
cells. Human fibroblast cultures were made using non-animal materials. Inactivation of
fibroblasts was carried out using 10 ug/ml mitomycin C (Sigma, St. Louis, MO) for 3 hours.

10161} In a separate method, immuno-surgery was performed by incubating blastocysts
with horse antiserum to human spleen cells followed by exposure to rabbit complement. The
trophectoderm cells were removed from the ICM through gentle pipetting of the treated
blastocyts. Further culturing of the isolated ICMs was performed on a feeder layer of
neonatal human skin fibroblasts (HSF) obtained from a genetically unrelated individual (with
parental consent) derived using medium containing human umbilical cord blood serum. The
HSF feeder layer was mitotically inactivated using mitomycin C.
[0162] The medium for the culture of HSF consisted of 90% DMEM (high glucose, with
L-glutamaine (Invitrogen), 10% human umbilical cord blood serum and penicillin-
streptomycin dlOOU/lOOmg) Invitrogen).
[0163] For the culture of ICM and phESC, VitroHES™ (Vitrolife) supplemented with
4ng/ml hrbFGF, 5ng/ml hrLIF and 10% human umbilical cord blood serum was used. The
ICM was mechanically plated on a fresh feeder layer and cultured for three to four days. The
first colony was mechanically cut and replated after five days of culture. All subsequent
passages were made after five to six days in culture. For early passages, colonies were
mechanically divided into clumps and replated. Further passing of phESC was performed
with collagenase IV treatment and mechanical dissociation. The propagation of phESC was
performed at 37°C, 5% CO2 in a humidified atmosphere.
[0164] Oocyte activation
[0165] From the initial donor, four oocytes were activated, and the activated oocytes were
cultivated in IVF medium in a gas environment comprising 5% O2, 5% CO2, and 90% N2 and
followed over five (5) days. Table 2 shows the progress of maturation of the activated
oocytes. Each oocyte was separated in a 4-well plate.
Table 2. Cultured Activated Oocytes.*

(Table-Removed)

♦Cells were incubfitid in Ml™ media (MediCult) on the first day and M2™ media (MediCult) on days 2-5. Media was
changed everyday. Ml™ and M2™ contain human serum albumin, glucose and derived metabolites, physiological salts,
essential amino acids, non-essential amino acids, vitamins, nucleotides, sodium bicarbonate, streptomycin (40 mg/1),
penicillin (40.000 IU/1) and phenol red.
[0166] Inner cell masses were isolated from N4 and transferred to human fibroblast feeder
cells as outlined above. Nl and N2 degenerated on Day 6. Further, on Day 6, N3 produced
fully expanded blastocyst with ICM 2AB. N3 was then transferred to human fibroblast
feeder cells on Day 6. ICM from N4 was unchanged. N3 was used to isolate stem cells.
10167] ICM cells were cultivated in VitroIIES™ medium in a gas environment
comprising 5% CO2, and 95% N2 and followed over forty-five (45) days. Table 2a shows the
progress of N3 ICM cell cultivation.

(Table-Removed)
(0168] Stem cell isolation.
[0169] From the oocytes from 5 donors, the use of MediCult media followed by a culture
under reduced oxygen allowed for the production of 23 blastocysts on the fifth or sixth day of
culture. Eleven of the blastocysts had visible ICMs (Table 3).

Table 3. Generation of Parthenotes and Parthenogenetie Embryonic Stem Cell Lines.

(Table-Removed)
[0170] These results indicate an approximate 57.5% success rate in the formation of
blastocysts from parthenogenetically activated oocytes.
[0171] Immunohistochemical staining
[0172] For immunostaining, hES cell colonies and phESC cells on feeder layers were
seeded onto micro cover glass, washed twice with PBS and fixed with 100% methanol for 5
minutes at -20°C. Cells were washed twice with PBS + 0.05% Tween-20 and permeabilized
with PBS + 0.1% Triton X-100 for 10 minutes at room temperature. After cell washing,
non-specific binding was blocked by incubation with blocking solution (PBS + 0.05%
Tween-20 + four percent goat serum plus three percent human umbilical cord blood serum)
for 30 minutes at room temperature (RT). Monoclonal antibodies were diluted in blocking
solution and used for one hour at RT: SSEA-1 (MAJ34301) (1:30), SSEA-3 (MAB4303)
(1:1.0), SSEA-4 (MAB4304) (1:50), OCT-4 (MAB4305) (1:30), TRA-1-60 (MAB4360)
(1:50), and TRA-1-81 (MAB4381) (1:50) from Chemicon. After the cells were washed,
secondary antibodies Alexa Fluor 546 (orange-fluorescent) and 488 (green-fluorescent)
(Molecular Probes, Invitrogen) were diluted 1:1000 in PBS + 0.05% Tween-20 and applied
for one hour at RT. Cells were washed and nuclei were stained with DAPI (Sigma) O.lµg/ml
in PBS + 0.05% Tween-20 during ten minutes at RT. Cells were washed and mounted on
slides with Mowiol (Catbiochem). Fluorescence images were visualized with a fluorescence
microscope.

[0173] For the detection of mesodermal markers in three week old embryoid bodies or in
contractile embryoid bodies, monoclonal mouse anti-desmina antibody anti-human alpha
actinin antibody (Chemicon) as the muscle specific markers, and anti-human CD31/PECAM-
1 antibody (R&D Systems), antihuman VE Cadherin (DC144) antibody (R&D Systems) as
the endothelial markers were used.
[0174] For detection of the endodermal markers in embryoid bodies, monoclonal mouse
anti-human alpha-fetoprotein antibody (R&D Systems) was used.
[0175] Alkaline phosphatase and telomerase activity
[0176] Alkaline phosphatase and telomerase activity were performed according to the
manufacturer's specifications with AP kit and TRAPEZE™ Kit (Chemicon).
]0177] Karyotyping
[0178] To analyse the karyotype, hES cells were treated with 10µ.g/ml Demecolcine
(Sigma) for two hours, harvested with 0.05% trypsin/EDTA (Invitrogen) and centrifuged at
700 x rpm for three minutes. The pellet was resuspended in 5 ml of 0.56% KC1, and
incubated for 15 minutes at RT. After repeated centrifugation, the supernatant was removed
and cells were resuspended and fixed with 5 ml of an ice cold mixture of mefhanol/acetic acid
(3:1) for five minutes at+4°C. The fixation of the cells was repeated twice, after that the cell
suspension was placed onto microscope slides and the preparations weTe stained with Giemsa
Modified Stain (Sigma). Metaphases from cells prepared in this manner were analyzed by a
standard G-banding method. Quantity of 5/1000 metaphase spreads were revealed and 63
metaphases were analyzed.
10179] Embryoid body formation
[0180] hES and phESC cell colonies were mechanically divided into clumps and placed in
wells of a 24 well plate precoated with 1.5% agarose (Sigma) in medium containing 85%
Knockout DMEM, 15% human umbilical cord blood serum, 1 x MEM NEAA, 1 mM
Glutamax, 0.055 mM p-mercaptoethanol, penicillin-streptomycin (50 U/50 mg), 4 ng/ml
hrbFGF (all from Invitrogen, except serum). Human EBs were cultured for 14 days in
suspension culture and placed on a culture dish to give outgrowth or cultivated in suspension
for an additional week.

[0181] Neural differentiation was induced by the cultivation of two week old embryoid
bodies attached to a culture dish surface over a period of a week in differentiation medium:
DMEM/F12, B27,2 mM Glutamax,penicillin-streptomycin (lOOU/lOOug) and 20 ng/ml
hrbFGF (all from Invitrogen). Some embryoid bodies gave rise to differentiated cells with
neural morphology, others were dissected and additionally cultured to produce neurospheres.
[0182] Rhythmically beating embryoid bodies appeared spontaneously following five
days of culture after plating on an adhesive surface in the same medium as was used for
embryoid body generation.
[0183] HLA typing
[0184] Genomic DNA was extracted from donor blood, hES, phESC cells, and human
newborn skin fibroblasts (NSFs) with Dynabeads DNA Direct Blood from Dynal
(Invitrogen). HLA typing was performed by PCR with allele-specific sequencing primers
(PCR-SSP, Protrans) according to the manufacturer's specifications. HLA class I genes
(HLA A*,B*,Cw*) were typed with PROTRANS HLA A* B* Cw* defining A*01 -A*80,
B*07-B*83, Cw*01-Cw* 18 regions. HLA class H genes (HLA DRB1*, DRB3*, DRB4*,
DRB5*. DQA1*. DQB1*) were analysed with PROTRANS HLA DRB1* defining
DRB1*01-DRB1*16 (DR1-DR18), DRB3*. DRB4*. DRB5* regions and PROTRANS HLA
DQB1* DQA1* defining DQB1*02- DQB1*06 (DQ2-DQ9), DQA1*0101-DQA1*0601
regions. PCR amplification was achieved: at 94°C for 2 min; 10 cycles at 94°C for 10 sec,
65°C for 1 min; 20 cycles at 94°C for 10 sec, 61°C for 50 sec, 72°C for 30 sec. Amplified
products were detected in 2% agarose gel.
[0185] Affimetrix SNP microarray analysis
[0186] Genomic DNA was isolated from blood, cumulus cells, phESC and NSF by
phenol/chloroform extraction method. These DNA samples obtained from four Caucasian
subjects were genotyped with Affimetrix Mapping 50K Hind 240 Array (part of Affimetrix
GeneChip Mapping 100K kit). Initially, the dataset contained 57,244 binary SNP markers.
Since the number of markers is more than would be necessary to identify the equivalency of
genomic samples and to study heterozygosity, 15 (chromosomes 1-15) out of 22 autosomal
chromosomes were chosen. The shorter seven chromosomes were removed to reduce the
chance that no marker, or only a single marker for a given chromosome, is selected during
random sampling. The 1,459 markers were analyzed by Relcheck (version 0.67, Copyright ©

2000 Karl W. Broman, Johns Hopkins University, Licensed under GNU General Public
License version 2 (June 1991)).
[0187] Genomic imprinting analysis
[0188] Total nucleic acid was prepared as described Li et al. (J Biol Chem (2002)
277(16):13518-13527). RNA and DNA were extracted from cells using Tri-reagent (Sigma)
or by using an RNA preparation kit from Qiagen (Valencia, CA).
[0189] Northern blots containing RNA from the various samples (see FIG. 3) were blotted
onto filters by standard methods (See, e.g., Sambrook et al, Molecular Cloning: A
Laboratory Manual, 1989, 2nd ed, Cold Spring Harbor Press). The Northern filter was
hybridized with single stranded oligonucleotide probes that hybridized specifically to the
rnRNAs. The oligonucleotide probes were end-labeled with [y32P]ATP (AmeTsham
Biosciences). The filters were subsequently washed three times for 10 min each with 0.2 X
SSC (1 X SSC = 0.15 MNaCl and 0.015 M sodium citrate) containing 0.1% SDS at 60°C
and analyzed by Phosphorlmager (Molecular Dynamics). The sequences of the
oligonucleotide probes were obtained from sequences based on the following Accession
Nos.: NP002393 (Pegl_2 and Pegl_A; for these genes, human PEG] is transcribed from two
alternative promoters, resulting in the transcription of two isoforms, of which only one
(isoform 1_2) is imprinted. Paternal expression isoform 1 occurs in conjunction with an
unmethylated CpG island in exon 1 of the paternal allele, whereas the corresponding CpG
island in the maternal gene (isoform 1_A) is fully methylated. See, e.g., Li et al. (2002),
supra); CAG29346 (SNRPN); AF087017 (HI9); NR_001564 (inactive X specific transcripts-
XIST); and P04406 (GAPDH).
[0190] DNA fingerprinting analysis
[0191] Genomic DNA was isolated from blood, hES cells, and NSFs through a
phenol/chloroform extraction, digested with Hinfl restriction enzyme (Fermentas) and loaded
in a 0.8% agarose gel. Following electrophoresis, denatured DNA was transferred to a nylon
membrane (Hybond N, AmeTsham) by Southern blotting and hybridized with 32P-labeled
(CAC) 5 oligonucleotide probe. mData were analysed after membrane exposition on X-ray
film (Kodak XAR) using Cronex intensifying screens.
[0192] Monolocus PCR genotyping

[0193] In order to determine allelic identities for minisatellite loci between blood donor
DNA and stem cell DNA, 11 polymorphic sites ((1)3' Apolipoprotein B hypervariable
minisatellite locus (3'ApoB); (2) D1S80 (PMCT118) hypervariable minisatellite locus
(D1S80); (3) D6S366; (4) D16S359; (5) D7S820; (6) Human von Willebrand factor gene
hypervariable minisatellite locus H (vWFII); (7) D13S317; (8) Human von Willebrand factor
gene hypervariable microsatellite locus (vWA); (9) Human c-frns proto-oncogene for CFS-1
receptor gene microsatellite locus (CSF1PO); (10) Human thyroid peroxidase gene
microsatellite locus (TPOX); and (11) Human tyrosine hydroxylase gene microsatellite locus
(TH01)) were analyzed by PCR genotyping. Allele frequencies for known populations (i.e.,
Russian and Caucasian-American populations) determined for the above polymorphic sites
were compared to allele frequencies of these sites in test samples (i.e., hES, NSF, and donor
blood DNA). Chromosomal location, Genbank locus and locus definition, repeat sequence
data, allelic ladder range, VNTR ladder size range, other known alleles, allele sizes, PCR
protocols, and allele frequency results for the 11 minisatellite loci of the disclosed
populations analyzed are provided below.
[0194] (1) 3' Apolipoprotein B hypervariable minisatellite locus (3'ApoB VNTR)
[0195] Chromosomal location: 2p23-p23
[0196] GenBank locus and locus definition: APOB, apolipoprotein B (including Ag(x)
antigen) untranslated region
[0197] Repeat sequence 5 '-3': (TATAATTAAATATT TTATAATTAAAATATT)n (SEQ
IDNO:l)
[0198] Allelic ladder size range (bases): 450 +10 + 2 primeT + links
[0199] VNTR ladder size range (# of repeats, according to Ludwig et al, 1989): 30, 32, 34,
36, 38, 40,42,44,46,48, 50, 52
[0200] Other known alleles (# of repeats): 25, 27, 28, 31, 33,35, 37, 39, 41, 43,45, 47, 49,
51,53,54,55
[0201] Promega K562 DNA® Allele sizes (# of repeats): 36/36
[0202] PCR protocol:

Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Elongation and primer linking
Extension step:
Hold step:

95°C, 2'
94°C 1
60°C, 2
72°C, 5'
4°C, unlimited time

The analysis may be done as described in Verbenko et al. (Apol lipoprotein B 3'-VNTR
polymorphism in Eastern European populations. Eur J Hum Gen (2003) 11(1):444-451). See
Table 4.

Table 4. Allele Frequencies for Russian Populations

(Table Removed)
Homozygotes 94
Heterozygotes 333
Total samples 427

[0203] (2) DlS80 (pMCTl 18) hypervariable minisatellite locus (DlS80 VNTR)
[0204] Chromosomal location: lp35-36
[0205] GenBank locus and locus definition: Human D1S80 and MCT118 gene
[0206] Repeat sequence 5'-3': (GAAGACAGACCACAG)n (SEQ ID NO: 2)
[0207] Allelic ladder size range (bases): 387-762
[0208] VNTR ladder size range (# of repeats): 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26,
27,28,29, 30, 31, 34, 35, 36, 37, 40, 41
[0209] Other known alleles (# of repeats): 13, 14, 15, 38, 39,>41
[0210] Promega K562 DNA® Allele sizes (# of repeats): 18/29

[0211] PCR protocol:

Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, 2'
94°C,45"
60°C, 30"
72°C,45"
72°C, 5'
4°C, unlimited time

[0212] The analysis may be done as described in Verbenko et al. (Allele frequencies for
D1S80 (pMCTl 18) locus in some Eastern European populations. J Forensic Sci (2003)
48(l):207-208). See Table 5.
Table 5. Allele Frequencies for Russian Populations

(Table-Removed)
Homozygotes 15
Heterozygotes 44
Total samples 59

[0213] (3) D6S366
[0214] Chromosomal location: 6q21 -qter
[0215] GenBank locus and locus definition: NA
[0216] Allelic ladder size range (bases): 150-162
[0217] STR ladder size range (# of repeats): 12, 13, 15
[0218] Other known alleles (# of repeats): 10, 11, 14, 16,17


[0219] Promega K562 DNA® Allele sizes (# of repeats): 13/14
[0220] PCR protocol:
Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Elongation and primer linking
Extension step:
Hold step:

95°C, 2'
94DC, 1'
60°C, 2'
72°C, 5'
4°C, unlimited time

[0221] The analysis may be done as described in Efremov et al. (An expert evaluation of
molecular genetic individualizing systems based on the IIUMvWFII and D6S366
tetranucleotide tandem repeats. Sud Med Ekspert (1998) 41(2):33-36). See Table 6.
Table 6. Allele Frequencies for Russian Populations

(Table-Removed)
[0222] (4) D16S539
[0223] Chromosomal location: 16q24-qter
[0224] GenBank locus and locus definition: NA
[0225] Repeat sequence 5'-3': (AGAT)n
[0226] Allelic ladder size Tange (bases): 264-304
[0227] STR ladder size range (# of repeats): 5, 8, 9, 10, 11,12, 13, 14, 15
[0228] Promega K562 DNA® Allele sizes (# of repeats): 11/12
[0229] PCR protocol:


Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, V
94oC, 45"
64°C,30"
72°C, 30"
72°C, 5'
4°C, unlimited time

[0230] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, Wl USA: 1993-
2001. See Table 7.
Table 7. Allele Frequencies for Caucasian-Americans

(Table-Removed)
[0231] (5) D7S820
[0232] Chromosomal location: 7ql 1.21-22
[0233] GenBank locus and locus definition: NA
[0234] Repeat sequence 5'-3': (AGAT)n
[0235] Allelic ladder size range (bases): 215-247
[0236] VNTR ladder size range (# of repeats): 6, 7, 8, 9,10,11,12,13,14
[0237] Promega K562 DNA® Allele sizes (# of repeats): 9/11
[0238] PCR protocol:
Thermal cycler: DNA Technology Ltd., Russia


Initial Incubation:
Cycling for 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, 2'
94°C, 45"
64°C,30"
72°C, 30"
72°C, 5'
4°C, unlimited time

[0239] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, WI USA: 1993-
2001. See Table 8.
Table 8. Allele Freqaencles for P7S820 in Different Populations

(Table-Removed)
[0240] (6) Human von Willebrand factor gene hypervariable microsatellite locus II
(vWFIT)
[0241] Chromosomal location: 12pl3.3-12pl3.2
[0242] GenBank locus and locus definition: HUMvWFII, Human von Willebrand factor
gene
[0243] Repeat sequence 5'-3': (ATCT)n/(AGAT)n
[0244] Allelic ladder size range (bases): 154-178
[0245] STR ladder size range (# of repeats): 9,11,12, 13
[0246] Other known alleles (# of repeats): 8, 10,14, 15
[0247] Promega K562 DNA® Allele sizes (# of repeats): 13/13
[02481 PCR protocol:
Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation: 95°C, 2'
Cycling for 30 cycles:
Denaturation 94°C, 1'
Elongation and primer linking 60°C, 2'
Extension step: 72°C, 5'
Hold step: 4oC, unlimited time
[0249] The analysis has been done as described in Efremov et al. (An expert evaluation of
molecular genetic individualizing systems based on the HUMvWFII and D6S366
tetranucleotide tandem repeats. Sud Med Ekspert (1998) 41(2):33-36). See Table 9.
Table 9. Allele Frequencies for Russian Populations

(Table-Removed)
[0250] (7)D13S317
[0251] Chromosomal location: 13q22-q31
[0252] GenBank locus and locus definition: NA
[0253] Repeat sequence 5'-3': (AGAT)n
[0254] Allelic ladder size range (bases): 165-197
[0255] STR ladder size range (# of repeats): 8, 9,10,11,12,13, 14,15
[0256] Other known alleles (# of repeats): 7
[0257] Promega K562 DNA® Allele sizes (# of repeats): 8/8
[0258] PCR protocol:

Thermal cycler. DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, 2
94°C,45"
64°C, 30"
72°C, 30"
72°C, 5'
4°C, unlimited time

[0259] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, WI USA: 1993-
2001. See Table 10.
Table 10. Allele Frequencies for D13S317 in Different Populations

(Table-Removed)
[0260] (8) Human von Willebrand factor gene bypervariable microsatellite locus (vWA)
[0261] Chromosomal location: 12pl2pter
[0262] GenBank locus and locus definition: HUMVWFA31, Human von Willebrand
factor gene
[0263] Repeat sequence 5 '-3': (AGAT)n
[0264] Allelic ladder size range (bases): 139-167
[0265] STR ladder size range (# of repeats): 14,16,17,18
[02661 Other known alleles (# of repeats): 11,12, 13,15,19,20,21
[0267] Promega K562 DNA® Allele sizes (# of repeats): 16/16
10268] PCR protocol:

Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Elongation and primer linking
Extension step:
Hold step:

95°C, 2
94°C, 1'
60°C, 2'
72°C, 5'
4°C, unlimited time

[0269] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, Wl USA: 1993-
2001. See Table 11.
Table 11. Allele Frequencies for HUMVWFA31 in Different Populations

(Table-Removed)
[0270] (9) Human c-fms proto-oncogene for CSF-1 receptor gene microsatellite
locus (CSF1PO)
[0271] Chromosomal location: 5q33.3-34
[0272] GenBank locus and locus definition: HUMCSF1PO, Human c-fms proto-oncogene
10273] Repeat sequence 5' -3': (AGAT)n
[0274] Allelic ladder size range (bases): 295-327
[0275] STR ladder size range (# of repeats): 7, 8, 9,10,11,12,13,14,15
[0276] Other known alleles (# of repeats): 6
[0277] Promega K562 DNA® Allele sizes (# of repeats): 9/10

[0278] PCR protocol:

Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, 2'
94°C, 45"
64°C,30"
72°C, 30"
72°C, 5'
4°C, unlimited time

(0279] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, WI USA: 1993-
2001. See Table 12.
Table 12. Allele Frequencies for Caucasian-Americans

(Table-Removed)
[0280] (10) Human thyroid peroxidase gene microsatellite locus (TPOX)
[0281 ] Chromosomal location: 2p25.1 -pter
[0282] GenBank locus and locus definition: HUMTPOX, Human thyroid peroxidase gene
[0283] Repeat sequence 5 '-3': (AATG)n
[0284] Allelic ladder size range (bases): 224-252
[028S] STR ladder size range (# of repeats): 6, 7, 8,9, 10, 11, 12, 13
[0286] Other known alleles (# of repeats): none
[0287] Promega K562 DNA® Allele sizes (# of repeats): 8/9
[0288] PCR protocol:

Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling fra 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, 2'
94°C, 45"
64°C, 30"
72°C, 30"
72°C, 5'
4°C, unlimited time

[0289] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, WI USA: 1993-
2001. See Table 13.
Table 13. Allele Frequencies for Caucasian-Americans

(Table-Removed)
[0290] (11) Human tyrosine hydroxylase gene microsatellite locus (TH01)
[0291] Chromosomal location: 5q33.3-34
[0292] GenBank locus and locus definition: HUMTHOl, Human tyrosine hydroxylase
gene
[0293] Repeat sequence 5' -3': (AATG)n
[0294] Allelic ladder size range (bases): 179-203
[0295] STR ladder size range (# of repeats): 5,6,7, 8,9, 10,11
[0296] Other known alleles (# of repeats): 9.3
[0297] Promega K562 DNA® Allele sizes (# of repeats): 9.3/9.3
[0298] PCR protocol:

Thermal cycler: DNA Technology Ltd., Russia
Initial Incubation:
Cycling for 30 cycles:
Denaturation
Primer linking
Elongation
Extension step:
Hold step:

95°C, 2
94°C, 45"
64°C, 30"
72°C, 30"
72°C, 5'
4°C, unlimited time

[0299] The analysis has been done as described in GenePrint® STR Systems (Silver Stain
Detection) Technical Manual No. D004. Promega Corporation, Madison, WI USA: 1993-
2001. See Table 14.
Table 14. Allele Frequencies for Caucasian-Americans

(Table-Removed)
[0300] Results
[0301] The hES cells from this method display many features that are typical for
embryonic stem cells: cytoplasmic lipid bodies, small cytoplasmic/nuclear ratio and clearly
distinguishable nucleoli. The hES cell colonies display similar morphology to that reported
previously for human embryonic stem cells derived after in vitro fertilization. The cells were
immunoreactively positive for alkaline phosphatase (Fig 1 A), octamer-binding transcription
factor 4 mRNA (Oct-4) (Fig IB), stage- specific embryonic antigen 1 (SSEA-1) (Fig
lC),stage- specific embryonic antigen 3 (SSEA-3) (Fig ID), stage-specific embryonic antigen
4 (SSEA-4) (Fig IE), tumor rejection antigen 1-60 (TRA-1-60) (Fig IF), tumor rejection
antigen 1-81 (TRA-1-81) (Fig 1G), and negative for stage-specific embryonic antigen 1
(SSEA-1) (Fig 1C), (which is positive for mouse embryonic stem cells, but not for human).
Telomerase activity is often correlated with replicative immortality and is typically expressed
in germ cells, cancer cells, and a variety of stem cells, including stem cells, but absent in
most somatic cell types. The cells prepared by this method after three months in in vitro
proliferation maintained their undifferentiated morphology and displayed high levels of
telomerase activity (Fig 2A). The pluripotency of the cells was investigated in vitro by
embryoid body formation (Fig 2B, 2C), G-banded karyotyping shows that cells have normal
human 46XX karyotype (Fig 2D).
(0302] DNA fingerprinting analysis was performed on the blood of the oocyte donor, on
the ES cells, and on the HNSF feeder cells by Southern blotting and hybridization with a 32P
- labeled (CAC)s oligonucleotide probe (Fig 2E), and monolocus polymerase chain reaction
(PCR) with different locuses.
[0303] For monolocus PCR, genotyping revealed identical alleles for all loci (but one,
D7S820) between blood (donor) DNA and OL1 DNA. See Table 15.
Table 15. Monolocus PCR genotyping.

(Table-Removed)
[0304] Heterozygosity (heterozygosis) of all heterozygous donor loci (but one, D7S820)
was not changed in hES loci. Homozygosity (homozygosis) of D7S820 locus in hBS DNA is
a result of mutation (insertion of one AGAT monomer in microsatellite repeat) due to
slipped-strand mispairing during DNA replication and DNA repair.
[0305] These results are in accordance with those obtained with multilocus DNA
fingerprinting (when substantially identical fingerprint patterns for donor DNA and hES
DNA were found).

[0306] Figure 2E demonstrated heterozygosity of hES cells and their identity with the
oocyte donor's blood, and there was no similarity between the hES cells and the feeder cells.
The DNA profle of hES cell line was confirmed by PCR-based haplotype analysis using
polymorphic genes within the MHC class I and class II. Total genomic DNA from the oocyte
donor blood cells, from hES cells, and feeder HNSFs were genotyped and compared. The
data demonstrated that hES cells and cells from donor blood were indistinguishable from
each other and therefore should be considered autologous, and both distinguished from DNA
of the feeder cells (Table 16).
Table 16. HLA Typing.

(Table-Removed)
[0307] DNA fingerprinting and HLA typing analysis confirmed that the hES cells are
heterozygous and contain the whole donor genetic material. These results coincide with data
from parthenogenetic monkey stem cell lines (Vrana et al., Proc Natl Acad Sci USA (2003)
100(Suppl 1):11911-11916), and do not coincide with data from parthenogenetic mouse stem
cell lines (Lin et al., Stem Cells (2003) 21:153-161), which contains half of the donor genetic
material.
[0308] The phESC lines display a morphology expected in hES cells, forming colonies
with tightly packed cells, prominent nucleoli and a small cytoplasm to nucleus ratio (FIG. 4).
These cells express traditional hES markers SSEA-3, SSEA-4, TRA-1-60, TRA-1-81, and
OCT-4, and do not express SSEA-1, a positive marker for undifferentiated mouse embryonic
stem cells (FIG. 4). The cells derived from all lines demonstrate high levels of alkaline
phosphatase and telomerase activity (FIG. 5 and FIG. 6). G-banded karyotyping showed that
phESC lines have a normal human 46.XX karyotype, with the exception of the phESC-7 line
(FIG. 7). Approximately 91% of cells from the phESC-7 line have a 47.XXX karyotype and
9% of the cells have a 48,XXX,+6 karyotype. A different degree of X chromosome

heteromorphism was observed in the lines; approximately 12% of the phESC-1 and phESC-6
lines; 42% for the phESC-5 line; and 70, 80, and 86 % for the cell lines phESC7, phESC-3,
and phESC-4, respectively (FIG. 7).
10309] Comparative DNA profiling of was performed on all the phESC lines, the donor
somatic cells and the feedei cells. These studies used Affimetrix SNP microarrays (Mapping
50K Hind 240 Arrays) to study chromosome changes and to confirm the genetic similarity of
the phESC to the donor's somatic cells. All paired genotype relationships between phESC
lines and their associated donor somatic cells were identified as "full siblings", and all other
combinations of pans were identified as "unrelated". Internal controls identified the paired
genotype relationship between split cultures derived from the same phESC line as
"monozygotic twins" (Table 17, Database SI).
Table 17. Database SI.

(Table-Removed)
DMA samples were numbered aS follows: 1-human neonatal skin fibroblasts; 2-phESC-7 line donor; 3-phESC-7
line; 4-phESC-l line; 5-phBSC-l line; 6"-phESC-3 line; 7-phBSC-4 line; 8-phBSC-5 line; 9-phESC-6 line; 10-
phBSC-6 line donor; ll-phBSC-3 to phESC-5 lines donor; and 12-phESC-l line donor.
The result shows that only one pair (sample 4-5), has been identified as monozygotic (MZ) twins.
Ten other pairs (samples 2-3, 4-12, 5-12, 6-7,6-11, 7-8,7-11, 8-11, 9-10) have been identified as full siblings,
and all the other combination of pairs have been identified as unrelated. The IBS columns in the output display
the number of markers at which the pair are both typed and share 0,1, or 2 alleles identical by state (For MZ
twins under ideal conditions of no genotyping errors, all markers must be placed under IBS=2). The output does
not display P (observed markers | given relationship) directly, but it displays LOD score - log10 {P(observed
markers | putative re!ationship/P(observed markers | relationship for which maximum likelihood was obtained
and thus the call was made)} as a measure of similarity. The smaller the LOD score is, the less likely the
putative relationship between two samples it.
[03101 Comparative analysis of 1,459 SNP markers revealed phESC heterozygosity and
showed that changes had occurred in the phESC cell genotype in comparison to the related
donor somatic cell genotype. Some segments of the somatic cell genome that had formerly
been heterozygous became homozygous in the related phESC line genome. This
heterozygous to homozygous pattern occurred in 11-15% of the phESC-1, PhESC-3, phESC-
4, phESC-5 and phESC-6 lines, and was 19% for the phESC7 line (Database S2). Moreover,
genetic differences were observed between the phESC and phBSC-5 lines that had been
derived from the same oocyte donor (Table 18, Database S2).
Table 18. Database S2.
(Table Removed)
base pair distance as Tecorded by Affimetrix GeneChip; Freq A in Cauc-the frequency of A allele in Caucasian
population.
10311] In prior research, parthenogenetic activation of mouse oocytes has resulted in
homozygous embryonic stem cell lines (Lin et al., Stem Cells (2003) 21:152). In human
oocytes, the suppression of the second meiotic division after oocyte parthenogenetic
activation and the generation of diploid embryos does not lead to the derivation of wholly
homozygous hES cells.
[0312] Based on the HLA-typing results, differentiated cells derived from all phESC lines
should be wholly histocompatible with the oocyte donors, making this a method to create
cells of therapeutic use (Table 19).
Table 19. HLA-tvphig for ohESC cell lines

(Table-Removed)
[0313] DNA-profiling of the genetic material derived from the human fibroblasts used as
feeder cells revealed no contamination of the pliESC cell lines with material from the human
fibroblasts (Table 19).
[0314] The phESC-1 line remained undifferentiated during ten months of culture,
spanning 35 passages. The other cell lines were successfully cultivated over at least 21
passages. The cells from all phESC lines formed cystic embryoid bodies in suspension
culture and gave rise to derivatives of all three germ layers: ectoderm, mesoderm, and
endoderm, after differentiation in vitro (FIG. 4). Approximately 5% of embryoid bodies from
the phESC-l line gave rise to beating cells five days following plating. The phESC-6 line
produced pigmented epithelial-like cells (FIG. 41, K). Ectoderm differentiation is presented
by positive immunocytochemical staining for neuron specific markers neurofiliment 68 (FIG.
4A), NCAM (FIG. 4B), beta IH-tubulin (FIG. 4C) and the glial cell marker GFAP (FIG. 4D,
M). Differentiated cells were positive for mesoderm markers including alpha-actinin (FIG.
4G) and desmin (FIG. 4J), which are muscle specific markers, and the endothelial markers
PECAM-1 (FIG. 4E) and VE-Cadherin (FIG. 4F). Endoderm differentiation is presented by
positive staining of differentiated derivatives for alpha-fetoprotein. These data demonstrate
that phESC can be differentiated into the three germ layers that lead to all cell types of a
human body.
[0315] The altered karyotype of phESC-7 may be a reason to exclude it form clinical use.
Alterations of genomic imprinting in human embryos can contribute to the development of
disorders linked to maternally or paternally expressed genes (Gabriel et al., Proc Natl Acad
Sci USA (1998) 95:14857). In order to investigate other characteristics of the phESC lines,
and to determine their suitability for use in cell therapy, imprinting analysis was performed.
[0316] Northern blots were made and screened with DNA probes SNRPN, Pegl_2,
PeglA, HI 9, and GAPDH (as an internal control) as outlined above. Blotted nucleic acids
were obtained from NSF, neonatal skin fibroblasts; hES, human embryonic stem cell line
derived from fertilized oocytes; 1, phESC-1; 2, phESC-3, 3, phESC-4, 4, phESC-5; 5,
phESC-6; 6 phESC-7. NSF RT-, hES RT-, 1 RT- are negative controls. FIG. 3 shows the
results of the imprinting blot.
[0317] The maternal imprinting gene, Pegl_A shows strong binding in all of the cell lines
tested. Weaker (relative to Pegl_A), but consistent binding was observed in all of the cell
lines for the maternal imprinting gene H19. SNRPN shows binding predominantly in NSF,
hES, phESC-4, and phESC-6. Pegl_2 shows binding predominantly in NSF, hES, phESC-1
(weaker signal), phESC-3, phESC-5, and phESC-6. GAPDH binding confirmed similar
loading of RNA in all lanes.
[0318] Although the invention has been described with reference to the above examples, it
will be understood that modifications and variations are encompassed within the spirit and
scope of the invention. Accordingly, the invention is limited only by the following claims.

References
1. J. Cibelli et al., Methods for making and using reprogrammed human somatic cell
nuclei and autologous and isogenic human stem cells. US Patent Application No.
20030232430, December 18,2003.
2. H. Lin et al., Multilineage potential of homozygous stem cells derived from
metaphase II oocytes. Stem Cells (2003) 21:153-161
3. K.E. Vrana et al., Nonhuman primate parthenogenetic stem cells. PNAS (2003) 100
(Suppl 1):11911-11916.
4. J.P.M. Dumpulin et al., Effect of oxygen concentration on human in vitro fertilization
and embryo culture. Human Reproduction. (1999) 14(2):465-469.
5. B.Fischer and B.D. Bavister, Oxygen tension in the oviduct and uterus of rhesus
monkeys, hamsters and rabbits. J Reprod Fertil (1993) 99:673-679.
6. D.I. Kaufman and J.A. Mitchell, Intauterine oxygen tension during oestrous cycle in
the hamster: patterns of change. Comp Biochem Physiol Comp Physiol (1994) 107(4):
673-678.
7. F.D. Houghton et al., Oxygen consumption and energy metabolism of the early mouse
embryo. Mol Reprod Dev (1996) 44:476-485.
8. A. Van Soom et al., Prevalence of apoptosis and inner cell allocation in bovine
embryos cultured under different oxygen tension with or without cysteine addition.
Theriogenology (2002) 57(5):1453-1465.





We Claims
1. A method of producing human stem cells comprising:
a) parthenogenetically activating a human oocyte, wherein activating comprises: i)
contacting the oocyte with an ionophore at high O2 tension and ii) contacting the oocyte with a
serine-threonine kinase inhibitor under low 02 tension;
b) cultivating the activated oocyte of step (a) at low O2 tension until blastocyst formation;
c) transferring the blastocyst to a layer of feeder cells, and culturing the transferred
blastocyst under high O2 tension;
d) mechanically isolating an inner cell mass (ICM) from trophectoderm of the blastocyst
of step (c); and
e) culturing the cells of the ICM of step (d) on a layer of feeder cells,
wherein culturing step (e) is carried out under high O2 tension.

2. The method of claim 1, wherein low 02 tension is maintained by incubation in a gas
mixture environment comprising an O2 concentration of about 2% O2 to about 5% O2.
3. The method of claim 2, wherein the gas mixture environment further comprises about 5%
C02 and about 90% N2 to 93% N2-
4. The method of claim 1, wherein high O2 tension is maintained by incubation in a gas
mixture environment comprising about 5% CO2 and about 20% 02.
5. The method of claim 1, wherein the ionophore is selected from the group consisting of
ionomycin and A23187.
6. The method of claim 1, wherein the serine-threonine kinase inhibitor is selected from the
group consisting of staurosporine, 2-aminopurine, sphingosine, and 6-dimethylaminopurine
(DMAP).
7. The method of claim 1, wherein the media comprises human umbilical cord serum.
8. The method of claim 1, wherein the layer of feeder cells comprises human fibroblasts.
9. The method of claim 8, wherein the fibroblasts are postnatal human dermal fibroblasts.
10. An isolated stem cell prepared by the method of claim 1.
11. A method of activating a human metaphase II oocyte comprising;

a) incubating a human metaphase II oocyte in in vitro fertilization (IVF) media;
b) incubating the cell of step (a) in IVF media comprising an ionophore;
c) incubating the cell of step (b) in IVF media comprising a serine-threonine kinase
inhibitor; and
d) incubating the cells of step (c) in fresh IVF medium until blastocyst formation,
wherein the incubating steps (a) and (b) are carred out under high O2 tension, and
wherein an inner cell mass (ICM) obtained from the blastocyst at step (d) produce culturable
stem cells.
12. The method of claim 11, wherein the gas mixture environment further comprises about
5% C02 and about 90% N2 to 93% N2.
13. An isolated inner cell mass (ICM) prepared from the oocyte of claim 11.
14. A method for producing human stem cells from a cryopreserved oocyte or parthenote,
comprising:

(a) microinjecting into the cytoplasm of the oocyte or parthenote a cryopreservation
agent;
(b) freezing the oocyte or parthenote to a cryogenic temperature to cause the oocyte or
parthenote to enter a dormant state;
(c) storing the oocyte or parthenote in the dormant state;
(d) thawing the oocyte or parthenote;
(e) parthenogenetically activating the oocyte from step (d) comprising i) contacting the
oocyte with an ionophore at high 02 tension and ii) contacting the oocyte with a serine-threonine
kinase inhibitor under low O2 tension;

(f) cultivating the parthenote of step (d) or oocyte of step (e) at low O2 tension until
blastocyst formation;
(g) isolating an inner cell mass (ICM) from trophectoderm of the blastocyst; and
(h) culturing the cells of the ICM of step (g) on a layer of feeder cells or extracellular
matrix (ECM) substrate,
wherein culturing step (g) is carried out under high O2 tension.
15. The method of claim 14, wherein the feeder cells are from a human source.
16. The method of claim 14, wherein the cryopreservation agent (i) comprises a sugar, (ii) is
substantially non-permeating with respect to mammalian cell membranes, and (iii) maintains the
viability of the oocyte or parthenote such that it can be stored in a temporarily dormant state and
substantially restored to an active state.
17. An autologous stem cell, wherein the stem cell is derived from a parthenogenetically
activated oocyte from a hurnan donor.
18. The stem cell of claim 17, wherein the stem cell possesses a substantially identical
haplotype as the donor oocyte.
] 9. The stem cell of claim 17, wherein the cell (i) will proliferate in an in vitro culture for
over one year, (ii) maintains the potential to differentiate to derivatives of endoderm, mesoderm,
and ectoderm tissues throughout the culture, and (iii) is inhibited from differentiation when
cultured on a fibroblast feeder layer.

20. The stem cell of claim 17, wherein the stem cell expresses one or more markers selected
from the group consisting of SSEA-3, SSEA-4, TRA-1-60, TRA-1-81, and OCT-4.
21. A differentiated cell derived from a stem cell obtained from a parthenogenetically
activated oocyte from a human donor.
22. The differentiated cell of claim 21, wherein the differentiated cell is histocompatible with
the oocyte donor.
23. The differentiated cell of claim 21, wherein the differentiated cell is selected from the
group consisting of a neuronal cell, cardiac cell, smooth muscle cell, striated muscle cell,
endothelial cell, osteoblast, oligodendrocyte, hematopoietic cell, adipose cell, stromal cell,
chondrocyte, astrocyte, dendritic cell, keratinocyte, pancreatic islet, lymphoid precursor cell,
mast cell, mesodermal cell, and endodermal cell.
24. A cell line comprising autologous stem cells, wherein the stem cells are derived from
parthenogenically activated oocytes from a human donor.
25. The cell line of claim 24, wherein each cell possesses a 46, XX karyotype.
26. The cell line of claim 24, wherein each cell is substantially identical genetically to the
donor oocyte.

27. A library of stem cells comprising autologous stem cells, wherein the stem cells are
derived from parthenogenetically activated oocytes from one or more human donors.
28. The library of claim 27, wherein each library member is identified as a full sibling, half
sibling, or unrelated according to single nucleotide polymorphism (SNP) markers.
29. The library of claim 27, wherein the oocyte donor is histocompatible with a member of
the library.

30. The library of claim 27, wherein a member of the library is genomically imprinted
according to the oocyte donor origin.
31. A cell bank comprising cryopreserved parthenotes, wherein the parthenotes are derived
from parthenogenetically activated oocytes from one or more human donors.
32. The cell bank of claim 31, wherein the parthenotes have been cultivated under low O2
tension until blastocyst formation.
33. A cell bank comprising cryopreserved autologous stem cells, wherein the stem cells are
derived from parthenogenetically activated oocytes from one or more human donors.
34. A method of treating a subject in need thereof, comprising administering a cellular
composition comprising differentiated cells, wherein the differentiated cells are derived from a
stem cell obtained from a parthenogenetically activated oocyte from a human donor.
35. A method of generating cloned human embryonic stem cell lines comprising:

a) removing a first pro-nuclei from a previously fertilized human oocyte;
b) transferring a second pro-nuclei into the enucleated oocyte of step (a)
wherein the second pro-nuclei is derived from:
i) a donor oocyte or an oocyte from the mother of the donor, or
ii) a parthenogenetically activated oocyte, wherein the pro-nuclei of the
oocyte has been replaced by the nucleus of a donor somatic cell prior
to activation;
and
c) cultivating the resulting oocyte of step (b) until blastocyst formation,
wherein an inner cell mass from the blastocyst contains the embryonic stem cells.
36. A method of producing human stem cells, substantially as hereinbefore
described with reference to the accompanying drawings.
37. An autologous stem cell, substantially as hereinbefore described with reference to the accompanying drawings.

Documents:

http://ipindiaonline.gov.in/patentsearch/GrantedSearch/viewdoc.aspx?id=8GmUD+c8Z8AAqeS7Rdhd/g==&loc=+mN2fYxnTC4l0fUd8W4CAA==


Patent Number 277949
Indian Patent Application Number 3649/DELNP/2008
PG Journal Number 51/2016
Publication Date 09-Dec-2016
Grant Date 07-Dec-2016
Date of Filing 29-Apr-2008
Name of Patentee INTERNATIONAL STEM CELL CORPORATION
Applicant Address 2595 JASON COURT, OCEANSIDE, CALIFORNIA 92056, U.S.A.
Inventors:
# Inventor's Name Inventor's Address
1 PRYZHKOVA, MARINA 66/2 CHYKOVSKAYA ST. AP.#113, MOSCOW, KLIN, RUSSIA.
2 KUZMICHEV, LEONID, N. 15/2 NICKULINSKAYA ST., APT # 367, MOSCOW, RUSSIA.
3 REVAZOVA, ELENA, S. 1753 CHASTAIN PARKWAY EAST, PACIFIC PALASADES, CALIFORNIA, U.S.A.
4 JANUS, JEFFREY, D. 4660 SAVONA PLACE, SAN DIEGO, CALIFORNIA 92130, U.S.A.
PCT International Classification Number C12N 5/08
PCT International Application Number PCT/US2006/041133
PCT International Filing date 2006-10-19
PCT Conventions:
# PCT Application Number Date of Convention Priority Country
1 60/733,309 2005-11-02 U.S.A.
2 60/813,799 2006-06-14 U.S.A.
3 60/729,177 2005-10-21 U.S.A.
4 60/758,443 2006-01-11 U.S.A.