Cell - 8 September 2016

(Amelia) #1

Hayashi, K., Lopes, S.M.C. de S., Tang, F., and Surani, M.A. (2008). Dynamic
equilibrium and heterogeneity of mouse pluripotent stem cells with distinct
functional and epigenetic states. Cell Stem Cell 3 , 391–401.


Hawkins, K.E., Joy, S., Delhove, J.M.K.M., Kotiadis, V.N., Fernandez, E.,
Fitzpatrick, L.M., Whiteford, J.R., King, P.J., Bolanos, J.P., Duchen, M.R.,
et al. (2016). NRF2 orchestrates the metabolic shift during induced pluripotent
stem cell reprogramming. Cell Rep. 14 , 1883–1891.


Hom, J.R., Quintanilla, R.A., Hoffman, D.L., de Mesy Bentley, K.L., Molkentin,
J.D., Sheu, S.-S., and Porter, G.A., Jr. (2011). The permeability transition pore
controls cardiac mitochondrial maturation and myocyte differentiation. Dev.
Cell 21 , 469–478.


Hou, P., Li, Y., Zhang, X., Liu, C., Guan, J., Li, H., Zhao, T., Ye, J., Yang, W., Liu,
K., et al. (2013). Pluripotent stem cells induced from mouse somatic cells by
small-molecule compounds. Science 341 , 651–654.


Huang, H.P., Chen, P.H., Hwu, W.L., Chuang, C.Y., Chien, Y.H., Stone, L.,
Chien, C.L., Li, L.T., Chiang, S.C., Chen, H.F., et al. (2011). Human Pompe dis-
ease-induced pluripotent stem cells for pathogenesis modeling, drug testing
and disease marker identification. Hum. Mol. Genet. 20 , 4851–4864.


Huang, Y., Osorno, R., Tsakiridis, A., and Wilson, V. (2012). In Vivo differenti-
ation potential of epiblast stem cells revealed by chimeric embryo formation.
Cell Rep. 2 , 1571–1578.


Itier, J.-M., Ret, G., Viale, S., Sweet, L., Bangari, D., Caron, A., Le-Gall, F.,
Be ́nichou, B., Leonard, J., Deleuze, J.-F., and Orsini, C. (2014). Effective clear-
ance of GL-3 in a human iPSC-derived cardiomyocyte model of Fabry disease.
J. Inherit. Metab. Dis. 37 , 1013–1022.


Kang, E., Wang, X., Tippner-Hedges, R., Ma, H., Folmes, C.D.L., Gutierrez,
N.M., Lee, Y., Van Dyken, C., Ahmed, R., Li, Y., et al. (2016). Age-related accu-
mulation of somatic mitochondrial DNA mutations in adult-derived human
iPSCs. Cell Stem Cell 18 , 625–636.


Kasahara, A., Cipolat, S., Chen, Y., Dorn, G.W., 2nd, and Scorrano, L. (2013).
Mitochondrial fusion directs cardiomyocyte differentiation via calcineurin and
Notch signaling. Science 342 , 734–737.


Khaw, S.-L., Min-Wen, C., Koh, C.-G., Lim, B., and Shyh-Chang, N. (2015).
Oocyte factors suppress mitochondrial polynucleotide phosphorylase to
remodel the metabolome and enhance reprogramming. Cell Rep. 12 , 1080–
1088.


Kida, Y.S., Kawamura, T., Wei, Z., Sogo, T., Jacinto, S., Shigeno, A., Kushige,
H., Yoshihara, E., Liddle, C., Ecker, J.R., et al. (2015). ERRs mediate a meta-
bolic switch required for somatic cell reprogramming to pluripotency. Cell
Stem Cell 16 , 547–555.


Kodaira, M., Hatakeyama, H., Yuasa, S., Seki, T., Egashira, T., Tohyama, S.,
Kuroda, Y., Tanaka, A., Okata, S., Hashimoto, H., et al. (2015). Impaired respi-
ratory function in MELAS-induced pluripotent stem cells with high hetero-
plasmy levels. FEBS Open Bio. 5 , 219–225.


Kojima, Y., Kaufman-Francis, K., Studdert, J.B., Steiner, K.A., Power, M.D.,
Loebel, D.A.F., Jones, V., Hor, A., de Alencastro, G., Logan, G.J., et al.
(2014). The transcriptional and functional properties of mouse epiblast stem
cells resemble the anterior primitive streak. Cell Stem Cell 14 , 107–120.


Lee, M.R., Mantel, C., Lee, S.A., Moon, S.-H., and Broxmeyer, H.E. (2016).
MiR-31/SDHA axis regulates reprogramming efficiency through mitochondrial
metabolism. Stem Cell Reports 7 , 1–10.


Li, P., Tong, C., Mehrian-Shai, R., Jia, L., Wu, N., Yan, Y., Maxson, R.E.,
Schulze, E.N., Song, H., Hsieh, C.-L., et al. (2008). Germline competent embry-
onic stem cells derived from rat blastocysts. Cell 135 , 1299–1310.


Lin, Y.-F., Schulz, A.M., Pellegrino, M.W., Lu, Y., Shaham, S., and Haynes,
C.M. (2016). Maintenance and propagation of a deleterious mitochondrial
genome by the mitochondrial unfolded protein response. Nature 533 ,
416–419.


Ma, H., Morey, R., O’Neil, R.C., He, Y., Daughtry, B., Schultz, M.D., Hariharan,
M., Nery, J.R., Castanon, R., Sabatini, K., et al. (2014). Abnormalities in human
pluripotent cells due to reprogramming mechanisms. Nature 511 , 177–183.


Mandal, S., Lindgren, A.G., Srivastava, A.S., Clark, A.T., and Banerjee, U.
(2011). Mitochondrial function controls proliferation and early differentiation
potential of embryonic stem cells. Stem Cells 29 , 486–495.
Marks, H., Kalkan, T., Menafra, R., Denissov, S., Jones, K., Hofemeister, H.,
Nichols, J., Kranz, A., Stewart, A.F., Smith, A., and Stunnenberg, H.G.
(2012). The transcriptional and epigenomic foundations of ground state plurip-
otency. Cell 149 , 590–604.
Mathieu, J., Zhou, W., Xing, Y., Sperber, H., Ferreccio, A., Agoston, Z., Kup-
pusamy, K.T., Moon, R.T., and Ruohola-Baker, H. (2014). Hypoxia-inducible
factors have distinct and stage-specific roles during reprogramming of human
cells to pluripotency. Cell Stem Cell 14 , 592–605.
Marsboom, G., Zhang, G.-F., Pohl-Avila, N., Zhang, Y., Yuan, Y., Kang, H.,
Hao, B., Brunengraber, H., Malik, A.B., and Rehman, J. (2016). Glutamine
metabolism regulates the pluripotency transcription factor OCT4. Cell Rep.
16 , 323–332.
Martin, G.R. (1981). Isolation of a pluripotent cell line from early mouse em-
bryos cultured in medium conditioned by teratocarcinoma stem cells. Proc.
Natl. Acad. Sci. USA 78 , 7634–7638.
Mathieu, J., and Ruohola-Baker, H. (2016). Metabolic remodeLIN of pluripo-
tency. Cell Stem Cell 19 , 3–4.
Matsui, Y., Zsebo, K., and Hogan, B.L.M. (1992). Derivation of pluripotential
embryonic stem cells from murine primordial germ cells in culture. Cell 70 ,
841–847.
Moussaieff, A., Rouleau, M., Kitsberg, D., Cohen, M., Levy, G., Barasch, D.,
Nemirovski, A., Shen-Orr, S., Laevsky, I., Amit, M., et al. (2015). Glycolysis-
mediated changes in acetyl-CoA and histone acetylation control the early dif-
ferentiation of embryonic stem cells. Cell Metab. 21 , 392–402.
Nichols, J., and Smith, A. (2009). Naive and primed pluripotent states. Cell
Stem Cell 4 , 487–492.
Nichols, J., Jones, K., Phillips, J.M., Newland, S.A., Roode, M., Mansfield, W.,
Smith, A., and Cooke, A. (2009). Validated germline-competent embryonic
stem cell lines from nonobese diabetic mice. Nat. Med. 15 , 814–818.
Panopoulos, A.D., Yanes, O., Ruiz, S., Kida, Y.S., Diep, D., Tautenhahn, R.,
Herrerı ́as,A., Batchelder, E.M., Plongthongkum, N., Lutz, M., et al. (2012).
The metabolome of induced pluripotent stem cells reveals metabolic changes
occurring in somatic cell reprogramming. Cell Res. 22 , 168–177.
Perales-Clemente, E., Cook, A.N., Evans, J.M., Roellinger, S., Secreto, F.,
Emmanuele, V., Oglesbee, D., Mootha, V.K., Hirano, M., Schon, E.A., et al.
(2016). Natural underlying mtDNA heteroplasmy as a potential source of
intra-person hiPSC variability. EMBO J., e201694892. Published online July
19, 2016.http://dx.doi.org/10.15252/embj.201694892.
Prigione, A., Fauler, B., Lurz, R., Lehrach, H., and Adjaye, J. (2010). The senes-
cence-related mitochondrial/oxidative stress pathway is repressed in human
induced pluripotent stem cells. Stem Cells 28 , 721–733.
Prigione, A., Hossini, A.M., Lichtner, B., Serin, A., Fauler, B., Megges, M., Lurz,
R., Lehrach, H., Makrantonaki, E., Zouboulis, C.C., et al. (2011). Mitochondrial-
associated cell death mechanisms are reset to an embryonic-like state in aged
donor-derived iPS cells harboring chromosomal aberrations. PLoS One 6 ,
e27352.http://dx.doi.org/10.1371/journal.pone.0027352.
Rashid, S.T., Corbineau, S., Hannan, N., Marciniak, S.J., Miranda, E., Alex-
ander, G., Huang-Doran, I., Griffin, J., Ahrlund-Richter, L., Skepper, J., et al.
(2010). Modeling inherited metabolic disorders of the liver using human
induced pluripotent stem cells. J. Clin. Invest. 120 , 3127–3136.
Raval, K.K., Tao, R., White, B.E., De Lange, W.J., Koonce, C.H., Yu, J., Kish-
nani, P.S., Thomson, J.A., Mosher, D.F., Ralphe, J.C., and Kamp, T.J. (2015).
Pompe disease results in a Golgi-based glycosylation deficit in human induced
pluripotent stem cell-derived cardiomyocytes. J. Biol. Chem. 290 , 3121–3136.
Renfree, M.B., and Shaw, G. (2000). Diapause. Annu. Rev. Physiol. 62 ,
353–375.
Resnick, J.L., Bixler, L.S., Cheng, L., and Donovan, P.J. (1992). Long-term pro-
liferation of mouse primordial germ cells in culture. Nature 359 , 550–551.
Russell, O., and Turnbull, D. (2014). Mitochondrial DNA disease-molecular in-
sights and potential routes to a cure. Exp. Cell Res. 325 , 38–43.

Cell 166 , September 8, 2016 1383
Free download pdf