Metabolic plasticity complements the unique nature and demands of distinct pluripotency states

Metabolic plasticity complements the unique nature and demands of distinct pluripotency states

Mina Popovic, Björn Heindryckx

Ghent-Fertility and Stem Cell Team (G-FaST), Department for Reproductive Medicine, Ghent University Hospital, Ghent, Belgium

Correspondence to: Björn Heindryckx. Ghent-Fertility and Stem Cell Team (G-FaST), Department for Reproductive Medicine, Ghent University Hospital, Ghent, Belgium. Email:

Provenance: This is an invited Commentary commissioned by Editor-in-Chief Zhizhuang Joe Zhao (Pathology Graduate Program, University of Oklahoma Health Sciences Center, Oklahoma, USA).

Comment on: Gu W, Gaeta X, Sahakyan A, et al. Glycolytic Metabolism Plays a Functional Role in Regulating Human Pluripotent Stem Cell State. Cell Stem Cell 2016;19:476-90.

Received: 19 December 2016; Accepted: 29 December 2016; Published: 13 February 2017.

doi: 10.21037/sci.2017.01.03

Pluripotency, the ability to differentiate into all somatic cell types, is a pertinent feature of embryonic stem cells (ESCs). However, during early ontogenesis, in vivo, this capacity only exists transiently (1,2). Within this window of development, extracellular signals governing embryogenesis grant pluripotency a dynamic nature, while molecular changes in cellular identity occur in preparation for further lineage specification (2). By precisely coordinating the cellular microenvironment and embryonic derivation stage, ESCs can be stabilized in distinct states of pluripotency, in vitro. Conventional derivation of human ESCs (hESCs) from the inner cell mass (ICM) of the pre-implantation blastocyst gives rise to stem cells, which are markedly different from mouse ESCs (mESCs). In vitro, hESCs originate from a post-ICM intermediate, a transient epiblast-like structure (3,4). As such, hESCs adopt the distinct primed state of pluripotency, sharing more similarities with mouse epiblast stem cells (mEpiSCs) derived from post-implantation stage embryos (5). Conversely, mESCs, adopt the naive state, which constitutes the functional in vitro equivalent of the pre-implantation epiblast (5).

Primed ESCs display distinct pluripotency associated gene patterns, DNA hyper-methylation, X-chromosome inactivation and are inefficient in forming chimeras. In contrast, naive ESCs display lower variability in pluripotency linked gene expression, global DNA hypo-methylation, two active X-chromosomes in female cells and readily form chimeras (1,2,6). Their restricted gene profile, predisposition to certain lineages, and resistance to clonal expansion often make primed hESCs less favorable for future regenerative applications (1,7). The more homogenous naive state of pluripotency, with seemingly unbiased differentiation potential, has driven research towards the identification of in vitro conditions that preferentially stabilize a similar ground state, in human. To date, various conversion protocols have been established [reviewed in (6)], while direct derivation of naive hESCs from the ICM has also been achieved, although mostly at low efficiency (7-9) and commonly resulting in an abnormal karyotype (9,10).

Primed and naive hESCs are defined by unique transcriptional and epigenetic landscapes, which inherently translate to distinctive shifts in metabolic pathway utilization (7,9,11). Therefore, alterations in metabolism further distinguish these states and support their specific energy and biosynthesis demands (12-14). While primed hESCs depend on glycolytic metabolism, those in the naive state have the capacity to switch their energy dependency between glycolysis and oxidative phosphorylation (13-15). Previous studies have suggested that conversion of hESCs towards the naive state is accompanied by dramatic changes in mitochondrial activation and metabolic realignment (7,16).

By further exploring the notion that metabolic plasticity complements variations in cellular identity and global transcriptomic landscape, Gu et al. establish valuable links between cellular metabolic mechanisms, self-renewal and cell-fate specification in both primed and naive hESCs. The authors demonstrate that shifts in both glycolytic flux and mitochondrial respiration, accompany manipulations of the pluripotency network, with primed and naive hESCs displaying different glycolytic rates. Furthermore, Gu et al. are the first to reveal intriguing differences in response to metabolic changes, relating to the presence of feeder cells in primed hESC conditions. Finally, they examine the potential value of altering cellular metabolism for directing preferential lineage specification.

By investigating metabolic profiles of naive hESCs converted in 5i/LAF conditions (9), as well as naive/reset cells (17), Gu et al. reveal that naive hESCs display an increased rate of glycolysis, coupled with higher MYC transcriptional activity and increased nuclear N-MYC and C-MYC levels, compared to their primed counterparts. In the mouse the opposite is true. Mouse EpiSCs have been shown to have a higher glycolytic rate, when compared to mESCs (15). Gu et al. suggest that this may be due to species specific differences relating to C-MYC expression, which serve to promote glycolysis. Nuclear C-MYC, is higher in mEpiSCs and naive hESCs, while lower levels of C-MYC were found in primed hESCs and naive mESCs. Despite broad similarities, mEpiSCs and primed hESCs exhibit crucial differences in gene expression (18). Differences in metabolic regulation, further confirm that these cell types are not developmentally equivalent.

The authors also observed higher glycolytic rates in hESCs derived directly from human blastocysts in naive 5i/LAF conditions. Gene enrichment analysis, revealed elevated MYC targets in both naive conditions, as well as a similarly significant enrichment in pre-implantation blastocysts. Hence, Gu et al. not only establish a link between increased glucose consumption and the naive state in vitro, but propose that such glycolytic pathway gene expression may characterize naive pluripotency, in vivo. However due to the dynamic nature of metabolism, defining unique metabolic signatures for specific developmental contexts may prove challenging (19).

Gu et al. stress that the aforementioned changes were only observed following complete transition to the naive state, emphasizing that increased glycolytic flux requires the acquisition of naive cell identity. As the stabilization of the human naive state requires precise coordination of the pluripotency network by targeting signaling pathways, investigating the role of specific signaling molecules in regulating naive hESC metabolism will also be of interest. Notable differences have been described in the growing number of reported hESC naive conditions, suggesting that they may represent a broader spectrum of developmental states (2,6,9,20). Interestingly, the findings by Gu et al. suggest a conserved metabolic profile across various naive conditions. These data are in agreement with the meta-analysis performed by Huang et al., describing common mitochondrial, RNA processing and ribosomal biogenesis genes in naive hESCs that were generated by different protocols (1,20). More extensive comparative transcriptomic and epigenetic profiling combined with metabolic analysis will further elucidate this hypothesis.

Gu et al. highlight the importance of glycolysis for self-renewal of primed and naive hESCs and are the first to investigate, in detail, the impact of feeders in response to glycolysis inhibition in primed hESCs. Inhibiting glycolysis, resulted in impaired proliferation in naive and feeder free (FF) primed hESCs, but not in feeder supported (FS) primed hESCs. The authors show that MEF-secreted factor regulation decreased the reliance of primed hESC on glycolysis for proliferation, which in turn decreased MYC and N-MYC levels. Conversely, FF primed hESCs utilized glucose more for biosynthesis than FS primed hESCs, leading to an increased reliance on glucose, with higher MYC and N-MYC transcription. Gu et al. employ Matrigel for their FF cultures. It remains to be elucidated how metabolism is affected by other FF systems, such as laminin isoforms, which constitute the extracellular matrix of the ICM. These have been found to be more optimal for long-term survival of both primed and naive hESCs (21). With the aim of further improving naive culture conditions, establishing the effects of FF conditions on naive hESC metabolism also seems relevant.

Changes in cellular demands during hESC differentiation, promote variations in metabolic regulation. Gu et al. show that manipulating glycolysis can, in fact, direct cell fate towards specific lineages. Transcriptome sequencing revealed that inhibition of glycolysis in FF primed hESC, induced neuronal lineage specification. Moreover, glycolysis inhibition increased the efficiency of directed neuronal differentiation. Therefore, understanding the processes regulating hESC metabolism will undoubtedly serve to further optimize hESC specification protocols.

Gu et al. skillfully highlight the dynamic nature of metabolism and its role in facilitating changes in cellular identity and function. Such insights are of immense value not only for understanding the biology of ESCs, but also their developmental contexts. Elucidating the underlying mechanisms regulating pluripotency, development, self-renewal and cellular function is essential for future clinical applications of hESCs.


Funding: M Popovic is supported by a doctoral grant provided by the Special Research Fund (Bijzonder Onderzoeksfonds, BOF, Ghent University, 01D08114). B Heindryckx is supported by the Concerted Research Actions funding from Bijzonder Onderzoeksfonds, Ghent University (BOF GOA, 01G01112) and the Flemish Foundation of Scientific Research (FWO-Vlaanderen, G051516N).


Conflicts of Interest: The authors have no conflicts of interest to declare.


  1. Davidson KC, Mason EA, Pera MF. The pluripotent state in mouse and human. Development 2015;142:3090-9. [Crossref] [PubMed]
  2. Weinberger L, Ayyash M, Novershtern N, et al. Dynamic stem cell states: naive to primed pluripotency in rodents and humans. Nat Rev Mol Cell Biol 2016;17:155-69. [Crossref] [PubMed]
  3. O'Leary T, Heindryckx B, Lierman S, et al. Derivation of human embryonic stem cells using a post-inner cell mass intermediate. Nat Protoc 2013;8:254-64. [Crossref] [PubMed]
  4. O'Leary T, Heindryckx B, Lierman S, et al. Tracking the progression of the human inner cell mass during embryonic stem cell derivation. Nat Biotechnol 2012;30:278-82. [Crossref] [PubMed]
  5. Nichols J, Smith A. Naive and primed pluripotent states. Cell Stem Cell 2009;4:487-92. [Crossref] [PubMed]
  6. Van der Jeught M, O'Leary T, Duggal G, et al. The post-inner cell mass intermediate: implications for stem cell biology and assisted reproductive technology. Hum Reprod Update 2015;21:616-26. [Crossref] [PubMed]
  7. Ware CB, Nelson AM, Mecham B, et al. Derivation of naive human embryonic stem cells. Proc Natl Acad Sci U S A 2014;111:4484-9. [Crossref] [PubMed]
  8. Gafni O, Weinberger L, Mansour AA, et al. Derivation of novel human ground state naive pluripotent stem cells. Nature 2013;504:282-6. [Crossref] [PubMed]
  9. Theunissen TW, Powell BE, Wang H, et al. Systematic identification of culture conditions for induction and maintenance of naive human pluripotency. Cell Stem Cell 2014;15:471-87. [Crossref] [PubMed]
  10. Guo G, von Meyenn F, Santos F, et al. Naive Pluripotent Stem Cells Derived Directly from Isolated Cells of the Human Inner Cell Mass. Stem Cell Reports 2016;6:437-46. [Crossref] [PubMed]
  11. Duggal G, Warrier S, Ghimire S, et al. Alternative Routes to Induce Naïve Pluripotency in Human Embryonic Stem Cells. Stem Cells 2015;33:2686-98. [Crossref] [PubMed]
  12. Wu J, Izpisua Belmonte JC. Metabolic exit from naive pluripotency. Nat Cell Biol 2015;17:1519-21. [Crossref] [PubMed]
  13. Folmes CD, Dzeja PP, Nelson TJ, et al. Metabolic plasticity in stem cell homeostasis and differentiation. Cell Stem Cell 2012;11:596-606. [Crossref] [PubMed]
  14. Zhang J, Nuebel E, Daley GQ, et al. Metabolic regulation in pluripotent stem cells during reprogramming and self-renewal. Cell Stem Cell 2012;11:589-95. [Crossref] [PubMed]
  15. Zhou W, Choi M, Margineantu D, et al. HIF1α induced switch from bivalent to exclusively glycolytic metabolism during ESC-to-EpiSC/hESC transition. EMBO J 2012;31:2103-16. [Crossref] [PubMed]
  16. Takashima Y, Guo G, Loos R, et al. Resetting transcription factor control circuitry toward ground-state pluripotency in human. Cell 2014;158:1254-69. [Crossref] [PubMed]
  17. Takashima Y, Guo G, Loos R, et al. Erratum: Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human. Cell 2015;162:452-53. [Crossref]
  18. Pera MF, Tam PP. Extrinsic regulation of pluripotent stem cells. Nature 2010;465:713-20. [Crossref] [PubMed]
  19. Mlody B, Prigione A. A Glycolytic Solution for Pluripotent Stem Cells. Cell Stem Cell 2016;19:419-20. [Crossref] [PubMed]
  20. Huang K, Maruyama T, Fan G. The naive state of human pluripotent stem cells: a synthesis of stem cell and preimplantation embryo transcriptome analyses. Cell Stem Cell 2014;15:410-5. [Crossref] [PubMed]
  21. Rodin S, Antonsson L, Niaudet C, et al. Clonal culturing of human embryonic stem cells on laminin-521/E-cadherin matrix in defined and xeno-free environment. Nat Commun 2014;5:3195. [Crossref] [PubMed]
doi: 10.21037/sci.2017.01.03
Cite this article as: Popovic M, Heindryckx B. Metabolic plasticity complements the unique nature and demands of distinct pluripotency states. Stem Cell Investig 2017;4:9.