Cited by 84Hair Growth and DisordersSkin and Cellular Biology ResearchDevelopmental Biology and Gene Regulation

Gradual differentiation uncoupled from cell cycle exit generates heterogeneity in the epidermal stem cell layer

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Cockburn, Katie, Annusver, Karl, Gonzalez, David G., Ganesan, Smirthy, May, Dennis P., Mesa, Kailin R., Kawaguchi, Kyogo, Kasper, Maria +1 more·2022·Nature Cell Biology

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Abstract

Highly regenerative tissues continuously produce terminally differentiated cells to replace those that are lost. How they orchestrate the complex transition from undifferentiated stem cells towards post-mitotic, molecularly distinct and often spatially segregated differentiated populations is not well understood. In the adult skin epidermis, the stem cell compartment contains molecularly heterogeneous subpopulations 1–4 whose relationship to the complete trajectory of differentiation remains unknown. Here we show that differentiation, from commitment to exit from the stem cell layer, is a multi-day process wherein cells transit through a continuum of transcriptional changes with upregulation of differentiation genes preceding downregulation of typical stemness genes. Differentiation-committed cells remain capable of dividing to produce daughter cells fated to further differentiate, demonstrating that differentiation is uncoupled from cell cycle exit. These cell divisions are not required as part of an obligate transit-amplifying programme but help to buffer the differentiating cell pool during heightened demand. Thus, instead of distinct contributions from multiple progenitors, a continuous gradual differentiation process fuels homeostatic epidermal turnover.

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  • Overlapping TF gradients accompany cellular differentiation in systems including exit from pluripotency, organogenesis, and tissue regeneration by adult stem cells.

    “Similar overlapping TF gradients accompany cellular differentiation in systems ranging from the exit from pluripotency5 over organogenesis6 to tissue regeneration by other adult stem cells.7,8”

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  1. [1]Mascré G Distinct contribution of stem and progenitor cells to epidermal maintenance Nature 2012 489 257 262 10.1038/nature11393 22940863 · DOI
  2. [2]Sánchez-Danés A Defining the clonal dynamics leading to mouse skin tumour initiation SCs but not CPs initiate BCC formation Nature 2016 536 298 303 10.1038/nature19069 27459053 PMC5068560 · DOI
  3. [3]Ichijo R Vasculature-driven stem cell population coordinates tissue scaling in dynamic organs Sci. Adv. 2021 7 eabd2575 10.1126/sciadv.abd2575 33568475 PMC7875541 · DOI
  4. [4]Sada A Defining the cellular lineage hierarchy in the interfollicular epidermis of adult skin Nat. Cell Biol. 2016 18 619 631 10.1038/ncb3359 27183471 PMC4884151 · DOI
  5. [5]Barker N Adult intestinal stem cells: critical drivers of epithelial homeostasis and regeneration Nat. Rev. Mol. Cell Biol. 2013 15 19 33 10.1038/nrm3721 24326621 · DOI
  6. [6]Zhang B Hsu YC Emerging roles of transit-amplifying cells in tissue regeneration and cancer Wiley Interdiscip. Rev. Dev. Biol. 2017 6 1 14 10.1002/wdev.282 PMC5561490 28670819 · DOI
  7. [7]Lavker RM Sun T-T Epithelial stem cells: the eye provides a vision Eye 2003 17 937 942 10.1038/sj.eye.6700575 14631400 · DOI
  8. [9]Doupé DP Klein AM Simons BD Jones PH The ordered architecture of murine ear epidermis is maintained by progenitor cells with random fate Dev. Cell 2010 18 317 323 10.1016/j.devcel.2009.12.016 20159601 · DOI
  9. [10]Rompolas P Spatiotemporal coordination of stem cell commitment during epidermal homeostasis Science 2016 352 1471 1474 10.1126/science.aaf7012 27229141 PMC4958018 · DOI
  10. [11]Piedrafita G A single-progenitor model as the unifying paradigm of epidermal and esophageal epithelial maintenance in mice Nat. Commun. 2020 11 1 15 10.1038/s41467-020-15258-0 32188860 PMC7080751 · DOI
  11. [12]Braun KM Manipulation of stem cell proliferation and lineage commitment: visualisation of label-retaining cells in wholemounts of mouse epidermis Development 2003 130 5241 5255 10.1242/dev.00703 12954714 · DOI · Paper page
  12. [13]Schweizer J Kinjo M Furstenberger G Winter H Sequential expression of mRNA-encoded keratin sets in neonatal mouse epidermis: basal cells with properties of terminally differentiating cells Cell 1984 37 159 170 10.1016/0092-8674(84)90311-8 6202418 · DOI
  13. [14]Connelly JT Actin and serum response factor transduce physical cues from the microenvironment to regulate epidermal stem cell fate decisions Nat. Cell Biol. 2010 12 711 718 10.1038/ncb2074 20581838 · DOI
  14. [15]Muroyama A Lechler T A transgenic toolkit for visualizing and perturbing microtubules reveals unexpected functions in the epidermis eLife 2017 6 e29834 10.7554/eLife.29834 28869035 PMC5605193 · DOI
  15. [16]Eisenhoffer GT Crowding induces live cell extrusion to maintain homeostatic cell numbers in epithelia Nature 2012 484 546 549 10.1038/nature10999 22504183 PMC4593481 · DOI
  16. [17]Marinari E Live-cell delamination counterbalances epithelial growth to limit tissue overcrowding Nature 2012 484 542 545 10.1038/nature10984 22504180 · DOI
  17. [18]Miroshnikova YA Adhesion forces and cortical tension couple cell proliferation and differentiation to drive epidermal stratification Nat. Cell Biol. 2018 20 69 80 10.1038/s41556-017-0005-z 29230016 · DOI
  18. [20]Joost S The molecular anatomy of mouse skin during hair growth and rest Cell Stem Cell 2020 26 441 457.e7 10.1016/j.stem.2020.01.012 32109378 · DOI
  19. [21]Jones KB Quantitative clonal analysis and single-cell transcriptomics reveal division kinetics, hierarchy, and fate of oral epithelial progenitor cells Cell Stem Cell 2019 24 183 192.e8 10.1016/j.stem.2018.10.015 30472156 PMC6320295 · DOI
  20. [22]Aragona M Mechanisms of stretch-mediated skin expansion at single-cell resolution Nature 2020 584 268 273 10.1038/s41586-020-2555-7 32728211 PMC7116042 · DOI
  21. [23]Drexler HL Choquet K Churchman LS Splicing kinetics and coordination revealed by direct nascent RNA sequencing through nanopores Mol. Cell 2020 77 985 998.e8 10.1016/j.molcel.2019.11.017 31839405 PMC7060811 · DOI
  22. [24]Singh J Padgett RA Rates of in situ transcription and splicing in large human genes Nat. Struct. Mol. Biol. 2009 16 1128 1133 10.1038/nsmb.1666 19820712 PMC2783620 · DOI · Paper page
  23. [25]Mesa KR Homeostatic epidermal stem cell self-renewal is driven by local differentiation Cell Stem Cell 2018 23 677 686.e4 10.1016/j.stem.2018.09.005 30269903 PMC6214709 · DOI
  24. [26]Pruitt SC Freeland A Rusiniak ME Kunnev D Cady GK Cdkn1b overexpression in adult mice alters the balance between genome and tissue ageing Nat. Commun. 2013 4 1 12 10.1038/ncomms3626 PMC3825507 24149709 · DOI
  25. [27]Reichelt J Büssow H Grund C Magin TM Formation of a normal epidermis supported by increased stability of keratins 5 and 14 in keratin 10 null mice Mol. Biol. Cell 2001 12 1557 1568 10.1091/mbc.12.6.1557 11408568 PMC37324 · DOI
  26. [28]Wallace L Roberts-Thompson L Reichelt J Deletion of K1/K10 does not impair epidermal stratification but affects desmosomal structure and nuclear integrity J. Cell Sci. 2012 125 1750 1758 22375063
  27. [29]Maytin EV Keratin 10 gene expression during differentiation of mouse epidermis requires transcription factors C/EBP and AP-2 Dev. Biol. 1999 216 164 181 10.1006/dbio.1999.9460 10588870 · DOI
  28. [30]Zhu S C/EBPbeta modulates the early events of keratinocyte differentiation involving growth arrest and keratin 1 and keratin 10 expression Mol. Cell. Biol. 1999 19 7181 7190 10.1128/MCB.19.10.7181 10490653 PMC84711 · DOI
  29. [31]Blanpain C Lowry WE Pasolli HA Fuchs E Canonical notch signaling functions as a commitment switch in the epidermal lineage Genes Dev. 2006 20 3022 3035 10.1101/gad.1477606 17079689 PMC1620020 · DOI
  30. [32]Wang X Pasolli HA Williams T Fuchs E AP-2 factors act in concert with Notch to orchestrate terminal differentiation in skin epidermis J. Cell Biol. 2008 183 37 48 10.1083/jcb.200804030 18824566 PMC2557040 · DOI
  31. [33]Lopez RG C/EBPα and β couple interfollicular keratinocyte proliferation arrest to commitment and terminal differentiation Nat. Cell Biol. 2009 11 1181 1190 10.1038/ncb1960 19749746 · DOI · Paper page
  32. [34]Kim DS The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation Nat. Genet. 2021 53 1564 10.1038/s41588-021-00947-3 34650237 PMC8763320 · DOI
  33. [35]Van de Sande B A scalable SCENIC workflow for single-cell gene regulatory network analysis Nat. Protoc. 2020 15 2247 2276 10.1038/s41596-020-0336-2 32561888 · DOI · Paper page
  34. [36]Genander, M. et al. BMP signaling and its pSMAD1/5 target genes differentially regulate hair follicle stem cell lineages. Stem Cell 1–16 (2014). PMC4276600 25312496
  35. [37]Truong AB Kretz M Ridky TW Kimmel R Khavari PA p63 regulates proliferation and differentiation of developmentally mature keratinocytes Genes Dev. 2006 20 3185 3197 10.1101/gad.1463206 17114587 PMC1635152 · DOI
  36. [38]Lee B Transcriptional mechanisms link epithelial plasticity to adhesion and differentiation of epidermal progenitor cells Dev. Cell 2014 29 47 58 10.1016/j.devcel.2014.03.005 24735878 PMC4153751 · DOI
  37. [39]Yang CP Comprehensive integrative analyses identify GLT8D1 and CSNK2B as schizophrenia risk genes Nat. Commun. 2018 9 1 16 10.1038/s41467-018-07401-9 29483533 PMC5826945 · DOI
  38. [40]Muzumdar MD Tasic B Miyamichi K Li L Luo L A global double-fluorescent Cre reporter mouse Genesis 2007 45 593 605 10.1002/dvg.20335 17868096 · DOI · Paper page
  39. [41]Vasioukhin V Degenstein L Wise B Fuchs E The magical touch: genome targeting in epidermal stem cells induced by tamoxifen application to mouse skin Proc. Natl Acad. Sci. USA 1999 96 8551 8556 10.1073/pnas.96.15.8551 10411913 PMC17554 · DOI
  40. [42]Lapouge G Identifying the cellular origin of squamous skin tumors Proc. Natl Acad. Sci. USA 2011 108 7431 7436 10.1073/pnas.1012720108 21502497 PMC3088632 · DOI
  41. [43]Madisen L A robust and high-throughput Cre reporting and characterization system for the whole mouse brain Nat. Neurosci. 2010 13 133 140 10.1038/nn.2467 20023653 PMC2840225 · DOI · Paper page
  42. [44]Tumbar T Defining the epithelial stem cell niche in skin Science 2004 303 359 363 10.1126/science.1092436 14671312 PMC2405920 · DOI · Paper page
  43. [45]Riedl J Lifeact mice for studying F-actin dynamics Nat. Methods 2010 7 168 169 10.1038/nmeth0310-168 20195247 · DOI
  44. [46]Bao J Ma X Liu C Adelstein RS Replacement of nonmuscle myosin II-B with II-A rescues brain but not cardiac defects in mice J. Biol. Chem. 2007 282 22102 22111 10.1074/jbc.M702731200 17519229 · DOI
  45. [47]Abe T Visualization of cell cycle in mouse embryos with Fucci2 reporter directed by Rosa26 promoter Development 2012 140 237 246 10.1242/dev.084111 23175634 · DOI
  46. [48]Mesa KR Niche-induced cell death and epithelial phagocytosis regulate hair follicle stem cell pool Nature 2015 522 94 97 10.1038/nature14306 25849774 PMC4457634 · DOI
  47. [49]Rueden CT ImageJ2: ImageJ for the next generation of scientific image data BMC Bioinform. 2017 18 529 10.1186/s12859-017-1934-z PMC5708080 29187165 · DOI
  48. [50]Schindelin J Fiji: an open-source platform for biological-image analysis Nat. Methods 2012 9 676 682 10.1038/nmeth.2019 22743772 PMC3855844 · DOI · Paper page
  49. [52]van Dijk D Recovering gene interactions from single-cell data using data diffusion Cell 2018 174 716 729.e27 10.1016/j.cell.2018.05.061 29961576 PMC6771278 · DOI · Paper page
  50. [54]Haghverdi L Büttner M Wolf FA Buettner F Theis FJ Diffusion pseudotime robustly reconstructs lineage branching Nat. Methods 2016 13 845 848 10.1038/nmeth.3971 27571553 · DOI · Paper page
  51. [55]La Manno G RNA velocity of single cells Nature 2018 560 494 498 10.1038/s41586-018-0414-6 30089906 PMC6130801 · DOI · Paper page

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Authors
Cockburn, K., Annusver, K., Gonzalez, D. G., Ganesan, S., May, D. P., Mesa, K. R., Kawaguchi, K., Kasper, M., & Greco, V.
Affiliations
  • Yale University (US)
  • Karolinska Institutet (SE)
  • RIKEN (JP)
  • Yale Cancer Center (US)
Corresponding author
  • Kasper, Maria
  • Greco, Valentina
Venue
Nature Cell Biology
Published
2022-11-10
Volume
24
Issue
12
Pages
1692-1700
ISSN
  • 1465-7392 (ISSN-L)
  • 1476-4679
OpenAlex
W4308767144
Cited by
84
References
3
Citations by year
2026: 22 · 2025: 16 · 2024: 16 · 2023: 18 · 2022: 8 · 2021: 4
FWCI
16.06
Type
journal article
Language
en
Open access
Locations
  • Nature Cell Biology (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
Funders
  • New York Stem Cell Foundation
  • Gouvernement du Canada | Instituts de Recherche en Santé du Canada | CIHR Skin Research Training Centre
  • Karolinska Institutet (2-2111/2019)
  • Human Frontier Science Program
  • MEXT | Japan Society for the Promotion of Science (JP18H04760, JP18K13515, JP19H05275, JP19H05795)
  • Stiftelsen för Strategisk Forskning (FFL12-0133)
  • Cancerfonden (CAN 2018/793; 21 1821 Pj)
  • Svenska Forskningsrådet Formas (2018-02963)
  • U.S. Department of Health & Human Services | NIH | National Institute of Arthritis and Musculoskeletal and Skin Diseases (R01AR063663, R01AR072668, DP1AG066590)
  • Howard Hughes Medical Institute (Scholar Award)
Topics
  • Health Sciences › Medicine › Urology › Hair Growth and Disorders
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Skin and Cellular Biology Research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
Keywords
epidermal stem cells, skin regeneration, cell differentiation, cell cycle exit, stem cell heterogeneity, stemness genes, differentiation genes, epidermal turnover, tissue homeostasis, gene expression changes
MeSH terms
Cell Cycle, Cell Differentiation, Cell Division, Stem Cells

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