Cargando…
Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt
Intestinal stem cells are non-quiescent, dividing epithelial cells that rapidly differentiate into progenitor cells of the absorptive and secretory cell lineages. The kinetics of this process is rapid such that the epithelium is replaced weekly. To determine how the transcriptome and proteome keep p...
Autores principales: | , , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2020
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7438495/ https://www.ncbi.nlm.nih.gov/pubmed/32814826 http://dx.doi.org/10.1038/s42003-020-01181-z |
_version_ | 1783572801413709824 |
---|---|
author | Habowski, Amber N. Flesher, Jessica L. Bates, Jennifer M. Tsai, Chia-Feng Martin, Kendall Zhao, Rui Ganesan, Anand K. Edwards, Robert A. Shi, Tujin Wiley, H. Steven Shi, Yongsheng Hertel, Klemens J. Waterman, Marian L. |
author_facet | Habowski, Amber N. Flesher, Jessica L. Bates, Jennifer M. Tsai, Chia-Feng Martin, Kendall Zhao, Rui Ganesan, Anand K. Edwards, Robert A. Shi, Tujin Wiley, H. Steven Shi, Yongsheng Hertel, Klemens J. Waterman, Marian L. |
author_sort | Habowski, Amber N. |
collection | PubMed |
description | Intestinal stem cells are non-quiescent, dividing epithelial cells that rapidly differentiate into progenitor cells of the absorptive and secretory cell lineages. The kinetics of this process is rapid such that the epithelium is replaced weekly. To determine how the transcriptome and proteome keep pace with rapid differentiation, we developed a new cell sorting method to purify mouse colon epithelial cells. Here we show that alternative mRNA splicing and polyadenylation dominate changes in the transcriptome as stem cells differentiate into progenitors. In contrast, as progenitors differentiate into mature cell types, changes in mRNA levels dominate the transcriptome. RNA processing targets regulators of cell cycle, RNA, cell adhesion, SUMOylation, and Wnt and Notch signaling. Additionally, global proteome profiling detected >2,800 proteins and revealed RNA:protein patterns of abundance and correlation. Paired together, these data highlight new potentials for autocrine and feedback regulation and provide new insights into cell state transitions in the crypt. |
format | Online Article Text |
id | pubmed-7438495 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-74384952020-08-27 Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt Habowski, Amber N. Flesher, Jessica L. Bates, Jennifer M. Tsai, Chia-Feng Martin, Kendall Zhao, Rui Ganesan, Anand K. Edwards, Robert A. Shi, Tujin Wiley, H. Steven Shi, Yongsheng Hertel, Klemens J. Waterman, Marian L. Commun Biol Article Intestinal stem cells are non-quiescent, dividing epithelial cells that rapidly differentiate into progenitor cells of the absorptive and secretory cell lineages. The kinetics of this process is rapid such that the epithelium is replaced weekly. To determine how the transcriptome and proteome keep pace with rapid differentiation, we developed a new cell sorting method to purify mouse colon epithelial cells. Here we show that alternative mRNA splicing and polyadenylation dominate changes in the transcriptome as stem cells differentiate into progenitors. In contrast, as progenitors differentiate into mature cell types, changes in mRNA levels dominate the transcriptome. RNA processing targets regulators of cell cycle, RNA, cell adhesion, SUMOylation, and Wnt and Notch signaling. Additionally, global proteome profiling detected >2,800 proteins and revealed RNA:protein patterns of abundance and correlation. Paired together, these data highlight new potentials for autocrine and feedback regulation and provide new insights into cell state transitions in the crypt. Nature Publishing Group UK 2020-08-19 /pmc/articles/PMC7438495/ /pubmed/32814826 http://dx.doi.org/10.1038/s42003-020-01181-z Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Habowski, Amber N. Flesher, Jessica L. Bates, Jennifer M. Tsai, Chia-Feng Martin, Kendall Zhao, Rui Ganesan, Anand K. Edwards, Robert A. Shi, Tujin Wiley, H. Steven Shi, Yongsheng Hertel, Klemens J. Waterman, Marian L. Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
title | Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
title_full | Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
title_fullStr | Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
title_full_unstemmed | Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
title_short | Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
title_sort | transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7438495/ https://www.ncbi.nlm.nih.gov/pubmed/32814826 http://dx.doi.org/10.1038/s42003-020-01181-z |
work_keys_str_mv | AT habowskiambern transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT flesherjessical transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT batesjenniferm transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT tsaichiafeng transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT martinkendall transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT zhaorui transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT ganesananandk transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT edwardsroberta transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT shitujin transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT wileyhsteven transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT shiyongsheng transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT hertelklemensj transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt AT watermanmarianl transcriptomicandproteomicsignaturesofstemnessanddifferentiationinthecoloncrypt |