Literature DB >> 33004674

Gene regulatory networks controlling vertebrate retinal regeneration.

Thanh Hoang1, Jie Wang2, Patrick Boyd3,4,5, Fang Wang2, Clayton Santiago1, Lizhi Jiang1, Sooyeon Yoo1, Manuela Lahne3,4,5, Levi J Todd6, Meng Jia3,4,5, Cristian Saez1, Casey Keuthan7, Isabella Palazzo6, Natalie Squires6, Warren A Campbell6, Fatemeh Rajaii2, Trisha Parayil1, Vickie Trinh1, Dong Won Kim1, Guohua Wang2, Leah J Campbell3,4,5, John Ash7, Andy J Fischer6, David R Hyde8,4,5, Jiang Qian9, Seth Blackshaw10,2,11,12,13,14.   

Abstract

Injury induces retinal Müller glia of certain cold-blooded vertebrates, but not those of mammals, to regenerate neurons. To identify gene regulatory networks that reprogram Müller glia into progenitor cells, we profiled changes in gene expression and chromatin accessibility in Müller glia from zebrafish, chick, and mice in response to different stimuli. We identified evolutionarily conserved and species-specific gene networks controlling glial quiescence, reactivity, and neurogenesis. In zebrafish and chick, the transition from quiescence to reactivity is essential for retinal regeneration, whereas in mice, a dedicated network suppresses neurogenic competence and restores quiescence. Disruption of nuclear factor I transcription factors, which maintain and restore quiescence, induces Müller glia to proliferate and generate neurons in adult mice after injury. These findings may aid in designing therapies to restore retinal neurons lost to degenerative diseases.
Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.

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Year:  2020        PMID: 33004674      PMCID: PMC7899183          DOI: 10.1126/science.abb8598

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   63.714


  57 in total

1.  The proneural basic helix-loop-helix gene ascl1a is required for retina regeneration.

Authors:  Blake V Fausett; Jessica D Gumerson; Daniel Goldman
Journal:  J Neurosci       Date:  2008-01-30       Impact factor: 6.167

2.  Fast gapped-read alignment with Bowtie 2.

Authors:  Ben Langmead; Steven L Salzberg
Journal:  Nat Methods       Date:  2012-03-04       Impact factor: 28.547

3.  FIMO: scanning for occurrences of a given motif.

Authors:  Charles E Grant; Timothy L Bailey; William Stafford Noble
Journal:  Bioinformatics       Date:  2011-02-16       Impact factor: 6.937

4.  Vsx2 in the zebrafish retina: restricted lineages through derepression.

Authors:  Marta Vitorino; Patricia R Jusuf; Daniel Maurus; Yukiko Kimura; Shin-Ichi Higashijima; William A Harris
Journal:  Neural Dev       Date:  2009-04-03       Impact factor: 3.842

5.  DNase footprint signatures are dictated by factor dynamics and DNA sequence.

Authors:  Myong-Hee Sung; Michael J Guertin; Songjoon Baek; Gordon L Hager
Journal:  Mol Cell       Date:  2014-09-18       Impact factor: 17.970

6.  Characterization of Müller glia and neuronal progenitors during adult zebrafish retinal regeneration.

Authors:  Ryan Thummel; Sean C Kassen; Jennifer M Enright; Craig M Nelson; Jacob E Montgomery; David R Hyde
Journal:  Exp Eye Res       Date:  2008-08-05       Impact factor: 3.467

7.  Tumor necrosis factor-alpha is produced by dying retinal neurons and is required for Muller glia proliferation during zebrafish retinal regeneration.

Authors:  Craig M Nelson; Kristin M Ackerman; Patrick O'Hayer; Travis J Bailey; Ryne A Gorsuch; David R Hyde
Journal:  J Neurosci       Date:  2013-04-10       Impact factor: 6.167

8.  HTSeq--a Python framework to work with high-throughput sequencing data.

Authors:  Simon Anders; Paul Theodor Pyl; Wolfgang Huber
Journal:  Bioinformatics       Date:  2014-09-25       Impact factor: 6.937

9.  Epigenomic profiling of retinal progenitors reveals LHX2 is required for developmental regulation of open chromatin.

Authors:  Cristina Zibetti; Sheng Liu; Jun Wan; Jiang Qian; Seth Blackshaw
Journal:  Commun Biol       Date:  2019-04-25

10.  Fast interpolation-based t-SNE for improved visualization of single-cell RNA-seq data.

Authors:  George C Linderman; Manas Rachh; Jeremy G Hoskins; Stefan Steinerberger; Yuval Kluger
Journal:  Nat Methods       Date:  2019-02-11       Impact factor: 28.547

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  67 in total

1.  A short and long distance relationship.

Authors:  Ashley York
Journal:  Nat Rev Microbiol       Date:  2020-11       Impact factor: 60.633

2.  Structural evidence for visual arrestin priming via complexation of phosphoinositols.

Authors:  Christopher L Sander; Jennings Luu; Kyumhyuk Kim; David Furkert; Kiyoung Jang; Joerg Reichenwallner; MinSoung Kang; Ho-Jun Lee; Bryan T Eger; Hui-Woog Choe; Dorothea Fiedler; Oliver P Ernst; Yong Ju Kim; Krzysztof Palczewski; Philip D Kiser
Journal:  Structure       Date:  2021-10-21       Impact factor: 5.006

Review 3.  Evidence of regional specializations in regenerated zebrafish retina.

Authors:  Deborah L Stenkamp; Derek D Viall; Diana M Mitchell
Journal:  Exp Eye Res       Date:  2021-10-13       Impact factor: 3.467

4.  Notch signaling via Hey1 and Id2b regulates Müller glia's regenerative response to retinal injury.

Authors:  Aresh Sahu; Sulochana Devi; Jonathan Jui; Daniel Goldman
Journal:  Glia       Date:  2021-08-20       Impact factor: 7.452

5.  Efficient stimulation of retinal regeneration from Müller glia in adult mice using combinations of proneural bHLH transcription factors.

Authors:  Levi Todd; Marcus J Hooper; Alexandra K Haugan; Connor Finkbeiner; Nikolas Jorstad; Nicholas Radulovich; Claire K Wong; Phoebe C Donaldson; Wesley Jenkins; Qiang Chen; Fred Rieke; Thomas A Reh
Journal:  Cell Rep       Date:  2021-10-19       Impact factor: 9.423

Review 6.  Turning lead into gold: reprogramming retinal cells to cure blindness.

Authors:  Seth Blackshaw; Joshua R Sanes
Journal:  J Clin Invest       Date:  2021-02-01       Impact factor: 14.808

7.  Single Cell Transcriptomic Analyses Reveal the Impact of bHLH Factors on Human Retinal Organoid Development.

Authors:  Xiangmei Zhang; Igor Mandric; Kevin H Nguyen; Thao T T Nguyen; Matteo Pellegrini; James C R Grove; Steven Barnes; Xian-Jie Yang
Journal:  Front Cell Dev Biol       Date:  2021-05-13

8.  Midkine is neuroprotective and influences glial reactivity and the formation of Müller glia-derived progenitor cells in chick and mouse retinas.

Authors:  Warren A Campbell; Amanda Fritsch-Kelleher; Isabella Palazzo; Thanh Hoang; Seth Blackshaw; Andy J Fischer
Journal:  Glia       Date:  2021-02-10       Impact factor: 7.452

9.  Differential Regenerative Capacity of the Optic Tectum of Adult Medaka and Zebrafish.

Authors:  Yuki Shimizu; Takashi Kawasaki
Journal:  Front Cell Dev Biol       Date:  2021-06-29

10.  Control of neurogenic competence in mammalian hypothalamic tanycytes.

Authors:  Sooyeon Yoo; Juhyun Kim; Pin Lyu; Thanh V Hoang; Alex Ma; Vickie Trinh; Weina Dai; Lizhi Jiang; Patrick Leavey; Leighton Duncan; Jae-Kyung Won; Sung-Hye Park; Jiang Qian; Solange P Brown; Seth Blackshaw
Journal:  Sci Adv       Date:  2021-05-28       Impact factor: 14.136

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