論文

2014年10月

A Transcriptome for the Study of Early Processes of Retinal Regeneration in the Adult Newt, Cynops pyrrhogaster

PLOS ONE
  • Kenta Nakamura
  • ,
  • Md. Rafiqul Islam
  • ,
  • Miyako Takayanagi
  • ,
  • Hirofumi Yasumuro
  • ,
  • Wataru Inami
  • ,
  • Ailidana Kunahong
  • ,
  • Roman M. Casco-Robles
  • ,
  • Fubito Toyama
  • ,
  • Chikafumi Chiba

9
10
記述言語
英語
掲載種別
研究論文(学術雑誌)
DOI
10.1371/journal.pone.0109831
出版者・発行元
PUBLIC LIBRARY SCIENCE

Retinal regeneration in the adult newt is a useful system to uncover essential mechanisms underlying the regeneration of body parts of this animal as well as to find clues to treat retinal disorders such as proliferative vitreoretinopathy. Here, to facilitate the study of early processes of retinal regeneration, we provide a de novo assembly transcriptome and inferred proteome of the Japanese fire bellied newt (Cynops pyrrhogaster), which was obtained from eyeball samples of day 0-14 after surgical removal of the lens and neural retina. This transcriptome (237,120 in silico transcripts) contains most information of cDNAs/ESTs which has been reported in newts (C. pyrrhogaster, Pleurodeles waltl and Notophthalmus viridescence) thus far. On the other hand, de novo assembly transcriptomes reported lately for N. viridescence only covered 16-31% of this transcriptome, suggesting that most constituents of this transcriptome are specific to the regenerating eye tissues of C. pyrrhogaster. A total of 87,102 in silico transcripts of this transcriptome were functionally annotated. Coding sequence prediction in combination with functional annotation revealed that 76,968 in silico transcripts encode protein/ peptides recorded in public databases so far, whereas 17,316 might be unique. qPCR and Sanger sequencing demonstrated that this transcriptome contains much information pertaining to genes that are regulated in association with cell reprogramming, cell-cycle re-entry/proliferation, and tissue patterning in an early phase of retinal regeneration. This data also provides important insight for further investigations addressing cellular mechanisms and molecular networks underlying retinal regeneration as well as differences between retinal regeneration and disorders. This transcriptome can be applied to ensuing comprehensive gene screening steps, providing candidate genes, regardless of whether annotated or unique, to uncover essential mechanisms underlying early processes of retinal regeneration.

リンク情報
DOI
https://doi.org/10.1371/journal.pone.0109831
Web of Science
https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=JSTA_CEL&SrcApp=J_Gate_JST&DestLinkType=FullRecord&KeyUT=WOS:000342798000093&DestApp=WOS_CPL
ID情報
  • DOI : 10.1371/journal.pone.0109831
  • ISSN : 1932-6203
  • Web of Science ID : WOS:000342798000093

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