Literature DB >> 24526015

Substantial expression of novel small open reading frames in Oryza sativa.

Masanori Okamoto1, Mieko Higuchi-Takeuchi2, Minami Shimizu2, Kazuo Shinozaki2, Kousuke Hanada3.   

Abstract

In our previous integrated study combining informatics and molecular biology analyses, we revealed that Arabidopsis small open reading frames (sORFs) predicted by computational analysis have biological functions in morphogenesis. Here, we report that sequences homologous to Arabidopsis sORFs are abundant in intergenic regions of the rice genome. These sequences represent a subset of non-protein-coding DNA, and some are transcribed into mRNA. These results indicate that many sORFs associated with morphogenesis are hidden in the genomes of crop species.

Entities:  

Keywords:  Arabidopsis; comparative genomics; rice; small open reading frame; small peptide

Mesh：

Substances：

Year:  2014        PMID： 24526015      PMCID： PMC4091330          DOI： 10.4161/psb.27848

Source DB:  PubMed          Journal:  Plant Signal Behav        ISSN： 1559-2316


  25 in total

1.  Small post-translationally modified Peptide signals in Arabidopsis.

Authors:  Yoshikatsu Matsubayashi
Journal:  Arabidopsis Book       Date:  2011-09-26

Review 2.  Establishment and maintenance of vascular cell communities through local signaling.

Authors:  Yuki Hirakawa; Yuki Kondo; Hiroo Fukuda
Journal:  Curr Opin Plant Biol       Date:  2010-10-08       Impact factor: 7.834

3.  Dodeca-CLE peptides as suppressors of plant stem cell differentiation.

Authors:  Yasuko Ito; Ikuko Nakanomyo; Hiroyasu Motose; Kuninori Iwamoto; Shinichiro Sawa; Naoshi Dohmae; Hiroo Fukuda
Journal:  Science       Date:  2006-08-11       Impact factor: 47.728

Review 4.  Peptide hormones in plants.

Authors:  Yoshikatsu Matsubayashi; Youji Sakagami
Journal:  Annu Rev Plant Biol       Date:  2006       Impact factor: 26.379

5.  Epidermal cell density is autoregulated via a secretory peptide, EPIDERMAL PATTERNING FACTOR 2 in Arabidopsis leaves.

Authors:  Kenta Hara; Toshiya Yokoo; Ryoko Kajita; Takaaki Onishi; Saiko Yahata; Kylee M Peterson; Keiko U Torii; Tatsuo Kakimoto
Journal:  Plant Cell Physiol       Date:  2009-05-12       Impact factor: 4.927

6.  Root-derived CLE glycopeptides control nodulation by direct binding to HAR1 receptor kinase.

Authors:  Satoru Okamoto; Hidefumi Shinohara; Tomoko Mori; Yoshikatsu Matsubayashi; Masayoshi Kawaguchi
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

Review 7.  Endogenous peptide elicitors in higher plants.

Authors:  Yube Yamaguchi; Alisa Huffaker
Journal:  Curr Opin Plant Biol       Date:  2011-06-01       Impact factor: 7.834

8.  Diverse functions of plant peptides: entering a new phase.

Authors:  Hiroo Fukuda; Tetsuya Higashiyama
Journal:  Plant Cell Physiol       Date:  2011-01       Impact factor: 4.927

9.  Stomatal density is controlled by a mesophyll-derived signaling molecule.

Authors:  Tatsuhiko Kondo; Ryoko Kajita; Aya Miyazaki; Mayumi Hokoyama; Touko Nakamura-Miura; Satoko Mizuno; Yuichi Masuda; Kazuhiro Irie; Yuki Tanaka; Shinobu Takada; Tatsuo Kakimoto; Youji Sakagami
Journal:  Plant Cell Physiol       Date:  2009-12-09       Impact factor: 4.927

10.  Functional diversification of CLAVATA3-related CLE proteins in meristem maintenance in rice.

Authors:  Takuya Suzaki; Akiko Yoshida; Hiro-Yuki Hirano
Journal:  Plant Cell       Date:  2008-08-01       Impact factor: 11.277
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  7 in total

1.  Drought stress differentially regulates the expression of small open reading frames (sORFs) in Arabidopsis roots and shoots.

Authors:  Sultana Rasheed; Khurram Bashir; Kentaro Nakaminami; Kousuke Hanada; Akihiro Matsui; Motoaki Seki
Journal:  Plant Signal Behav       Date:  2016-08-02

Review 2.  Alternative role of noncoding RNAs: coding and noncoding properties.

Authors:  Gui-Zhen Zheng; Wei Li; Zhi-Yong Liu
Journal:  J Zhejiang Univ Sci B       Date:  2019 Nov.       Impact factor: 3.066

3.  Expanding the repertoire of secretory peptides controlling root development with comparative genome analysis and functional assays.

Authors:  Sarieh Ghorbani; Yao-Cheng Lin; Boris Parizot; Ana Fernandez; Maria Fransiska Njo; Yves Van de Peer; Tom Beeckman; Pierre Hilson
Journal:  J Exp Bot       Date:  2015-07-20       Impact factor: 6.992

4.  Ultra-deep sequencing of ribosome-associated poly-adenylated RNA in early Drosophila embryos reveals hundreds of conserved translated sORFs.

Authors:  Hongmei Li; Chuansheng Hu; Ling Bai; Hua Li; Mingfa Li; Xiaodong Zhao; Daniel M Czajkowsky; Zhifeng Shao
Journal:  DNA Res       Date:  2016-08-24       Impact factor: 4.458

Review 5.  cncRNAs: Bi-functional RNAs with protein coding and non-coding functions.

Authors:  Pooja Kumari; Karuna Sampath
Journal:  Semin Cell Dev Biol       Date:  2015-10-20       Impact factor: 7.727

6.  Transcriptomic analysis of rice in response to iron deficiency and excess.

Authors:  Khurram Bashir; Kousuke Hanada; Minami Shimizu; Motoaki Seki; Hiromi Nakanishi; Naoko K Nishizawa
Journal:  Rice (N Y)       Date:  2014-09-12       Impact factor: 4.783

Review 7.  Incredible RNA: Dual Functions of Coding and Noncoding.

Authors:  Jin-Wu Nam; Seo-Won Choi; Bo-Hyun You
Journal:  Mol Cells       Date:  2016-05-03       Impact factor: 5.034
  7 in total

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