Identification of ceRNA and candidate genes related to fertility conversion of TCMS line YS3038 in wheat

Plant Physiology and Biochemistry : PPB
Yucui HanLingjian Ma

Abstract

Previous studies have indicated that noncoding RNAs are important factors in gene functions. To explore the mechanism of male sterility of YS3038, the sterile genes were mapped, and based on previous work, the expression of long noncoding RNAs (lncRNAs), circular RNAs (circRNAs), and their target genes was studied. Weighted gene coexpression network analysis (WGCNA) and competitive endogenous RNA (ceRNA) analysis were further performed for differentially expressed noncoding RNAs and target genes. At last, the candidate genes were silenced by barley stripe mosaic virus-induced gene silencing (BSMV-VIGS) to prove their function. The sterile genes were mapped on chromosomes 1B and 6B based on chip mix pool analysis, and one major effect QTL (27.3190% variation) was found based on SSR primers. The WGCNA analysis revealed that the dark turquoise and steel blue modules were highly correlated with anther development and fertility conversion, respectively. The ceRNA analysis showed that a total of 184 RNAs interacted with each other, including 115 mRNAs, 55 microRNAs (miRNAs), eight circRNAs, and six lncRNAs. Finally, the seed setting rate of the plant was significantly decreased after fatty acyl-CoA reductase 5 silencing. This study p...Continue Reading

References

Aug 16, 1996·The Journal of Biological Chemistry·Z H HeB D Kohorn
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Oct 6, 2000·Current Opinion in Plant Biology·J Callis, R D Vierstra
Jun 14, 2003·Plant Physiology·Shin Han Shiu, Anthony B Bleecker
Jan 31, 2004·Genes & Development·Nancy M Hollingsworth, Steven J Brill
Apr 27, 2005·Cell·Edwards AllenJames C Carrington
May 5, 2005·Molecular and Cellular Biology·Nikolay A SpiridonovGibbes R Johnson
Dec 13, 2005·Molecular and Cellular Biochemistry·German H HermosillaJorge E Allende
Oct 16, 2008·The Journal of Biological Chemistry·Fiona C DenisonAngela Woods
Dec 31, 2008·BMC Bioinformatics·Peter Langfelder, Steve Horvath
Mar 9, 2010·Nature·Vianey Olmedo-MonfilJean-Philippe Vielle-Calzada
Apr 23, 2010·Plant Physiology·Blaire J Steinwand, Joseph J Kieber
Nov 9, 2010·Plant Signaling & Behavior·Noé Durán-Figueroa, Jean-Philippe Vielle-Calzada
Nov 11, 2010·Methods in Molecular Biology·Michael KohlBettina Warscheid
Feb 7, 2012·Proceedings of the National Academy of Sciences of the United States of America·Jihua DingQifa Zhang
Aug 25, 2012·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Carl Friedrich Horst LonginJochen Christoph Reif
Mar 1, 2013·Nature·Thomas B HansenJørgen Kjems
Mar 1, 2013·Nature·Sebastian MemczakNikolaus Rajewsky
Mar 1, 2011·Physiology and Molecular Biology of Plants : an International Journal of Functional Plant Biology·Vydehi Kanneganti, Aditya Kumar Gupta
Apr 27, 2013·Science·Jeremy E Wilusz, Phillip A Sharp
Dec 10, 2013·Annual Review of Plant Biology·Letian Chen, Yao-Guang Liu
Jan 17, 2014·Nature·Yvonne TayPier Paolo Pandolfi
Sep 23, 2014·Molecular Cell·Reut Ashwal-FlussSebastian Kadener
Sep 23, 2014·Cell·Xiao-Ou ZhangLi Yang
Dec 3, 2014·RNA·Yang Wang, Zefeng Wang
Dec 20, 2014·Briefings in Bioinformatics·Jianwei LiQinghua Cui

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