Genome-wide dissection of AP2/ERF and HSP90 gene families in five legumes and expression profiles in chickpea and pigeonpea

Plant Biotechnology Journal
Gaurav AgarwalRajeev K Varshney

Abstract

APETALA2/ethylene response factor (AP2/ERF) and heat-shock protein 90 (HSP90) are two significant classes of transcription factor and molecular chaperone proteins which are known to be implicated under abiotic and biotic stresses. Comprehensive survey identified a total of 147 AP2/ERF genes in chickpea, 176 in pigeonpea, 131 in Medicago, 179 in common bean and 140 in Lotus, whereas the number of HSP90 genes ranged from 5 to 7 in five legumes. Sequence alignment and phylogenetic analyses distinguished AP2, ERF, DREB, RAV and soloist proteins, while HSP90 proteins segregated on the basis of their cellular localization. Deeper insights into the gene structure allowed ERF proteins to be classified into AP2s based on DNA-binding domains, intron arrangements and phylogenetic grouping. RNA-seq and quantitative real-time PCR (qRT-PCR) analyses in heat-stressed chickpea as well as Fusarium wilt (FW)- and sterility mosaic disease (SMD)-stressed pigeonpea provided insights into the modus operandi of AP2/ERF and HSP90 genes. This study identified potential candidate genes in response to heat stress in chickpea while for FW and SMD stresses in pigeonpea. For instance, two DREB genes (Ca_02170 and Ca_16631) and three HSP90 genes (Ca_23016, C...Continue Reading

References

Jan 19, 2002·Biochemical and Biophysical Research Communications·Yoh SakumaKazuko Yamaguchi-Shinozaki
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
May 16, 2002·The Journal of Heredity·R E Voorrips
Mar 5, 2003·BioTechniques·A I SaeedJ Quackenbush
Aug 2, 2003·Science·José M AlonsoJoseph R Ecker
Sep 25, 2003·Proceedings of the National Academy of Sciences of the United States of America·Akira TakahashiKen Shirasu
Jan 18, 2005·Current Opinion in Plant Biology·Todd A Sangster, Christine Queitsch
Feb 15, 2005·Trends in Plant Science·Susan R Wessler
Jan 13, 2006·Plant Physiology·Toshitsugu NakanoHideaki Shinshi
Aug 1, 2006·Current Opinion in Plant Biology·Li-Jia Qu, Yu-Xian Zhu
Feb 13, 2007·Plant & Cell Physiology·Naoya HiroseHitoshi Sakakibara
Jan 25, 2008·BMC Bioinformatics·Yang Zhang
Apr 30, 2008·Biochemical and Biophysical Research Communications·Jing ZhuangQuan-Hong Yao
May 31, 2008·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Shusei SatoSatoshi Tabata
Jan 24, 2009·Current Opinion in Plant Biology·Nevin Dale Young, Michael Udvardi
Mar 18, 2009·Bioinformatics·Cole TrapnellSteven L Salzberg
May 22, 2009·Nucleic Acids Research·Timothy L BaileyWilliam S Noble
Jun 23, 2009·Genome Research·Martin KrzywinskiMarco A Marra
Apr 28, 2010·BMC Plant Biology·Aaron M Rashotte, Leslie R Goertzen
Dec 21, 2010·Plant & Cell Physiology·Akhter Most SharoniShoshi Kikuchi
Dec 22, 2010·BMC Genomics·Francesco LicausiPierdomenico Perata
Jun 17, 2011·Journal of Integrative Plant Biology·Zhao-Shi XuYou-Zhi Ma
Aug 27, 2011·Biochimica Et Biophysica Acta·Junya MizoiKazuko Yamaguchi-Shinozaki
Nov 8, 2011·Nature Biotechnology·Rajeev K VarshneyScott A Jackson
Jan 18, 2013·BMC Genomics·Cuifang DuanPascal Montoro
Jan 29, 2013·Nature Biotechnology·Rajeev K VarshneyDouglas R Cook
Feb 28, 2013·International Journal of Molecular Sciences·Zhao-Shi XuYou-Zhi Ma

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Citations

Jul 26, 2018·International Journal of Molecular Sciences·Pronob J PaulPooran M Gaur
Feb 21, 2019·Briefings in Functional Genomics·Rajat Srivastava, Rahul Kumar
Aug 21, 2019·Frontiers in Plant Science·Rebecca S ZwartJohn P Thompson
Apr 8, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Manish RoorkiwalRajeev K Varshney
Jun 21, 2019·International Journal of Molecular Sciences·Jitendra KumarShiv Kumar
Dec 4, 2020·Physiology and Molecular Biology of Plants : an International Journal of Functional Plant Biology·Inchirah BettaiebDhia Bouktila
Apr 9, 2021·Physiologia Plantarum·Jitendra KumarNarendra Pratap Singh

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Methods Mentioned

BETA
PCR
transgenic
BSMR

Software Mentioned

TASSER
Primer3
TopHat
PyMOL
HMM
MapChart
MultiExperiment Viewer (
ClustalW
BLASTP
cuffcompare

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