Genome-Wide Characterization and Expression Analyses of Pleurotus ostreatus MYB Transcription Factors during Developmental Stages and under Heat Stress Based on de novo Sequenced Genome

International Journal of Molecular Sciences
Lining WangJinxia Zhang

Abstract

Pleurotus ostreatus is a commercially grown mushroom species in China. However, studies on the mechanisms of the fruiting body development and stress response of P. ostreatus are still at a primary stage. In this study, we report the entire genome sequence of P. ostreatus CCMSSC03989. Then, we performed comprehensive genome-wide characterization and expression analysis of the MYB transcription factor family during a series of developmental stages and under the condition of heat stress. A 34.76 Mb genome was obtained through next-generation sequencing (NGS) and Bionano optical mapping approaches. The genome has a scaffold N50 of 1.1 Mb and contains 10.11% repeats, and 10,936 gene models were predicted. A total of 20 MYB genes (PoMYB) were identified across the genome, and the full-length open reading frames were isolated. The PoMYBs were classified into 1 repeat (1R), 2R, and 3R-MYB groups according to their MYB domain repeat numbers, and 3R-MYBs possessed relatively more introns than 1R and 2R-MYBs. Based on phylogenetic analysis, the PoMYBs were divided into four groups and showed close relationships with the MYB genes of plants and fungi. RNA-sequencing (RNA-Seq) and quantitative PCR (qPCR) analyses revealed that PoMYB expres...Continue Reading

References

Aug 1, 1989·Proceedings of the National Academy of Sciences of the United States of America·H SakuraS Ishii
Dec 24, 1998·Nucleic Acids Research·G Benson
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
Sep 4, 2003·Genome Research·Li LiDavid S Roos
Dec 19, 2003·Nucleic Acids Research·Rolf ApweilerLai-Su L Yeh
Dec 19, 2003·Nucleic Acids Research·Minoru KanehisaMasahiro Hattori
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Dec 21, 2004·Oncogene·Georgina LangKathleen Weston
May 29, 2007·Nucleic Acids Research·Yuki MoriyaMinoru Kanehisa
Dec 4, 2009·Applied Microbiology and Biotechnology·Carmen Sánchez
Dec 17, 2009·BMC Bioinformatics·Christiam CamachoThomas L Madden
Aug 3, 2010·Trends in Plant Science·Christian DubosLoïc Lepiniec
Oct 13, 2011·Molecular Systems Biology·Fabian SieversDesmond G Higgins
Dec 29, 2011·Fungal Genetics and Biology : FG & B·Weiwei KongJinxia Zhang
Jun 28, 2012·Nature Communications·Shilin ChenChao Sun
Jul 11, 2012·BMC Plant Biology·Hai DuYi-Xiong Tang
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Jul 1, 1976·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·G EgerE Wissig
Jan 15, 2014·Journal of Cell Science·Anniina Vihervaara, Lea Sistonen
Feb 28, 2014·BioMed Research International·Ying WangDapeng Bao

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Citations

May 31, 2020·G3 : Genes - Genomes - Genetics·Lining WangBaosheng Liao
Feb 16, 2021·G3 : Genes - Genomes - Genetics·Yi-Yun LeeYen-Ping Hsueh
Feb 16, 2021·G3 : Genes - Genomes - Genetics·Guillermo Vidal-Diez de UlzurrunYen-Ping Hsueh
Sep 19, 2021·Applied Microbiology and Biotechnology·Lu LuoAimin Ma

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Methods Mentioned

BETA
RNA-Seq
chips

Software Mentioned

mer Analysis Toolkit ( KAT )
Blast2GO
r8s
RepeatModeler
pheatmap
MAKER
in
BUSCO
edgeR
Gblocks

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