title: Comparative Analysis of Anther Transcriptome Profiles of Two Different Rice Male Sterile Lines Genotypes under Cold Stress.
abstract: Rice is highly sensitive to cold stress during reproductive developmental stages, and little is known about the mechanisms of cold responses in rice anther. Using the HiSeq™ 2000 sequencing platform, the anther transcriptome of photo thermo sensitive genic male sterile lines (PTGMS) rice Y58S and P64S (Pei'ai64S) were analyzed at the fertility sensitive stage under cold stress. Approximately 243 million clean reads were obtained from four libraries and aligned against the oryza indica genome and 1497 and 5652 differentially expressed genes (DEGs) were identified in P64S and Y58S, respectively. Both gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were conducted for these DEGs. Functional classification of DEGs was also carried out. The DEGs common to both genotypes were mainly involved in signal transduction, metabolism, transport, and transcriptional regulation. Most of the DEGs were unique for each comparison group. We observed that there were more differentially expressed MYB (Myeloblastosis) and zinc finger family transcription factors and signal transduction components such as calmodulin/calcium dependent protein kinases in the Y58S comparison group. It was also found that ribosome-related DEGs may play key roles in cold stress signal transduction. These results presented here would be particularly useful for further studies on investigating the molecular mechanisms of rice responses to cold stress.
authors.affiliation: State Key Laboratory of Hybrid Rice, Longping Branch of Graduate School, Central South University, Changsha 410013, China. baibin87@163.com.|Hunan Hybrid Rice Research Center, Changsha 410125, China. baibin87@163.com.
authors.forename: Bin
authors.initials: B
authors.lastname: Bai
authors.affiliation: State Key Laboratory of Hybrid Rice, Longping Branch of Graduate School, Central South University, Changsha 410013, China. wujun1984@126.com.|Hunan Hybrid Rice Research Center, Changsha 410125, China. wujun1984@126.com.
authors.forename: Jun
authors.initials: J
authors.lastname: Wu
authors.affiliation: State Key Laboratory of Hybrid Rice, Longping Branch of Graduate School, Central South University, Changsha 410013, China. shengwentao2003@163.com.|Hunan Hybrid Rice Research Center, Changsha 410125, China. shengwentao2003@163.com.
authors.forename: Wen-Tao
authors.initials: WT
authors.lastname: Sheng
authors.affiliation: Plant Breeding, Genetics, and Biotechnology Division, International Rice Research Institute, DAPO Box 7777, Metro Manila 1301, Philippines. b.zhou@irri.org.
authors.forename: Bo
authors.initials: B
authors.lastname: Zhou
authors.affiliation: State Key Laboratory of Hybrid Rice, Longping Branch of Graduate School, Central South University, Changsha 410013, China. zhoulijie2006@163.com.|Hunan Hybrid Rice Research Center, Changsha 410125, China. zhoulijie2006@163.com.
authors.forename: Li-Jie
authors.initials: LJ
authors.lastname: Zhou
authors.affiliation: Hunan Hybrid Rice Research Center, Changsha 410125, China. zhuang_wen@163.com.
authors.forename: Wen
authors.initials: W
authors.lastname: Zhuang
authors.affiliation: Hunan Hybrid Rice Research Center, Changsha 410125, China. yaodongping1218@126.com.|College of Agronomy, Hunan Agricultural University, Changsha 410128, China. yaodongping1218@126.com.
authors.forename: Dong-Ping
authors.initials: DP
authors.lastname: Yao
authors.affiliation: State Key Laboratory of Hybrid Rice, Longping Branch of Graduate School, Central South University, Changsha 410013, China. dqy@hhrrc.ac.cn.|Hunan Hybrid Rice Research Center, Changsha 410125, China. dqy@hhrrc.ac.cn.|College of Agronomy, Hunan Agricultural University, Changsha 410128, China. dqy@hhrrc.ac.cn.
authors.forename: Qi-Yun
authors.initials: QY
authors.lastname: Deng
mesh_terms: D016000:Cluster Analysis; D003080:Cold Temperature; D017343:Genes, Plant; D005838:Genotype; D012275:Oryza / Q000235:genetics*; D040641:Quantitative Trait Loci; D018749:RNA, Plant / Q000032:analysis / Q000302:isolation & purification; D060888:Real-Time Polymerase Chain Reaction; D017423:Sequence Analysis, RNA; D059467:Transcriptome
chemical_list: D018749:RNA, Plant
keywords: PTGMS rice; RNA-Seq; anther; cold stress; transcriptome