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Transcriptomic Profiling of Cold Stress-Induced Differentially Expressed Genes in Seedling Stage of Indica Rice

文献类型： 外文期刊

作者： Yan, Tao 1 ; Sun, Meng 1 ; Su, Rui 1 ; Wang, Xiaozhong 1 ; Lu, Xuedan 1 ; Xiao, Yunhua 1 ; Deng, Huabing 1 ; Liu, Xiong 1 ; Tang, Wenbang 1 ; Zhang, Guilian 1 ;

作者机构： 1.Hunan Agr Univ, Coll Agron, Changsha 410128, Peoples R China

2.Hunan Prov Key Lab Rice & Rapeseed Breeding Dis Re, Changsha 410128, Peoples R China

3.Hunan Acad Agr Sci, Hunan Hybrid Rice Res Ctr, Changsha 410128, Peoples R China

4.State Key Lab Hybrid Rice, Changsha 410128, Peoples R China

关键词： cold stress; RNA-seq; rice; cold-transcription factors; gene ontology; KEGG pathway analysis

期刊名称：PLANTS-BASEL （ 影响因子：4.5； 五年影响因子：4.8 ）

ISSN：

年卷期： 2023 年 12 卷 14 期

页码：

收录情况： SCI

摘要： Cold stress significantly constrains the growth, development, productivity, and distribution of rice, particularly the indica cultivar, known for its susceptibility to cold, limiting its cultivation to specific regions. This study investigated the genes associated with cold responsiveness in the roots of two indica cultivars, SQSL (cold-tolerant) and XZX45 (cold-susceptible), through transcriptome dynamics analysis during the seedling stage. The analysis identified 8144 and 6427 differentially expressed genes (DEGs) in XZX45 and SQSL, respectively. Among these DEGs, 4672 (G2) were shared by both cultivars, while 3472 DEGs (G1) were specific to XZX45, and 1755 DEGs (G3) were specific to SQSL. Additionally, 572 differentially expressed transcription factors (TFs) from 48 TF families, including WRKY, NAC, bHLH, ERF, bZIP, MYB, C2H2, and GRAS, were identified. Gene Ontology (GO) enrichment analysis revealed significant enrichment of DEGs in the G3 group, particularly in the "response to cold" category, highlighting the crucial role of these specific genes in response to cold stress in SQSL. Furthermore, Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis indicated pronounced enrichment of DEGs in the G3 group in metabolic pathways such as "Pyruvate metabolism", "Glycolysis/Gluconeogenesis", and "Starch and sucrose metabolism", contributing to cold tolerance mechanisms in SQSL. Overall, this study provides comprehensive insights into the molecular mechanisms underlying cold responses in the indica cultivar, informing future genetic improvement strategies to enhance cold tolerance in susceptible indica rice cultivars.

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