Exploring drought-responsive crucial genes in Sorghum

被引:6
|
作者
Bi, Yilin [1 ]
Wang, Pei [1 ,2 ]
机构
[1] Henan Univ, Sch Math & Stat, Kaifeng 475004, Peoples R China
[2] Henan Univ, Ctr Appl Math Henan Prov, Kaifeng 475004, Peoples R China
关键词
DISEASE-GENES; BIOSYNTHETIC-PATHWAY; FEEDFORWARD LOOP; TOLERANCE; STRESS; GENOME; COEXPRESSION; ADJUSTMENT; RESISTANCE; NETWORKS;
D O I
10.1016/j.isci.2022.105347
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Drought severely affects global food production. Sorghum is a typical drought-resistant model crop. Based on RNA-seq data for Sorghum with multiple time points and the gray correlation coefficient, this paper firstly selects candidate genes via mean variance test and constructs weighted gene differential co-expression networks (WGDCNs); then, based on gun-by-rewiring principle, the WGDCNs and the hidden Markov random field model, drought-responsive crucial genes are identified for five developmental stages respectively. Enrichment and sequence alignment analysis reveal that the screened genes may play critical functional roles in drought responsiveness. A multilayer differential co-expression network for the screened genes reveals that Sorghum is very sensitive to pre-flowering drought. Furthermore, a crucial gene regulatory module is established, which regulates drought responsiveness via plant hormone signal transduction, MAPK cascades, and transcriptional regulations. The proposed method can well excavate crucial genes through RNA-seq data, which have implications in breeding of new varieties with improved drought tolerance.
引用
收藏
页数:21
相关论文
共 50 条
  • [21] Transcriptome characterization and sequencing-based identification of drought-responsive genes in potato
    Zhang, Ning
    Liu, Bailin
    Ma, Congyu
    Zhang, Guodong
    Chang, Jing
    Si, Huaijun
    Wang, Di
    MOLECULAR BIOLOGY REPORTS, 2014, 41 (01) : 505 - 517
  • [22] Wheat drought-responsive WXPL transcription factors regulate cuticle biosynthesis genes
    Huihui Bi
    Sukanya Luang
    Yuan Li
    Natalia Bazanova
    Nikolai Borisjuk
    Maria Hrmova
    Sergiy Lopato
    Plant Molecular Biology, 2017, 94 : 15 - 32
  • [23] Genetic diversity of drought-responsive genes in populations of the desert forage Dactylis glomerata
    Trejo-Calzada, R
    O'Connell, MA
    PLANT SCIENCE, 2005, 168 (05) : 1327 - 1335
  • [24] Genome-Wide Identification and Analysis of Drought-Responsive Genes and MicroRNAs in Tobacco
    Yin, Fuqiang
    Qin, Cheng
    Gao, Jian
    Liu, Ming
    Luo, Xirong
    Zhang, Wenyou
    Liu, Hongjun
    Liao, Xinhui
    Shen, Yaou
    Mao, Likai
    Zhang, Zhiming
    Lin, Haijian
    Luebberstedt, Thomas
    Pan, Guangtang
    INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 2015, 16 (03) : 5714 - 5740
  • [25] Genetic identification and expression profiling of drought responsive genes in sorghum
    Abou-Elwafa, Salah Fatouh
    Shehzad, Tariq
    ENVIRONMENTAL AND EXPERIMENTAL BOTANY, 2018, 155 : 12 - 20
  • [26] Identification of drought-responsive genes by cDNA-amplified fragment length polymorphism in maize
    Liu, L.
    Hao, Z.
    Weng, J.
    Li, M.
    Zhang, D.
    Bai, L.
    Wang, L.
    Li, X.
    Zhang, S.
    ANNALS OF APPLIED BIOLOGY, 2012, 161 (03) : 203 - 213
  • [27] Genotype-dependent regulation of drought-responsive genes in tolerant and sensitive sugarcane cultivars
    da Silva, Manasses Daniel
    de Oliveira Silva, Roberta Lane
    Costa Ferreira Neto, Jose Ribamar
    Benko-Iseppon, Ana Maria
    Kido, Ederson Akio
    GENE, 2017, 633 : 17 - 27
  • [28] Differential Expression Analysis of a Subset of Drought-Responsive GmNAC Genes in Two Soybean Cultivars Differing in Drought Tolerance
    Nguyen Phuong Thao
    Nguyen Binh Anh Thu
    Xuan Lan Thi Hoang
    Chien Van Ha
    Lam-Son Phan Tran
    INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 2013, 14 (12): : 23828 - 23841
  • [29] Isolation and characterization of drought-responsive genes from peanut roots by suppression subtractive hybridization
    Ding, Hong
    Zhang, Zhi Meng
    Qin, Fei Fei
    Dai, Liang Xiang
    Li, Chun Juan
    Ci, Dun Wei
    Song, Wen Wu
    ELECTRONIC JOURNAL OF BIOTECHNOLOGY, 2014, 17 (06): : 304 - 310
  • [30] Translocation of Drought-Responsive Proteins from the Chloroplasts
    Li, Ping
    Liu, Haoju
    Yang, Hong
    Pu, Xiaojun
    Li, Chuanhong
    Huo, Heqiang
    Chu, Zhaohui
    Chang, Yuxiao
    Lin, Yongjun
    Liu, Li
    CELLS, 2020, 9 (01)