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Genome-wide identification, characterization analysis and expression profiling of auxin-responsive GH3 family genes in wheat (Triticum aestivum L.).
Mol Biol Rep. 2020 May; 47(5):3885-3907.MB

Abstract

Auxin affects many aspects of plant growth and development by regulating the expression of auxin-responsive genes. As one of the three major auxin-responsive families the Gretchen Hagen3 (GH3) gene family maintains hormonal homeostasis by conjugating excess indole-3-acetic acid (IAA), salicylic acid (SA), and jasmonic acid (JA) to amino acids during hormone and stress-related signaling. Although some work has been carried out the functions of wheat GH3 (TaGH3) family genes in response to abiotic stresses (including salt stress and osmotic stress) are largely unknown. Access to the complete wheat genome sequence permits genome-wide studies on TaGH3s. We performed a systematic identification of the TaGH3 gene family at the genome level and detected 36 members on 14 wheat chromosomes. Many of the genes were segmentally duplicated and Ka/Ks and inter-species synthetic analyses indicated that polyploidization was the contributor to the increased number of TaGH3 members. Phylogenetic analyses revealed that TaGH3 proteins could divided into three major categories (TaGH3-I, TaGH3-II, and TaGH3-III). Diversified cis-elements in the promoters of TaGH3 genes were predicted as essential players in regulating TaGH3 expression patterns. Gene structure and motif analyses indicated that most TaGH3 genes have relatively conserved exon/intron arrangements and motif compositions. Analysis of multiple transcriptome data sets indicated that many TaGH3 genes are responsive to biological and abiotic stresses and possibly have important functions in stress response. qRT-PCR analysis revealed that TaGH3s were induced by salt and osmotic stresses. Customized annotation results revealed that TaGH3s were widely involved in phytohormone response, defense, growth and development, and metabolism. Overall, our work provides a comprehensive insight into the TaGH3 family members, and a basis for the further study of their biological functions in wheat.

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Authors+Show Affiliations

Jiang W
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China. Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China. Institute of Plant Protection, Sichuan Academy of Agricultural Sciences/Key Laboratory of Integrated Pest Management of Crop in Southwest China, Ministry of Agriculture, Chengdu, Sichuan, China.
Yin J
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China.
Zhang H
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China. Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China.
He Y
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China.
Shuai S
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China.
Chen S
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China.
Cao S
Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China.
Li W
Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China.
Ma D
Hubei Collaborative Innovation Center for Grain Industry/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Forewarning and Management of Agricultural and Forestry Pests, Hubei Engineering Technology Center/College of Agriculture, Yangtze University, Jingzhou, Hubei, China. madf@yangtzeu.edu.cn. Institute of Plant Protection, Sichuan Academy of Agricultural Sciences/Key Laboratory of Integrated Pest Management of Crop in Southwest China, Ministry of Agriculture, Chengdu, Sichuan, China. madf@yangtzeu.edu.cn.
Chen H
Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China. huaigu@jaas.ac.cn.

MeSH

CyclopentanesEvolution, MolecularGene Expression ProfilingGene Expression Regulation, PlantGenome, PlantGenome-Wide Association StudyGlucuronidaseIndoleacetic AcidsMultigene FamilyOxylipinsPhylogenyPlant Growth RegulatorsPlant ProteinsSalicylic AcidStress, PhysiologicalTranscriptomeTriticum

Pub Type(s)

Journal Article

Language

eng

PubMed ID

32361896

Citation

Jiang, Wenqiang, et al. "Genome-wide Identification, Characterization Analysis and Expression Profiling of Auxin-responsive GH3 Family Genes in Wheat (Triticum Aestivum L.)." Molecular Biology Reports, vol. 47, no. 5, 2020, pp. 3885-3907.
Jiang W, Yin J, Zhang H, et al. Genome-wide identification, characterization analysis and expression profiling of auxin-responsive GH3 family genes in wheat (Triticum aestivum L.). Mol Biol Rep. 2020;47(5):3885-3907.
Jiang, W., Yin, J., Zhang, H., He, Y., Shuai, S., Chen, S., Cao, S., Li, W., Ma, D., & Chen, H. (2020). Genome-wide identification, characterization analysis and expression profiling of auxin-responsive GH3 family genes in wheat (Triticum aestivum L.). Molecular Biology Reports, 47(5), 3885-3907. https://doi.org/10.1007/s11033-020-05477-5
Jiang W, et al. Genome-wide Identification, Characterization Analysis and Expression Profiling of Auxin-responsive GH3 Family Genes in Wheat (Triticum Aestivum L.). Mol Biol Rep. 2020;47(5):3885-3907. PubMed PMID: 32361896.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide identification, characterization analysis and expression profiling of auxin-responsive GH3 family genes in wheat (Triticum aestivum L.). AU - Jiang,Wenqiang, AU - Yin,Junliang, AU - Zhang,Haotian, AU - He,Yiqin, AU - Shuai,Simin, AU - Chen,Shuhui, AU - Cao,Sunlin, AU - Li,Wei, AU - Ma,Dongfang, AU - Chen,Huaigu, Y1 - 2020/05/02/ PY - 2020/02/10/received PY - 2020/04/25/accepted PY - 2020/5/4/pubmed PY - 2021/2/17/medline PY - 2020/5/4/entrez KW - Expression profiles KW - GH3 KW - Genome-wide analysis KW - Phylogenetic analysis KW - Synteny analysis KW - qRT-PCR SP - 3885 EP - 3907 JF - Molecular biology reports JO - Mol Biol Rep VL - 47 IS - 5 N2 - Auxin affects many aspects of plant growth and development by regulating the expression of auxin-responsive genes. As one of the three major auxin-responsive families the Gretchen Hagen3 (GH3) gene family maintains hormonal homeostasis by conjugating excess indole-3-acetic acid (IAA), salicylic acid (SA), and jasmonic acid (JA) to amino acids during hormone and stress-related signaling. Although some work has been carried out the functions of wheat GH3 (TaGH3) family genes in response to abiotic stresses (including salt stress and osmotic stress) are largely unknown. Access to the complete wheat genome sequence permits genome-wide studies on TaGH3s. We performed a systematic identification of the TaGH3 gene family at the genome level and detected 36 members on 14 wheat chromosomes. Many of the genes were segmentally duplicated and Ka/Ks and inter-species synthetic analyses indicated that polyploidization was the contributor to the increased number of TaGH3 members. Phylogenetic analyses revealed that TaGH3 proteins could divided into three major categories (TaGH3-I, TaGH3-II, and TaGH3-III). Diversified cis-elements in the promoters of TaGH3 genes were predicted as essential players in regulating TaGH3 expression patterns. Gene structure and motif analyses indicated that most TaGH3 genes have relatively conserved exon/intron arrangements and motif compositions. Analysis of multiple transcriptome data sets indicated that many TaGH3 genes are responsive to biological and abiotic stresses and possibly have important functions in stress response. qRT-PCR analysis revealed that TaGH3s were induced by salt and osmotic stresses. Customized annotation results revealed that TaGH3s were widely involved in phytohormone response, defense, growth and development, and metabolism. Overall, our work provides a comprehensive insight into the TaGH3 family members, and a basis for the further study of their biological functions in wheat. SN - 1573-4978 UR - https://www.unboundmedicine.com/medline/citation/32361896/Genome_wide_identification_characterization_analysis_and_expression_profiling_of_auxin_responsive_GH3_family_genes_in_wheat__Triticum_aestivum_L___ DB - PRIME DP - Unbound Medicine ER -