Genome-wide Analysis of WRKY Transcription Factors Family in Chickpea (Cicer arietinum L.)

2021 ◽  
Author(s):  
Rajendra Tukaram Shende ◽  
Reeva Singh ◽  
Arun Kumar ◽  
Rakesh Singh Sengar
Keyword(s):  
Transcription Factors ◽  
Cicer Arietinum ◽  
Wrky Transcription Factors ◽  
Cicer Arietinum L ◽  
Grand Average ◽  
Protein Length ◽  
Genome Wide ◽  
Isoelectric Points ◽  
Gene Data ◽  
Wrky Proteins

Background: Chickpea (Cicer arietinum L.) is used as a protein source across the world. In plants WRKY transcription factors play an important role in regulation of stress resistance. An attempt was made to analyze WRKY genes in chickpea using genomic data.Methods: In this In Silico investigation during 2018-2019, to analyze the WRKY genes in chickpea using genomic data. iTak database are used to obtain gene data. Bioinformatics tools were used to analyzed the chickpea genomic data.Result: This study reported 61 Car WRKY genes, located on the seven main chromosomes of chickpea. Great variations were reported in terms of protein length, molecular weight, grand average of hydropathicity (GRAVY) value and theoretical isoelectric points of Car WRKYs. Gene Structure Display Server (GSDS) demonstrated that the Car WRKY 56 gene lack introns. Phylogenetic analysis of Car WRKY proteins divided in three main groups (I, II and III); group II was divided into three subgroups like IIa, IIb and IIc. By this an attempt has made to provide novel information on Car WRKY genes to study abiotic stress mechanism in chickpea.

scholarly journals Genome-Wide Identification and Analysis of the WRKY Gene Family and Cold Stress Response in Acer truncatum

Genes ◽  
2021 ◽  
Vol 12 (12) ◽  
pp. 1867
Author(s):  
Yan Li ◽  
Xiang Li ◽  
Jiatong Wei ◽  
Kewei Cai ◽  
Hongzhi Zhang ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Stress Response ◽  
Cold Stress ◽  
Gene Family ◽  
Gene Families ◽  
Regulatory Function ◽  
Wrky Gene ◽  
Wrky Transcription Factors ◽  
Biotic Stresses ◽  
Genome Wide

WRKY transcription factors constitute one of the largest gene families in plants and are involved in many biological processes, including growth and development, physiological metabolism, and the stress response. In earlier studies, the WRKY gene family of proteins has been extensively studied and analyzed in many plant species. However, information on WRKY transcription factors in Acer truncatum has not been reported. In this study, we conducted genome-wide identification and analysis of the WRKY gene family in A. truncatum, 54 WRKY genes were unevenly located on all 13 chromosomes of A. truncatum, the highest number was found in chromosomes 5. Phylogenetic relationships, gene structure, and conserved motif identification were constructed, and the results affirmed 54 AtruWRKY genes were divided into nine subgroup groups. Tissue species analysis of AtruWRKY genes revealed which were differently exhibited upregulation in flower, leaf, root, seed and stem, and the upregulation number were 23, 14, 34, 18, and 8, respectively. In addition, the WRKY genes expression in leaf under cold stress showed that more genes were significantly expressed under 0, 6 and 12 h cold stress. The results of this study provide a new insight the regulatory function of WRKY genes under abiotic and biotic stresses.

scholarly journals Genome wide analysis of stress responsive WRKY transcription factors in Arabidopsis thaliana

2016 ◽  
Vol 4 (4) ◽  
pp. 279 ◽  
Author(s):  
Shaiq Sultan ◽  
Muhammad Amjid Ali ◽  
Rana Muhammad Atif ◽  
Farrukh Azeem ◽  
Habibullah Nadeem ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Transcription Factors ◽  
Chromosomal Localization ◽  
Evolutionary Relationship ◽  
Wrky Transcription Factors ◽  
Specific Sequence ◽  
Multiple Sequence ◽  
Genome Wide Analysis ◽  
Functional Homology ◽  
Genome Wide

WRKY transcription factors are a class of DNA-binding proteins that bind with a specific sequence C/TTGACT/C known as W-Box found in promoters of genes which are regulated by these WRKYs. From previous studies, 43 different stress responsive WRKY transcription factors in Arabidopsis thaliana, identified and then categorized in three groups viz., abiotic, biotic and both of these stresses. A comprehensive genome wide analysis including chromosomal localization, gene structure analysis, multiple sequence alignment, phylogenetic analysis and promoter analysis of these WRKY genes was carried out in this study to determine the functional homology in Arabidopsis. This analysis led to the classification of these WRKY family members into 3 major groups and subgroups and showed evolutionary relationship among these groups on the base of their functional WRKY domain, chromosomal localization and intron/exon structure. The proposed groups of these stress responsive WRKY genes and annotation based on their position on chromosomes can also be explored to determine their functional homology in other plant species in relation to different stresses. The result of the present study provides indispensable genomic information for the stress responsive WRKY transcription factors in Arabidopsis and will pave the way to explain the precise role of various AtWRKYs in plant growth and development under stressed conditions.

scholarly journals Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum L.)

2016 ◽  
Vol 16 (S1) ◽  
Author(s):  
Mahendar Thudi ◽  
Aamir W. Khan ◽  
Vinay Kumar ◽  
Pooran M. Gaur ◽  
Krishnamohan Katta ◽  
...  
Keyword(s):  
Cicer Arietinum ◽  
Whole Genome ◽  
Cicer Arietinum L ◽  
Genome Wide ◽  
Parental Lines ◽  
Mapping Populations

scholarly journals Genome-wide analysis of WRKY transcription factors in Aquilaria sinensis (Lour.) Gilg

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Yan-Hong Xu ◽  
Pei-Wen Sun ◽  
Xiao-Lin Tang ◽  
Zhi-Hui Gao ◽  
Zheng Zhang ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Wrky Transcription Factors ◽  
Aquilaria Sinensis ◽  
Genome Wide Analysis ◽  
Genome Wide

scholarly journals Genome-Wide SNP Discovery and Mapping QTLs for Seed Iron and Zinc Concentrations in Chickpea (Cicer arietinum L.)

2020 ◽  
Vol 7 ◽  
Author(s):  
Syed Sab ◽  
Ramappa Lokesha ◽  
D. M. Mannur ◽  
Somasekhar ◽  
Kisan Jadhav ◽  
...  
Keyword(s):  
Cicer Arietinum ◽  
Snp Discovery ◽  
Cicer Arietinum L ◽  
Genome Wide ◽  
Iron And Zinc ◽  
Zinc Concentrations

scholarly journals Genome-Wide Characterization of WRKY Transcription Factors Revealed Gene Duplication and Diversification in Populations of Wild to Domesticated Barley

2021 ◽  
Vol 22 (10) ◽  
pp. 5354
Author(s):  
Jinhong Kan ◽  
Guangqi Gao ◽  
Qiang He ◽  
Qian Gao ◽  
Congcong Jiang ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Stress Responses ◽  
Loss Of Function ◽  
Biotic And Abiotic Stress ◽  
Wrky Transcription Factors ◽  
Physiological Processes ◽  
Genome Wide ◽  
Duplication Events ◽  
Cultivated Barley

The WRKY transcription factors (WRKYs) are known for their crucial roles in biotic and abiotic stress responses, and developmental and physiological processes. In barley, early studies revealed their importance, whereas their diversity at the population scale remains hardly estimated. In this study, 98 HsWRKYs and 103 HvWRKYs have been identified from the reference genome of wild and cultivated barley, respectively. The tandem duplication and segmental duplication events from the cultivated barley were observed. By taking advantage of early released exome-captured sequencing datasets in 90 wild barley accessions and 137 landraces, the diversity analysis uncovered synonymous and non-synonymous variants instead of loss-of-function mutations that had occurred at all WRKYs. For majority of WRKYs, the haplotype and nucleotide diversity both decreased in cultivated barley relative to the wild population. Five WRKYs were detected to have undergone selection, among which haplotypes of WRKY9 were enriched, correlating with the geographic collection sites. Collectively, profiting from the state-of-the-art barley genomic resources, this work represented the characterization and diversity of barley WRKY transcription factors, shedding light on future deciphering of their roles in barley domestication and adaptation.

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