{"title":"Genome-wide study of OsWRKY gene in Oryza sativa subsp. japonica","authors":"Jhumishree Meher, Jeetu Narware, Prahlad Masurkar","doi":"10.1111/aab.12926","DOIUrl":null,"url":null,"abstract":"<p>WRKY transcription factor (TF) family is well known to govern essential physiological functioning as well as regulate plant response to biotic and abiotic stress. In this study, we have identified 108 <i>OsWRKY</i> genes in the genome of <i>Oryza sativa</i> subsp. <i>japonica</i>, using the updated genomic data from the Rice Annotation Project Database and Oryzabase, which were further used to conduct the phylogenetic study, motif analysis, gene structure analysis, chromosomal mapping, and prediction of sub-cellular localization. The multiple sequence alignment OsWRKY proteins revealed the presence of nine different types of alterations in the conserved heptapeptide sequence WRKYGQK associated with 19 <i>OsWRKY</i> genes. Physiochemical analysis discloses the hydrophobic amino acid-rich, thermally stable, and polar nature of OsWRKY proteins. These genes were noted as highly conserved between the two cultivated sub-species of <i>Oryza sativa</i>, that is Indica and <i>japonica</i> type. Additionally, from motif analysis, we have found a new motif, which was categorized as hAT family C-terminal dimerization region associated with four members of group IIc. We have identified 21 stress-responsive <i>OsWRKY</i> genes, and their significance to the different biotic and abiotic stress-mediated cascades was further evaluated by analysing 1500 kb upstream sequences and this disclosed the presence of important phytohormone-responsive <i>cis</i>-elements in the OsWRKY gene, suggesting its direct involvement in defence against a wide range of external stressors and these 21 <i>OsWRKY</i> genes are tentatively listed as possible candidates for more study.</p>","PeriodicalId":7977,"journal":{"name":"Annals of Applied Biology","volume":"185 3","pages":"345-359"},"PeriodicalIF":2.2000,"publicationDate":"2024-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Annals of Applied Biology","FirstCategoryId":"97","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1111/aab.12926","RegionNum":3,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"AGRICULTURE, MULTIDISCIPLINARY","Score":null,"Total":0}
引用次数: 0
Abstract
WRKY transcription factor (TF) family is well known to govern essential physiological functioning as well as regulate plant response to biotic and abiotic stress. In this study, we have identified 108 OsWRKY genes in the genome of Oryza sativa subsp. japonica, using the updated genomic data from the Rice Annotation Project Database and Oryzabase, which were further used to conduct the phylogenetic study, motif analysis, gene structure analysis, chromosomal mapping, and prediction of sub-cellular localization. The multiple sequence alignment OsWRKY proteins revealed the presence of nine different types of alterations in the conserved heptapeptide sequence WRKYGQK associated with 19 OsWRKY genes. Physiochemical analysis discloses the hydrophobic amino acid-rich, thermally stable, and polar nature of OsWRKY proteins. These genes were noted as highly conserved between the two cultivated sub-species of Oryza sativa, that is Indica and japonica type. Additionally, from motif analysis, we have found a new motif, which was categorized as hAT family C-terminal dimerization region associated with four members of group IIc. We have identified 21 stress-responsive OsWRKY genes, and their significance to the different biotic and abiotic stress-mediated cascades was further evaluated by analysing 1500 kb upstream sequences and this disclosed the presence of important phytohormone-responsive cis-elements in the OsWRKY gene, suggesting its direct involvement in defence against a wide range of external stressors and these 21 OsWRKY genes are tentatively listed as possible candidates for more study.
期刊介绍:
Annals of Applied Biology is an international journal sponsored by the Association of Applied Biologists. The journal publishes original research papers on all aspects of applied research on crop production, crop protection and the cropping ecosystem. The journal is published both online and in six printed issues per year.
Annals papers must contribute substantially to the advancement of knowledge and may, among others, encompass the scientific disciplines of:
Agronomy
Agrometeorology
Agrienvironmental sciences
Applied genomics
Applied metabolomics
Applied proteomics
Biodiversity
Biological control
Climate change
Crop ecology
Entomology
Genetic manipulation
Molecular biology
Mycology
Nematology
Pests
Plant pathology
Plant breeding & genetics
Plant physiology
Post harvest biology
Soil science
Statistics
Virology
Weed biology
Annals also welcomes reviews of interest in these subject areas. Reviews should be critical surveys of the field and offer new insights. All papers are subject to peer review. Papers must usually contribute substantially to the advancement of knowledge in applied biology but short papers discussing techniques or substantiated results, and reviews of current knowledge of interest to applied biologists will be considered for publication. Papers or reviews must not be offered to any other journal for prior or simultaneous publication and normally average seven printed pages.