Genome-wide identification, classification, expression profiling and DNA methylation (5mC) analysis of stress-responsive ZFP transcription factors in rice (Oryza saliva L.)

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dc.authorid0000-0002-7470-0080en_US
dc.authorid0000-0001-7947-7722en_US
dc.authorid0000-0002-9057-4299en_US
dc.authorid0000-0002-0553-0161
dc.authorid0000-0003-3681-9942
dc.contributor.authorAhmad, Fiaz
dc.contributor.authorFarman, Kiran
dc.contributor.authorWaseem, Muhammad
dc.contributor.authorRana, Rashid Mehmood
dc.contributor.authorNawaz, Muhammad Amjad
dc.contributor.authorBaloch, Faheem Shehzad
dc.date.accessioned2021-06-23T19:50:35Z
dc.date.available2021-06-23T19:50:35Z
dc.date.issued2019
dc.departmentBAİBÜ, Ziraat Fakültesi, Tarla Bitkileri Bölümüen_US
dc.description.abstractCytosine DNA methylation (5mC) is an epigenetic mark that regulates gene expression in plant responses to environmental stresses. Zinc-finger protein (ZFP) is the largest family of DNA-binding transcription factors that also plays an essential role in eukaryote. In plant we have already identified and characterized different useful ZFP-genes. While, the main objective of this research was to observe and identify more targeted stress responsive genes of ZFPs epigenetically throughout genome in rice for the first time. A comprehensive correlation analysis was performed through methylated DNA immunoprecipitation (MeDIP)-chip hybridization in rice under salt and osmotic stresses. High salinity and drought are two major abiotic hazards that are destroying the crop world-wide. As a result, Through-out genome 14 unique stress responsive transcription factors of ZFP-genes with varying level of methylation and expression under two conditions (control vs. stress) were isolated. All the identified genes were confirmed from different databases for their specific structure, cis-regulatory elements, phylogenetic analysis, and synteny analysis. Moreover, the tissue-specific expression patterns, and expression under abiotic and phytohormones stresses were also investigated. Phylogenetically all the genes were divided into 6 distinct subgroups with Arabidopsis and orthologous proteins were find-out through synteny analysis. Available RNA-seq data in response to various phytohormones provided hormone inducible gene expression profile. Through Reverse Transcriptase qPCR (RT-qPCR) analysis tissue-specific expression in shoot and root over various time points against salt and osmotic stresses exhibited the diverse expression patterns of identified genes. Overall, the present study providing a foundation for in-depth characterization of identified genes and to further understand the epigenetic role of DNA methylation for genes expression and environmental stresses regulation in higher plant.en_US
dc.identifier.doi10.1016/j.gene.2019.144018
dc.identifier.issn0378-1119
dc.identifier.issn1879-0038
dc.identifier.pmid31454543en_US
dc.identifier.urihttps://doi.org/10.1016/j.gene.2019.144018
dc.identifier.urihttps://hdl.handle.net/20.500.12491/9819
dc.identifier.volume718en_US
dc.identifier.wosWOS:000487573000008en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakPubMeden_US
dc.institutionauthorBaloch, Faheem Shehzad
dc.language.isoenen_US
dc.publisherElsevieren_US
dc.relation.ispartofGeneen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectDNA Methylation/demethylationen_US
dc.subjectZFP Genesen_US
dc.subjectSalt and Osmotic Stressen_US
dc.subjectRiceen_US
dc.titleGenome-wide identification, classification, expression profiling and DNA methylation (5mC) analysis of stress-responsive ZFP transcription factors in rice (Oryza saliva L.)en_US
dc.typeArticleen_US

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