In-silico analysis of heat shock transcription factor (OsHSF) gene family in rice (Oryza sativa L.)

Abstract

Background One of the most important cash crops worldwide is rice (Oryza sativa L.). Under varying climatic conditions, however, its yield is negatively affected. In order to create rice varieties that are resilient to abiotic stress, it is essential to explore the factors that control rice growth, development, and are source of resistance. HSFs (heat shock transcription factors) control a variety of plant biological processes and responses to environmental stress. The in-silico analysis offers a platform for thorough genome-wide identification of OsHSF genes in the rice genome. Results In this study, 25 randomly dispersed HSF genes with significant DNA binding domains (DBD) were found in the rice genome. According to a gene structural analysis, all members of the OsHSF family share Gly-66, Phe-67, Lys-69, Trp-75, Glu-76, Phe-77, Ala-78, Phe-82, Ile-93, and Arg-96. Rice HSF family genes are widely distributed in the vegetative organs, first in the roots and then in the leaf and stem; in contrast, in reproductive tissues, the embryo and lemma exhibit the highest levels of gene expression. According to chromosomal localization, tandem duplication and repetition may have aided in the development of novel genes in the rice genome. OsHSFs have a significant role in the regulation of gene expression, regulation in primary metabolism and tolerance to environmental stress, according to gene networking analyses. Conclusion Six genes viz; Os01g39020, Os01g53220, Os03g25080, Os01g54550, Os02g13800 and Os10g28340 were annotated as promising genes. This study provides novel insights for functional studies on the OsHSFs in rice breeding programs. With the ultimate goal of enhancing crops, the data collected in this survey will be valuable for performing genomic research to pinpoint the specific function of the HSF gene during stress responses.

Characterization of the Heat Shock Transcription Factor Family in Lycoris radiata and Its Potential Roles in Response to Abiotic Stresses

“…A study about chaperonins demonstrated that their α-helical structure facilitates the folding of a protein faster [ 69 ]. The results of the recent study are compatible with rice [ 8 ], sunflower [ 69 ], and jujuba [ 70 ].…”

“…Recent rapid advancements in metagenomics have identified and characterized HSF genes in multiple plants, such as A. thaliana [ 15 ], rice [ 8 ], potato [ 9 ], Brachypodium distachyon [ 58 ], Triticum aestivum [ 59 ], and Zea mays [ 60 ]. However, the LrHSF family remains to be elucidated.…”

“…However, their number varies greatly between different organisms, such as sessile plants and animals. Vertebrates and drosophila have only three and one HSF genes, respectively, whereas Arabidopsis thaliana , rice ( Oryza sativa ), wheat ( Triticum aestivum ), potato ( Solanum tuberosum ), maize ( Zea mays ), kiwifruit ( Actinidia eriantha ), and rye ( Secale cereale L.) contain 21, 25, 82, 27, 25, 41, and 31 HSF genes, respectively [ 7 , 8 , 9 , 10 , 11 , 12 , 13 , 14 ]. The HSF comprises a markedly conserved structure and functional domains, such as an N-terminal DNA-binding domain (DBD), a nuclear export signal (NES), an N-terminal adjacent bipartite oligomerization domain (OD), a nuclear localization signal domain (NLS), and a C-terminal transcriptional activation domain (CTAD) [ 14 , 15 , 16 , 17 ].…”

Genome-Wide in Silico Analysis of the Heat Shock Protein (HSP) Family in Vigna Species: Insights into Molecular Mechanisms of Stress Response

“…However, these genes are controlled by several transcription factors that regulate their functioning in stressfull environment. The genome wide analysis of the genes linked to HSP family has been conducted in many plants that provided characterization and evolutionary background of these genes (Ren et al, 2023;Shamshad et al, 2023). But in the case of Vigna species, studies related to HSP factors have not yet been conducted.…”

“…In order to overcome the obstacles brought on by changing climatic circumstances, our research aims to disentangle these systems and access genetic resources associated with higher agricultural yields (Haider et al, 2021a;Ijaz et al, 2023a). Heat Shock Factors (HSFs) have been systematically determined in a range of plant species, including 21 HSFs in Arabidopsis thaliana (Nover et al, 2001), 25 each in Zea mays (Haider et al, 2021b) and Oryza sativa (Shamshad et al, 2023), 20 in soybean (Lopes-Caitar et al, 2013), and 61 HSFs in Triticum aestivum (Nagaraju et al, 2015). In order to conduct focused research and develop crop improvement techniques, it is important to have a detailed understanding of the complex regulatory network that governs plants' heat shock response.…”