Genome-wide investigation of the heat shock transcription factor (Hsf) gene family in Tartary buckwheat (Fagopyrum tataricum)

Abstract

BackgroundHeat shock transcription factor (Hsfs) is widely found in eukaryotes and prokaryotes. Hsfs can not only help organisms resist high temperature, but also participate in the regulation of plant growth and development (such as involved in the regulation of seed maturity and affects the root length of plants). The Hsf gene was first isolated from yeast and then gradually found in plants and sequenced, such as Arabidopsis thaliana, rice, maize. Tartary buckwheat is a rutin-rich crop, and its nutritional value and medicinal value are receiving more and more attention. However, there are few studies on the Hsf genes in Tartary buckwheat. With the whole genome sequence of Tartary buckwheat, we can effectively study the Hsf gene family in Tartary buckwheat.ResultsAccording to the study, 29 Hsf genes of Tartary buckwheat (FtHsf) were identified and renamed according to location of FtHsf genes on chromosome after removing a redundant gene. Therefore, only 29 FtHsf genes truly had the functional characteristics of the FtHsf family. The 29 FtHsf genes were located on 8 chromosomes of Tartary buckwheat, and we found gene duplication events in the FtHsf gene family, which may promote the expansion of the FtHsf gene family. Then, the motif compositions and the evolutionary relationship of FtHsf proteins and the gene structures, cis-acting elements in the promoter, synteny analysis of FtHsf genes were discussed in detail. What’s more, we found that the transcription levels of FtHsf in different tissues and fruit development stages were significantly different by quantitative real-time PCR (qRT-PCR), implied that FtHsf may differ in function.ConclusionsIn this study, only 29 Hsf genes were identified in Tartary buckwheat. Meanwhile, we also classified the FtHsf genes, and studied their structure, evolutionary relationship and the expression pattern. This series of studies has certain reference value for the study of the specific functional characteristics of Tartary buckwheat Hsf genes and to improve the yield and quality of Tartary buckwheat in the future.

Genome-Wide Identification of Petunia HSF Genes and Potential Function of PhHSF19 in Benzenoid/Phenylpropanoid Biosynthesis

“…AHA motif (motif 10), which functions as a transcription activator [ 1 ], only exists in subfamily A, suggesting that HSF members from subfamily B and subfamily C might probably lack transcriptional activation function. Similar to the AHA motif, the NES motif (motif 11) is also only found in the HSFs from subfamily A. OD, called the HR-A/B region, can be used to distinguish subfamily B from subfamilies A and C [ 1 ], as this domain in petunia is longer (as motif 4) in subfamilies A and C, but is less (as motif 9) in subfamily B, which is more similar to other species [ 27 , 28 , 29 ].…”

Large-scale analyses of heat shock transcription factors and database construction based on whole-genome genes in horticultural and representative plants

“…An Hsf family gene was first cloned and characterized in Saccharomyces cerevisiae (yeast) [ 20 ]. Until now, the Hsf gene family has been detected in the whole genome in most species, such as in Arabidopsis thaliana (21 genes) [ 9 ], Oryza sativa (25) [ 9 ], Solanum lycopersicum (26) [ 21 ], Brassica oleracea (35) [ 22 ], Brassica rapa (36) [ 17 , 23 ], Brassica juncea (60) [ 24 ], Brassica napus (64) [ 25 ], Apium graveolens (17) [ 26 ], Coriandrum sativum (32) [ 26 ], Daucus carota (14) [ 26 ], Lactuca sativa (32) [ 26 ], Capsicum annuum (25) [ 27 ], Cicer arietinum (20) [ 28 ], Manihot esculenta (32) [ 29 ], Vitis vinifera (19) [ 30 ], Prunus mume (18) [ 31 ], Sesamum indicum (30) [ 32 ], Glycine max (38) [ 33 ], Fagopyrum tataricum (29) [ 34 ], Zea mays (31) [ 35 ], and Triticum aestivum (61) [ 36 ]. All of these studies provided rich resources for comparative analysis of the Hsf gene family in plants.…”

Genome-Wide Comparative Analysis of Heat Shock Transcription Factors Provides Novel Insights for Evolutionary History and Expression Characterization in Cotton Diploid and Tetraploid Genomes

“…Based on the length of a flexible linker between DBD and OD and the amino acids of OD regions, members of the HSF gene family can be divided into three major types, namely HSFA, HSFB, and HSFC ( Zhu et al, 2017 ; Chen et al, 2018 ). Until now, the identification of the HSF gene family has been investigated in several genome-sequenced plant species, such as Solanum lycopersicum (24) ( Doring et al, 2000 ), Arabidopsis thaliana (21) ( Guo et al, 2008 ), Oryza sativa (25) ( Scharf et al, 2012 ), Zea mays (25) ( Lin et al, 2011 ), Glycine max (26) ( Chung et al, 2013 ), Brassica oleracea (35) ( Lohani et al, 2019 ), Brassica rapa (36) ( Lohani et al, 2019 ), Brassica napus (64) ( Lohani et al, 2019 ), Sesamum indicum (30) ( Dossa et al, 2016 ), Prunus mume (18) ( Wan et al, 2019 ), Fagopyrum tataricum (29) ( Liu et al, 2019 ), Cicer arietinum (20) ( Zafar et al, 2016 ), Vitis vinifera (19) ( Guotian et al, 2018 ), Capsicum annuum (25) ( Guo et al, 2015 ), and Brassica juncea (60) ( Li et al, 2020 ). For these plant species, the HSF gene family was classified and investigated based on whole genomes and an expression analysis of the members of the HSF gene family under different experimental designs was conducted.…”