Genome-wide Scanning and Characterization of Sorghum bicolor L. Heat Shock Transcription Factors

Nagaraju, M.; Reddy, Palakolanu Sudhakar; Kumar, S. Anil; Srivastava, Rakesh K.; Kishor, P. B. Kavi; Rao, D. Manohar

doi:10.2174/1389202916666150313230812

Cited by 27 publications

(28 citation statements)

References 65 publications

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“…The first HSF gene found in plants was cloned in tomato (Solanum lycopersicum) [12] and the HSF gene family have now been characterized in Arabidopsis (Arabidopsis thaliana), rice (Oryza sativa) [13], maize (Zea mays) [14], soybean (Glycine max) [15], chickpea (Cicer arietinum) [16], and sorghum (Sorghum bicolor) [17], as well as in vegetables including Chinese cabbage (Brassica rapa) [18] and pepper (Capsicum annuum) [19], and fruits such as apple (Malus domestica) [20] and pear (Pyrus bretschneideri) [21]. In addition to the Hsf s involved in the regulation of heat-resistance mechanism studied in Arabidopsis [22,23], many Hsfs have been found to participate in other responses in various plant species in recent years.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Investigation of Heat Shock Transcription Factor Family in Wheat (Triticum aestivum L.) and Possible Roles in Anther Development

Yang

Gan

et al. 2020

IJMS

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Heat shock transcription factors (HSFs) play crucial roles in resisting heat stress and regulating plant development. Recently, HSFs have been shown to play roles in anther development. Thus, investigating the HSF family members and identifying their protective roles in anthers are essential for the further development of male sterile wheat breeding. In the present study, 61 wheat HSF genes (TaHsfs) were identified in the whole wheat genome and they are unequally distributed on 21 chromosomes. According to gene structure and phylogenetic analyses, the 61 TaHsfs were classified into three categories and 12 subclasses. Genome-wide duplication was identified as the main source of the expansion of the wheat HSF gene family based on 14 pairs of homeologous triplets, whereas only a very small number of TaHsfs were derived by segmental duplication and tandem duplication. Heat shock protein 90 (HSP90), HSP70, and another class of chaperone protein called htpG were identified as proteins that interact with wheat HSFs. RNA-seq analysis indicated that TaHsfs have obvious period- and tissue-specific expression patterns, and the TaHsfs in classes A and B respond to heat shock, whereas the C class TaHsfs are involved in drought regulation. qRT-PCR identified three TaHsfA2bs with differential expression in sterile and fertile anthers, and they may be candidate genes involved in anther development. This comprehensive analysis provides novel insights into TaHsfs, and it will be useful for understanding the mechanism of plant fertility conversion.

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Section: Introductionmentioning

confidence: 99%

Genome-Wide Investigation of Heat Shock Transcription Factor Family in Wheat (Triticum aestivum L.) and Possible Roles in Anther Development

Yang

Gan

et al. 2020

IJMS

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“…They also found that the most Hsfs was clustered into A branches followed by B branches, and the least was C branches. Meanwhile, they concluded that the difference between the three species of Hsfs in the A and B branches lead to the different responses of different species to stress [14]. Therefore, the results in this research work suggested that the different stress-tolerant ability between wild and cultivated rice might be induced by the difference of Hsfs between 6 wild rice and cultivated rice on the evolutionary branches.…”

Section: Discussionmentioning

confidence: 70%

“…But the number of China pear Hsf A branch was 19, while B and C branch Hsfs were 8 and 2. Nagaraju et al used the same strategy to build the evolutionary tree of rice, Arabidopsis and sorghum Hsfs [14]. They also found that the most Hsfs was clustered into A branches followed by B branches, and the least was C branches.…”

Section: Discussionmentioning

confidence: 99%

“…With the complement of genome DNA sequencing project, Hsf family members had been identified in more than 20 plant species at genome-wide scale [7], including Oryza sativa L. [8], Pyrus bretschneideri [13], Sorghum bicolor [14] and Populus [15]. The maximum of Hsf genes among monocots is 56 which was identified in wheat, while the maximum of Hsf genes among dicots were found in soybean [4].…”

Section: Introductionmentioning

confidence: 99%

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Evolutional analysis of heat shock transcription factors in wild and cultivated rice (Oryza sativa L.)

Tao¹,

Wan²,

Woldegiorgis³

et al. 2020

Preprint

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Background：Heat shock transcription factors (Hsfs) take part in many physiological and biochemical pathways in plants by regulating the expression of various stress-responsive genes, such as heat shock proteins (Hsps). With the development of rice genome re-sequencing projects, some researches had been carried out to identify Hsf gene family members in rice at the whole genomic scale. However, Hsfs in cultivated and wild rice genomes has not been fully studied and compared, although genetic diversity in cultivated rice is limited compared to wild rice. Results：In this research work, Hsfs genes were screened and evolutionally compared in the genomes of 6 wild rice and 1 cultivated rice varieties, including O. barthii, O. glumaepatula, O. meridionalis, O. nivara, O. punctate, O. rufipogon and O. sativa & Nipponbare. Total 22, 23, 24, 24, 25, 25 and 25 Hsf genes were identified in the tested 7 rice genomes, respectively. The different number of Hsf genes between wild and cultivated rice genotypes was due to dispersed duplication and whole genome duplication (WGD) events, reversely contributed to different stress-tolerant ability between wild and cultivated rice. The evolutional analysis on the Hsf genes confirmed that O. rufipogon was the immediate ancestral progenitors of O. sativa. The expression profile of Hsf genes in Nipponbare and O. rufipogon under different stage of salinity stress showed that 4 root Hsf genes, including HsfA3a, HsfA4d, HsfC2a and HsfC2b, were simultaneously up-regulated by salinity stress in cultivated rice and its ancestral progenitor, implying that these 4 Hsf genes played conserved roles in rice in response to salinity stress. However, a substantial number of Hsf genes were exclusively regulated only in Oryza rufipogon rice seedling, suggesting that some of genuine salinity stress tolerance genes might be missing in cultivated rice. Conclusion：The results of this study would give insight into the evolution and function of Hsf gene members in rice, and hint to the use of wild relative genes to improve rice performance.

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“…The first HSF gene in plants was cloned in tomato (Solanum lycopersicum L.) [11] and they have now been characterized in Arabidopsis, rice [12], maize (Zea mays L.) [13], soybean (Glycine max L.) [14], chickpea [15], and sorghum [16], as well as in vegetables including Chinese cabbage [17] and pepper [18], and fruits such as apple [19] and pear [20]. In addition to those Hsfs who involved in the regulation of heat-resistance mechanisms were researched in Arabidopsis [21,22], many Hsfs have been found to be participate in other response in various plants in recent years.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide investigation of heat shock transcription factor family in wheat (Triticum aestivum L.)

Song

Yang

et al. 2019

Preprint

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Background: Heat shock transcription factors (HSFs) play crucial roles in resisting heat stress and regulating plant development. Investigating the HSF family is essential for understanding the fertility conversion mechanism in thermo-sensitive male sterile wheat. Previous studies have investigated the HSF family in wheat but it is necessary to conduct more in-depth and systematic analyses based on the newly published reference genome. Results: In the present study, 61 wheat Hsf (TaHsf) genes were identified using two main strategies and renamed based on their physical locations on chromosomes. According to the gene structure and phylogenetic analyses, the 61 TaHsf genes were classified into three categories and eleven subclasses. The genes were unequally distributed on 21 chromosomes, including two pairs of tandem duplication genes and 52 TaHsf segmental duplication genes. According to the cis-elements identified, most of the TaHsfs can be activated by Ca++ and MYB, and they respond to drought, light, copper, and other stresses as well as heat shock. RNA-seq analysis indicated that the A2 class TaHsf genes exhibited persistently upregulated expression levels in the leaves/shoots, roots (except in the vegetative growth and reproductive growth stages), spikes, and grains in wheat under normal conditions. The A and B class TaHsf genes were positively regulated during the resistance to heat, whereas the C class genes were involved in drought regulation in wheat. Only the A and B class TaHsf genes were upregulated under fertile conditions in thermo-sensitive male sterile wheat. Conclusion: In this study, 61 wheat Hsf genes were identified based on the complete wheat reference genome. This comprehensive analysis provides novel insights into the TaHsf genes, including their diverse functions and involvement in metabolic pathways.

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Genome-wide Scanning and Characterization of Sorghum bicolor L. Heat Shock Transcription Factors

Cited by 27 publications

References 65 publications

Genome-Wide Investigation of Heat Shock Transcription Factor Family in Wheat (Triticum aestivum L.) and Possible Roles in Anther Development

Genome-Wide Investigation of Heat Shock Transcription Factor Family in Wheat (Triticum aestivum L.) and Possible Roles in Anther Development

Evolutional analysis of heat shock transcription factors in wild and cultivated rice (Oryza sativa L.)

Genome-wide investigation of heat shock transcription factor family in wheat (Triticum aestivum L.)

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