Genome-Wide Identification and Characterization of the bHLH Transcription Factor Family in Pepper (Capsicum annuum L.)

Zhang, Zhishuo; Chen, Juan; Liang, Chengliang; Liu, Feng; Hou, Xilin; Zou, Xuexiao

doi:10.3389/fgene.2020.570156

Cited by 40 publications

(44 citation statements)

References 72 publications

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“…[ 7 ]. Various bHLH gene numbers have been reported in different plant species; for example, 122 bHLH genes have been identified in pepper ( Capsicum annuum L.), which were categorized into 21 subfamilies based on their position-specific conserved amino acids and the presence of other conserved structural domains [ 8 ]. In rice ( Oryza sativa L.), 167 bHLH family members were identified and classified into 22 subfamilies [ 9 ].…”

Section: Plant Bhlh Genesmentioning

confidence: 99%

Current Understanding of bHLH Transcription Factors in Plant Abiotic Stress Tolerance

Guo

Sun

et al. 2021

IJMS

135

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Named for the characteristic basic helix-loop-helix (bHLH) region in their protein structure, bHLH proteins are a widespread transcription factor class in eukaryotes. bHLHs transcriptionally regulate their target genes by binding to specific positions on their promoters and thereby direct a variety of plant developmental and metabolic processes, such as photomorphogenesis, flowering induction, shade avoidance, and secondary metabolite biosynthesis, which are important for promoting plant tolerance or adaptation to adverse environments. In this review, we discuss the vital roles of bHLHs in plant responses to abiotic stresses, such as drought, salinity, cold, and iron deficiency. We suggest directions for future studies into the roles of bHLH genes in plant and discuss their potential applications in crop breeding.

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Section: Plant Bhlh Genesmentioning

confidence: 99%

Current Understanding of bHLH Transcription Factors in Plant Abiotic Stress Tolerance

Guo

Sun

et al. 2021

IJMS

135

View full text Add to dashboard Cite

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“…The bHLH family has been widely identified in many plants, including Brassica rapa ssp. pekinensis [ 11 ], Solanum lycopersicum [ 12 ], common bean [ 13 ], Malus pumila [ 14 ], Arachis hypogaea [ 15 ], Brachypodium distachyon [ 16 ], Zea mays [ 17 ], Triticum aestivum [ 18 ], Phyllostachys edulis [ 19 ], Carthamus tinctorius [ 20 ], Chinese jujube [ 21 ], Piper nigrum [ 22 ], Jilin ginseng [ 23 ], Ananas comosus [ 24 ], Fagopyrum tataricum [ 25 ], and sorghum [ 26 ]. The bHLH genes have been conserved in the evolutionary history of the plant kingdom.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification and expression analysis of the bHLH transcription factor family and its response to abiotic stress in foxtail millet (Setaria italica L.)

et al. 2021

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Background Members of the basic helix-loop-helix (bHLH) transcription factor family perform indispensable functions in various biological processes, such as plant growth, seed maturation, and abiotic stress responses. However, the bHLH family in foxtail millet (Setaria italica), an important food and feed crop, has not been thoroughly studied. Results In this study, 187 bHLH genes of foxtail millet (SibHLHs) were identified and renamed according to the chromosomal distribution of the SibHLH genes. Based on the number of conserved domains and gene structure, the SibHLH genes were divided into 21 subfamilies and two orphan genes via phylogenetic tree analysis. According to the phylogenetic tree, the subfamilies 15 and 18 may have experienced stronger expansion in the process of evolution. Then, the motif compositions, gene structures, chromosomal spread, and gene duplication events were discussed in detail. A total of sixteen tandem repeat events and thirty-eight pairs of segment duplications were identified in bHLH family of foxtail millet. To further investigate the evolutionary relationship in the SibHLH family, we constructed the comparative syntenic maps of foxtail millet associated with representative monocotyledons and dicotyledons species. Finally, the gene expression response characteristics of 15 typical SibHLH genes in different tissues and fruit development stages, and eight different abiotic stresses were analysed. The results showed that there were significant differences in the transcription levels of some SibHLH members in different tissues and fruit development stages, and different abiotic stresses, implying that SibHLH members might have different physiological functions. Conclusions In this study, we identified 187 SibHLH genes in foxtail millet and further analysed the evolution and expression patterns of the encoded proteins. The findings provide a comprehensive understanding of the bHLH family in foxtail millet, which will inform further studies on the functional characteristics of SibHLH genes.

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“…75% more than in rice [ 46 ]. The bHLH gene family has been widely studied in many plant species, such as Arabidopsis [ 15 ], rice [ 18 ], Chinese cabbage [ 26 ], tomato [ 47 ], common bean [ 48 ], apple [ 49 ], peanut [ 50 ], Brachypodium distachyon [ 51 ], potato [ 52 ], maize [ 53 ], wheat [ 54 ], MOSO bamboo [ 55 ], Carthamus tinctorius [ 56 ], Chinese jujube [ 57 ], pepper [ 58 ], Jilin ginseng [ 59 ], pineapple [ 60 ], and tartary buckwheat [ 61 ], among others. However, at present, our understanding of gene families in S. bicolor is very limited.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification and expression analysis of the bHLH transcription factor family and its response to abiotic stress in sorghum [Sorghum bicolor (L.) Moench]

et al. 2021

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Background Basic helix-loop-helix (bHLH) is a superfamily of transcription factors that is widely found in plants and animals, and is the second largest transcription factor family in eukaryotes after MYB. They have been shown to be important regulatory components in tissue development and many different biological processes. However, no systemic analysis of the bHLH transcription factor family has yet been reported in Sorghum bicolor. Results We conducted the first genome-wide analysis of the bHLH transcription factor family of Sorghum bicolor and identified 174 SbbHLH genes. Phylogenetic analysis of SbbHLH proteins and 158 Arabidopsis thaliana bHLH proteins was performed to determine their homology. In addition, conserved motifs, gene structure, chromosomal spread, and gene duplication of SbbHLH genes were studied in depth. To further infer the phylogenetic mechanisms in the SbbHLH family, we constructed six comparative syntenic maps of S. bicolor associated with six representative species. Finally, we analyzed the gene-expression response and tissue-development characteristics of 12 typical SbbHLH genes in plants subjected to six different abiotic stresses. Gene expression during flower and fruit development was also examined. Conclusions This study is of great significance for functional identification and confirmation of the S. bicolor bHLH superfamily and for our understanding of the bHLH superfamily in higher plants.

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Genome-Wide Identification and Characterization of the bHLH Transcription Factor Family in Pepper (Capsicum annuum L.)

Cited by 40 publications

References 72 publications

Current Understanding of bHLH Transcription Factors in Plant Abiotic Stress Tolerance

Current Understanding of bHLH Transcription Factors in Plant Abiotic Stress Tolerance

Genome-wide identification and expression analysis of the bHLH transcription factor family and its response to abiotic stress in foxtail millet (Setaria italica L.)

Genome-wide identification and expression analysis of the bHLH transcription factor family and its response to abiotic stress in sorghum [Sorghum bicolor (L.) Moench]

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