Genome-wide characterization of bZIP transcription factors and their expression patterns in response to drought and salinity stress in Jatropha curcas

Wang, Zhanjun; Zhu, Jianzhong; Yuan, Wenya; Wang, Ying; Hu, Peipei; Chen, Jiao; Xia, Haimeng; Wang, Dandan; Cai, Qianwen; Li, Jie; Wang, Chenchen; Xie, Zhaoxiong; Chen, Yansong; Wang, Zhaoxia; Ou, Zulan; Xu, Zhongdong; Shi, Jisen; Chen, Jinhui

doi:10.1016/j.ijbiomac.2021.05.027

Cited by 21 publications

(6 citation statements)

References 65 publications

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“…Gene structure is an important parameter for gene evolution that further supports phylogenetic trees [ 26 ]. The coding sequences (CDS) of CsNPF genes were further analyzed to determine the structural diversity of these genes ( Figure 4 B).…”

Section: Resultsmentioning

confidence: 99%

Systematic Investigation and Expression Profiles of the Nitrate Transporter 1/Peptide Transporter Family (NPF) in Tea Plant (Camellia sinensis)

Wang

Wei

Ruan

et al. 2022

IJMS

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NRT1/PTR FAMILY (NPF) genes are characterized as nitrate and peptide transporters that played important roles in various substrates transport in plants. However, little is known about the NPF gene in tea plants. Here, a total of 109 CsNPF members were identified from the tea plant genome, and divided into 8 groups according to their sequence characteristics and phylogenetic relationship. Gene structure and conserved motif analysis supported the evolutionary conservation of CsNPFs. Many hormone and stress response cis-acting elements and transcription factor binding sites were found in CsNPF promoters. Syntenic analysis suggested that multiple duplication types contributed to the expansion of NPF gene family in tea plants. Selection pressure analysis showed that CsNPF genes experienced strong purifying selective during the evolution process. The distribution of NPF family genes revealed that 8 NPF subfamilies were formed before the divergence of eudicots and monocots. Transcriptome analysis showed that CsNPFs were expressed differently in different tissues of the tea plant. The expression of 20 CsNPF genes at different nitrate concentrations was analyzed, and most of those genes responded to nitrate resupply. Subcellular localization showed that both CsNPF2.3 and CsNPF6.1 were localized in the plasma membrane, which was consistent with the characteristics of transmembrane proteins involved in NO3- transport. This study provides a theoretical basis for further investigating the evolution and function of NPF genes.

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Section: Resultsmentioning

confidence: 99%

Systematic Investigation and Expression Profiles of the Nitrate Transporter 1/Peptide Transporter Family (NPF) in Tea Plant (Camellia sinensis)

Wang

Wei

Ruan

et al. 2022

IJMS

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“…All BvbZIP genes except BvbZIP31 contained more than four types of functional elements, suggesting that the BvbZIP genes may be widely involved in the abiotic stress response of sugar beet. Among the functional elements, TC-rich, MeJA, SA, ABRE and MBS elements may be related to salt stress [ 41 , 42 , 43 ].…”

Section: Resultsmentioning

confidence: 99%

Genome-Wide Identification and Salt Stress Response Analysis of the bZIP Transcription Factor Family in Sugar Beet

Gong

Liu

Chen

et al. 2022

IJMS

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As one of the largest transcription factor families in plants, bZIP transcription factors play important regulatory roles in different biological processes, especially in the process of stress response. Salt stress inhibits the growth and yield of sugar beet. However, bZIP-related studies in sugar beet (Beta vulgaris L.) have not been reported. This study aimed to identify the bZIP transcription factors in sugar beet and analyze their biological functions and response patterns to salt stress. Using bioinformatics, 48 BvbZIP genes were identified in the genome of sugar beet, encoding 77 proteins with large structural differences. Collinearity analysis showed that three pairs of BvbZIP genes were fragment replication genes. The BvbZIP genes were grouped according to the phylogenetic tree topology and conserved structures, and the results are consistent with those reported in Arabidopsis. Under salt stress, the expression levels of most BvbZIP genes were decreased, and only eight genes were up-regulated. GO analysis showed that the BvbZIP genes were mainly negatively regulated in stress response. Protein interaction prediction showed that the BvbZIP genes were mainly involved in light signaling and ABA signal transduction, and also played a certain role in stress responses. In this study, the structures and biological functions of the BvbZIP genes were analyzed to provide foundational data for further mechanistic studies and for facilitating the efforts toward the molecular breeding of stress-resilient sugar beet.

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“…Cis-acting element analysis results showed that the promoters of LcAAAP genes' response to the abiotic have at least one of the LTR (response to the low temperature), MBS (MYB binding site involved in drought-inducibility), and TC-rich repeat elements (cis-acting element involved in defense and stress responsiveness), which showed that promoters could control structural and morphological changes in plant-environment interactions to adapt to unfavorable external environments [58]. How plants adapt to external abiotic stresses involves a very complex gene regulatory network, and a variety of transcription factors are usually involved in this process [58][59][60]. In previous studies, we found that WRKY and MYB genes were involved in regulating the response of hybrid Liriodendron to stress [56,57].…”

Section: Discussionmentioning

confidence: 99%

Identification, Phylogenetic and Expression Analyses of the AAAP Gene Family in Liriodendron chinense Reveal Their Putative Functions in Response to Organ and Multiple Abiotic Stresses

Fan

Wang

et al. 2022

IJMS

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In this study, 52 AAAP genes were identified in the L. chinense genome and divided into eight subgroups based on phylogenetic relationships, gene structure, and conserved motif. A total of 48 LcAAAP genes were located on the 14 chromosomes, and the remaining four genes were mapped in the contigs. Multispecies phylogenetic tree and codon usage bias analysis show that the LcAAAP gene family is closer to the AAAP of Amborella trichopoda, indicating that the LcAAAP gene family is relatively primitive in angiosperms. Gene duplication events revealed six pairs of segmental duplications and one pair of tandem duplications, in which many paralogous genes diverged in function before monocotyledonous and dicotyledonous plants differentiation and were strongly purification selected. Gene expression pattern analysis showed that the LcAAAP gene plays a certain role in the development of Liriodendron nectary and somatic embryogenesis. Low temperature, drought, and heat stresses may activate some WRKY/MYB transcription factors to positively regulate the expression of LcAAAP genes to achieve long-distance transport of amino acids in plants to resist the unfavorable external environment. In addition, the GAT and PorT subgroups could involve gamma-aminobutyric acid (GABA) transport under aluminum poisoning. These findings could lay a solid foundation for further study of the biological role of LcAAAP and improvement of the stress resistance of Liriodendron.

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Genome-wide characterization of bZIP transcription factors and their expression patterns in response to drought and salinity stress in Jatropha curcas

Cited by 21 publications

References 65 publications

Systematic Investigation and Expression Profiles of the Nitrate Transporter 1/Peptide Transporter Family (NPF) in Tea Plant (Camellia sinensis)

Systematic Investigation and Expression Profiles of the Nitrate Transporter 1/Peptide Transporter Family (NPF) in Tea Plant (Camellia sinensis)

Genome-Wide Identification and Salt Stress Response Analysis of the bZIP Transcription Factor Family in Sugar Beet

Identification, Phylogenetic and Expression Analyses of the AAAP Gene Family in Liriodendron chinense Reveal Their Putative Functions in Response to Organ and Multiple Abiotic Stresses

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