Genome-Wide Identification Reveals the Potential Functions of the bZIP Gene Family in Common Bean (Phaseolus vulgaris) in Response to Salt Stress During the Sprouting Stage

Zhang, Qi; Zhang, Wenjing; Yin, Zhan; Li, Weijia; Xia, Chun-Yang; Sun, Hao-Yue; Yang, Yiming; Wu, Hongbin; Zhang, Shuo; Zhao, Hao-hao; Zhang, Wenhui; Guo, Yue; Du, Ji Dao; Zhao, Qiang

doi:10.1007/s00344-021-10497-x

Cited by 16 publications

(14 citation statements)

References 62 publications

(55 reference statements)

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“…Stress-related cis -elements, such as MBS and LTR, were found in VabZIPs and sesame bZIP transcription factor members ( Wang et al, 2018 ), leading to the hypothesis that VabZIPs are involved in abiotic stress responses. Moreover, since they contain the RY element, which is similar to that found in the common bean, VabZIP members may have had an effect at the bud stage ( Zhang et al, 2021 ).…”

Section: Discussionmentioning

confidence: 78%

“…Cis -elements in promoter regions of VabZIP members regulate the functions of VabZIPs that contain related cis -elements ( Lescot et al, 2002 ). Similarly, bZIP members have cis -elements that are comparable across species: ABRE, TATC-box, TCA-element, and P-box are hormone-related cis -elements in VabZIP and bZIP members in common bean and potato ( Wang et al, 2021 ; Zhang et al, 2021 ), implying that VabZIPs may regulate hormones involved in plant growth. Stress-related cis -elements, such as MBS and LTR, were found in VabZIPs and sesame bZIP transcription factor members ( Wang et al, 2018 ), leading to the hypothesis that VabZIPs are involved in abiotic stress responses.…”

Section: Discussionmentioning

confidence: 99%

“…The application of genome sequencing has led to identification of bZIP family members ( Jakoby et al, 2002 ), in Arabidopsis ( Jakoby et al, 2002 ), rice ( E et al, 2014 ), Carthamus tinctorius ( Li H. et al, 2020 ), Chinese jujube ( Ziziphus jujuba ) ( Zhang Q. et al, 2020 ), Olive ( Olea europaea ) ( Rong et al, 2020 ), common bean ( Phaseolus vulgaris ) ( Zhang et al, 2021 ), and potato ( Solanum tuberosum ) ( Herath and Verchot, 2020 ). However, few studies have investigated bZIP family members in adzuki bean ( Vigna angularis ).…”

Section: Introductionmentioning

confidence: 99%

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The bZIP Transcription Factor Family in Adzuki Bean (Vigna Angularis): Genome-Wide Identification, Evolution, and Expression Under Abiotic Stress During the Bud Stage

et al. 2022

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Adzuki bean (Vigna angularis) is an important dietary legume crop that was first cultivated and domesticated in Asia. Currently, little is known concerning the evolution and expression patterns of the basic leucine zipper (bZIP) family transcription factors in the adzuki bean. Through the PFAM search, 72 bZIP members of adzuki bean (VabZIP) were identified from the reference genome. Most of them were located on 11 chromosomes and seven on an unknown chromosome. A comprehensive analysis, including evolutionary, motifs, gene structure, cis-elements, and collinearity was performed to identify VabZIP members. The subcellular localization results showed VabZIPs might locate on the nuclear. Quantitative real-time PCR (qRT-PCR) analysis of the relative expression of VabZIPs in different tissues at the bud stage revealed that VabZIPs had a tissue-specific expression pattern, and its expression was influenced by abiotic stress. These characteristics of VabZIPs provide insights for future research aimed at developing interventions to improve abiotic stress resistance.

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Section: Discussionmentioning

confidence: 78%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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The bZIP Transcription Factor Family in Adzuki Bean (Vigna Angularis): Genome-Wide Identification, Evolution, and Expression Under Abiotic Stress During the Bud Stage

et al. 2022

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“…Samples were collected from the seedlings on the fifth day after the treatment. Germination indicators (such as germination rate and vitality index) were captured as described previously ( Zhang et al., 2021c ). The bean sprouts from the different treatments were scanned using an Epson V750 root system scanner.…”

Section: Methodsmentioning

confidence: 99%

Exogenous melatonin enhances cell wall response to salt stress in common bean (Phaseolus vulgaris) and the development of the associated predictive molecular markers

et al. 2022

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Common bean (Phaseolus vulgaris) is an important food crop; however, its production is affected by salt stress. Salt stress can inhibit seed germination, promote senescence, and modify cell wall biosynthesis, assembly, and architecture. Melatonin, an indole heterocycle, has been demonstrated to greatly impact cell wall structure, composition, and regulation in plants under stress. However, the molecular basis for such assumptions is still unclear. In this study, a common bean variety, “Naihua” was treated with water (W), 70 mmol/L NaCl solution (S), and 100 μmol/L melatonin supplemented with salt solution (M+S) to determine the response of common bean to exogenous melatonin and explore regulatory mechanism of melatonin against salt stress. The results showed that exogenous melatonin treatment alleviated salt stress-induced growth inhibition of the common bean by increasing the length, surface area, volume, and diameter of common bean sprouts. Moreover, RNA sequencing (RNA-seq) and real-time quantitative PCR (qRT-PCR) indicated that the cell wall regulation pathway was involved in the salt stress tolerance of the common bean enhanced by melatonin. Screening of 120 germplasm resources revealed that melatonin treatment improved the salt tolerance of more than 65% of the common bean germplasm materials. Melatonin also up-regulated cell wall pathway genes by at least 46%. Furthermore, we analyzed the response of the common bean germplasm materials to melatonin treatment under salt stress using the key genes associated with the synthesis of the common bean cell wall as the molecular markers. The results showed that two pairs of markers were significantly associated with melatonin, and these could be used as candidate markers to predict whether common bean respond to exogenous melatonin and then enhance salt tolerance at the sprouting stage. This study shows that cell wall can respond to exogenous melatonin and enhance the salt tolerance of common bean. The makers identified in this study can be used to select common bean varieties that can respond to melatonin under stress. Overall, the study found that cell wall could response melatonin and enhance the salt tolerance and developed the makers for predicting varieties fit for melatonin under stress in common bean, which may be applied in the selection or development of common bean varieties with abiotic stress tolerance.

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“…The ABA content was determined by HPLC-MS/MS (AB SCIEX, shimadzuLc-20AD and AB5500, Framingham, MA, USA) at the Quality Inspection Center (Dalian, China) [ 35 ]. The physiological indicators (such as starch, sucrose and lignin) [ 36 ] and the enzyme activities [ 37 ] in the enriched pathways were compared between the control and stress treatment groups and were determined by ELISA Kit (Michy, Suzhou, China) with five replicates and a microplate reader.…”

Section: Methodsmentioning

confidence: 99%

RNA-Seq Analysis Demonstrates Different Strategies Employed by Tiger Nuts (Cyperus esculentus L.) in Response to Drought Stress

Wei

Liu

et al. 2022

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Drought stress, an important abiotic stress, has affected global agricultural production by limiting the yield and the quality of crops. Tiger nuts (Cyperus esculentus L.) are C4 crops in the Cyperaceae family, which have high-quality wholesome ingredients. However, data on mechanisms underlying the response of tiger nuts to drought stress are few. Here, the variety of Jisha 1 and 15% polyethylene glycol (PEG; a drought stress simulator) were used to study the mechanisms of stress response in tiger nuts. Our evaluation of the changes in physiological indicators such as electrolyte leakage (El), malondialdehyde (MDA), hydrogen peroxide (H2O2), superoxide anion (O2−) and activities of reactive oxygen species (ROS) showed that 12 h was the most suitable time point to harvest and analyze the response to drought stress. Thereafter, we performed transcriptome (RNA-Seq) analysis in the control (CK) and stress treatment groups and showed that there was a total of 1760 differentially expressed genes (DEGs). Gene Ontology (GO) analysis showed that the DEGs were enriched in abscisic acid (ABA) terms, and pathways such as starch and sucrose metabolism (ko00500), phenylpropanoid biosynthesis (ko00940) and plant hormone signal transduction (ko04075) were significantly enriched in the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. In addition, quantitative real-time PCR (qRT-PCR) analysis of the DEGs demonstrated an upregulation of ABA and lignin content, as well as enzyme activities in enriched pathways, which validated the RNA-Seq data. These results revealed the pathways and mechanisms adopted by the tiger nuts in response to drought stress.

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Genome-Wide Identification Reveals the Potential Functions of the bZIP Gene Family in Common Bean (Phaseolus vulgaris) in Response to Salt Stress During the Sprouting Stage

Cited by 16 publications

References 62 publications

The bZIP Transcription Factor Family in Adzuki Bean (Vigna Angularis): Genome-Wide Identification, Evolution, and Expression Under Abiotic Stress During the Bud Stage

The bZIP Transcription Factor Family in Adzuki Bean (Vigna Angularis): Genome-Wide Identification, Evolution, and Expression Under Abiotic Stress During the Bud Stage

Exogenous melatonin enhances cell wall response to salt stress in common bean (Phaseolus vulgaris) and the development of the associated predictive molecular markers

RNA-Seq Analysis Demonstrates Different Strategies Employed by Tiger Nuts (Cyperus esculentus L.) in Response to Drought Stress

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