Cloning the PvP5CS gene from common bean (Phaseolus vulgaris) and its expression patterns under abiotic stresses

2009 ◽  
Vol 166 (1) ◽  
pp. 12-19 ◽  
Author(s):  
Ji-Bao Chen ◽  
Shu-Min Wang ◽  
Rui-Lian Jing ◽  
Xin-Guo Mao
Keyword(s):  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Abiotic Stresses ◽  
Expression Patterns

scholarly journals Regulatory Mechanisms of the Resistance to Common Bacterial Blight Revealed by Transcriptomic Analysis in Common Bean (Phaseolus vulgaris L.)

2022 ◽  
Vol 12 ◽  
Author(s):  
Penghui Yang ◽  
Yujie Chang ◽  
Lanfen Wang ◽  
Shumin Wang ◽  
Jing Wu
Keyword(s):  
Phaseolus Vulgaris ◽  
Common Bean ◽  
High Resistance ◽  
Expression Patterns ◽  
Differential Expression Analysis ◽  
Differentially Expressed Gene ◽  
Transcriptomic Analysis ◽  
Post Inoculation ◽  
Pathogen Infection ◽  
Genes Encoding

Common bean blight (CBB), primarily caused by Xanthomonas axonopodis pv. phaseoli (Xap), is one of the most destructive diseases of common bean (Phaseolus vulgaris L.). The tepary bean genotype PI 319443 displays high resistance to Xap, and the common bean genotypes HR45 and Bilu display high resistance and susceptibility to Xap, respectively. To identify candidate genes related to Xap resistance, transcriptomic analysis was performed to compare gene expression levels with Xap inoculation at 0, 24, and 48 h post inoculation (hpi) among the three genotypes. A total of 1,146,009,876 high-quality clean reads were obtained. Differentially expressed gene (DEG) analysis showed that 1,688 DEGs responded to pathogen infection in the three genotypes. Weighted gene coexpression network analysis (WGCNA) was also performed to identify three modules highly correlated with Xap resistance, in which 334 DEGs were likely involved in Xap resistance. By combining differential expression analysis and WGCNA, 139 DEGs were identified as core resistance-responsive genes, including 18 genes encoding resistance (R) proteins, 19 genes belonging to transcription factor families, 63 genes encoding proteins with oxidoreductase activity, and 33 plant hormone signal transduction-related genes, which play important roles in the resistance to pathogen infection. The expression patterns of 20 DEGs were determined by quantitative real-time PCR (qRT-PCR) and confirmed the reliability of the RNA-seq results.

scholarly journals Heterosis for the root distribution trait in common bean

2020 ◽  
Vol 43 ◽  
pp. e46712
Author(s):  
Sibila Grigolo ◽  
Rita Carolina de Melo ◽  
Ana Carolina da Costa Lara Fioreze ◽  
Altamir Frederico Guidolin ◽  
Jefferson Luís Meirelles Coimbra
Keyword(s):  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Abiotic Stresses ◽  
Gene Pool ◽  
Root Distribution ◽  
Environmental Changes ◽  
Phaseolus Vulgaris L ◽  
Epistatic Interactions ◽  
Genetic Studies ◽  
The Mean

Heterosis has been one of the most studied phenomena since genetic studies were conceived. Knowledge of this phenomenon for the root distribution trait in beans (Phaseolus vulgaris L.) can favour the development of genotypes that are more tolerant to abiotic stresses. This study aimed to verify the occurrence of heterosis for the root distribution trait in hybrid F1 populations of common bean derived from crosses within and between gene groups. Thirty-six populations (six parents and 30 hybrids) were evaluated under field conditions in the agricultural years 2016/17 and 2017/18. The root distribution was assessed with the adapted Bohm method. The genotypes responded similarly to environmental changes (absence of an interaction). However, the root distribution differed significantly between the agricultural years. Comparisons between the mean of hybrids from crosses within each gene pool and the mean of parents did not reveal heterosis. The comparisons between gene groups showed significant differences only between BRS Embaixador x IPR Uirapuru, CBS 14 x IPR Uirapuru, and BAF 53 x IPR Uirapuru and the mean of parents. The absence of heterosis in the root trait can be explained by the degree of kinship between the gene groups, as well as some epistatic interactions.

scholarly journals DREB Genes from Common Bean (Phaseolus vulgaris L.) Show Broad to Specific Abiotic Stress Responses and Distinct Levels of Nucleotide Diversity

2019 ◽  
Vol 2019 ◽  
pp. 1-28 ◽  
Author(s):  
Enéas Ricardo Konzen ◽  
Gustavo Henrique Recchia ◽  
Fernanda Cassieri ◽  
Danielle Gregorio Gomes Caldas ◽  
Jorge C. Berny Mier y Teran ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Amino Acid ◽  
Common Bean ◽  
Expression Profile ◽  
Abiotic Stresses ◽  
Nucleotide Diversity ◽  
Expression Profiles ◽  
Expression Patterns ◽  
Nucleotide Variability ◽  
Amino Acid Diversity

We analyzed the nucleotide variability and the expression profile of DREB genes from common bean, a crop of high economic and nutritional value throughout the world but constantly affected by abiotic stresses in cultivation areas. As DREB genes have been constantly associated with abiotic stress tolerance, we systematically categorized 54 putative PvDREB genes distributed in the common bean genome. It involved from AP2 domain location and amino acid conservation analysis (valine at the 14th position) to the identification of conserved motifs within peptide sequences representing six subgroups (A-1 to A-6) of PvDREB proteins. Four genes (PvDREB1F, PvDREB2A, PvDREB5A, and PvDREB6B) were cloned and analyzed for their expression profiles under abiotic stresses and their nucleotide and amino acid diversity in genotypes of Andean and Mesoamerican origin, showing distinct patterns of expression and nucleotide variability. PvDREB1F and PvDREB5A showed high relative inducibilities when genotypes of common bean were submitted to stresses by drought, salt, cold, and ABA. PvDREB2A inducibility was predominantly localized to the stem under drought. PvDREB6B was previously described as an A-2 (DREB2) gene, but a detailed phylogenetic analysis and its expression profile clearly indicated it belongs to group A-6. PvDREB6B was found as a cold- and dehydration-responsive gene, mainly in leaves. Interestingly, PvDREB6B also showed a high nucleotide and amino acid diversity within its coding region, in comparison to the others, implicating in several nonsynonymous amino acid substitutions between Andean and Mesoamerican genotypes. The expression patterns and nucleotide diversity of each DREB found in this study revealed fundamental characteristics for further research aimed at understanding the molecular mechanisms associated with drought, salt, and cold tolerance in common bean, which could be performed based on association mapping and functional analyses.

Physiological characterization of common bean (Phaseolus vulgaris L.) under abiotic stresses for breeding purposes

2018 ◽  
Vol 25 (31) ◽  
pp. 31149-31164 ◽  
Author(s):  
Anna Cristina Lanna ◽  
Renato Adolfo Silva ◽  
Tatiana Maris Ferraresi ◽  
João Antônio Mendonça ◽  
Gesimária Ribeiro Costa Coelho ◽  
...  
Keyword(s):  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Abiotic Stresses ◽  
Phaseolus Vulgaris L ◽  
Physiological Characterization

scholarly journals QTL analyses for tolerance to abiotic stresses in a common bean (Phaseolus vulgaris L.) population

PLoS ONE ◽  
2018 ◽  
Vol 13 (8) ◽  
pp. e0202342 ◽  
Author(s):  
Lucy Milena Diaz ◽  
Jaumer Ricaurte ◽  
Eduardo Tovar ◽  
Cesar Cajiao ◽  
Henry Terán ◽  
...  
Keyword(s):  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Abiotic Stresses ◽  
Phaseolus Vulgaris L

scholarly journals Heat shock transcription factor (Hsf) gene family in common bean (Phaseolus vulgaris): genome-wide identification, phylogeny, evolutionary expansion and expression analyses at the sprout stage under abiotic stress

2022 ◽  
Vol 22 (1) ◽  
Author(s):  
Qi Zhang ◽  
Jing Geng ◽  
Yanli Du ◽  
Qiang Zhao ◽  
Wenjing Zhang ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Abiotic Stress ◽  
Heat Shock ◽  
Phaseolus Vulgaris ◽  
Common Bean ◽  
Gene Structure ◽  
Expression Patterns ◽  
Economic Value ◽  
Heavy Metal Stress ◽  
Biotic And Abiotic Stress

Abstract Background Common bean (Phaseolus vulgaris) is an essential crop with high economic value. The growth of this plant is sensitive to environmental stress. Heat shock factor (Hsf) is a family of antiretroviral transcription factors that regulate plant defense system against biotic and abiotic stress. To date, few studies have identified and bio-analyzed Hsfs in common bean. Results In this study, 30 Hsf transcription factors (PvHsf1–30) were identified from the PFAM database. The PvHsf1–30 belonged to 14 subfamilies with similar motifs, gene structure and cis-acting elements. The Hsf members in Arabidopsis, rice (Oryza sativa), maize (Zea mays) and common bean were classified into 14 subfamilies. Collinearity analysis showed that PvHsfs played a role in the regulation of responses to abiotic stress. The expression of PvHsfs varied across different tissues. Moreover, quantitative real-time PCR (qRT-PCR) revealed that most PvHsfs were differentially expressed under cold, heat, salt and heavy metal stress, indicating that PvHsfs might play different functions depending on the type of abiotic stress. Conclusions In this study, we identified 30 Hsf transcription factors and determined their location, motifs, gene structure, cis-elements, collinearity and expression patterns. It was found that PvHsfs regulates responses to abiotic stress in common bean. Thus, this study provides a basis for further analysis of the function of PvHsfs in the regulation of abiotic stress in common bean.

scholarly journals Genome-wide in silico identification, characterization and transcriptional analysis of the family of growth-regulating factors in common bean (Phaseolus vulgaris L.) subjected to polyethylene glycol-induced drought stress

2017 ◽  
Vol 69 (1) ◽  
pp. 5-14 ◽  
Author(s):  
İlker Büyük ◽  
Sümer Aras
Keyword(s):  
Drought Stress ◽  
Stress Response ◽  
Phaseolus Vulgaris ◽  
Common Bean ◽  
In Silico ◽  
Expression Patterns ◽  
Transcriptional Analysis ◽  
Genome Wide ◽  
The Common ◽  
Root Tissues

According to most recent findings, growth regulating factors (GRFs) are plant-specific transcription factors (TFs) that play important roles in many processes, including abiotic and biotic stress response mechanisms. Completion of the common bean (Phaseolus vulgaris) genome project has provided researchers with the opportunity to identify all GRF genes in this species. With this aim, a genome-wide in silico study was performed and 10 GRF proteins (called PhvGRFs) were identified in the common bean genome. Conserved and mandatory motifs (QLQ and WRC) were confirmed in all identified PhvGRFs and two segmental duplication events were determined. Most of the PhvGRFs were found to be more similar to Arabidopsis thaliana GRFs than to Zea mays GRFs in a phylogenetic tree. According to the expression analysis of 10 PhvGRFs, inversely related expression patterns were observed in the roots of Yakutiye and Zulbiye cultivars based on their capacity to adopt to drought stress. After drought treatment of the Zulbiye cultivar, a drought-sensitive common bean cultivar, PhvGRF1, PhvGRF2, PhvGRF3, PhvGRF5, PhvGRF6, PhvGRF9 and PhvGRF10 genes were upregulated 2- to 4-fold in root tissues, as compared to the untreated control. The trend of PhvGRF1, PhvGRF2, PhvGRF3, PhvGRF5, PhvGRF6, PhvGRF7, PhvGRF9 and PhvGRF10 genes showed a consistent decline of 2- to 6-fold in root tissues of the drought-tolerant Yakutiye cultivar subjected to 24 h of drought stress. We demonstrated that the expression patterns of the identified PhvGRFs correlated with the drought-stress response in a cultivar-specific manner in the common bean. We suggest that members of the GRF family can also be used for genetic engineering applications in the common bean.

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