Genome‐wide analysis of the soybean DREB gene family: Identification, genomic organization and expression profiles in response to drought stress

2020 ◽  
Vol 139 (6) ◽  
pp. 1158-1167
Author(s):  
Yaxing Zhou ◽  
Wei Zhou ◽  
Hui Liu ◽  
Peng Liu ◽  
Zhigang Li
Keyword(s):  
Drought Stress ◽  
Gene Family ◽  
Genomic Organization ◽  
Expression Profiles ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
Dreb Gene

scholarly journals Genome-Wide Analysis of the TCP Gene Family in Switchgrass (Panicum virgatum L.)

2019 ◽  
Vol 2019 ◽  
pp. 1-13 ◽  
Author(s):  
Yuzhu Huo ◽  
Wangdan Xiong ◽  
Kunlong Su ◽  
Yu Li ◽  
Yawen Yang ◽  
...  
Keyword(s):  
Salt Stress ◽  
Plant Growth ◽  
Gene Family ◽  
Stress Responses ◽  
Panicum Virgatum ◽  
Expression Profiles ◽  
Specific Expression ◽  
Genome Wide Analysis ◽  
Genome Wide ◽  
A Genome

The plant-specific transcription factor TCPs play multiple roles in plant growth, development, and stress responses. However, a genome-wide analysis of TCP proteins and their roles in salt stress has not been declared in switchgrass (Panicum virgatum L.). In this study, 42 PvTCP genes (PvTCPs) were identified from the switchgrass genome and 38 members can be anchored to its chromosomes unevenly. Nine PvTCPs were predicted to be microRNA319 (miR319) targets. Furthermore, PvTCPs can be divided into three clades according to the phylogeny and conserved domains. Members in the same clade have the similar gene structure and motif localization. Although all PvTCPs were expressed in tested tissues, their expression profiles were different under normal condition. The specific expression may indicate their different roles in plant growth and development. In addition, approximately 20 cis-acting elements were detected in the promoters of PvTCPs, and 40% were related to stress response. Moreover, the expression profiles of PvTCPs under salt stress were also analyzed and 29 PvTCPs were regulated after NaCl treatment. Taken together, the PvTCP gene family was analyzed at a genome-wide level and their possible functions in salt stress, which lay the basis for further functional analysis of PvTCPs in switchgrass.

Genome-wide identification and expression analysis of SnRK2 gene family in mungbean (Vigna radiata) in response to drought stress

2020 ◽  
Vol 71 (5) ◽  
pp. 469
Author(s):  
Annaira Fatima ◽  
Muhammad Jadoon Khan ◽  
Hassaan Mehboob Awan ◽  
Malik Nadeem Akhtar ◽  
Nazia Bibi ◽  
...  
Keyword(s):  
Drought Stress ◽  
Gene Family ◽  
Real Time ◽  
Vigna Radiata ◽  
Crop Production ◽  
Gene Prediction ◽  
Critical Role ◽  
Evolutionary Analysis ◽  
Genome Wide Analysis ◽  
Genome Wide

Drought stress causes lower crop production globally. Plants have acquired many adaptations to overcome drought stress. Mungbean (Vigna radiata (L.) R.Wilczek) is a legume crop widely cultivated in South, East and Southeast Asia. It is grown in high-temperature areas where drought is the main cause of reduced plant growth and productivity. Plants cope with drought stress by activating different signalling mechanisms. The sucrose non-fermenting-1-related protein kinase 2 family (SnRK2s) is known to play vital roles in osmotic stress and in abscisic acid (ABA) signalling pathways by phosphorylating downstream targets. The genes encoding SnRK2s in mungbean and their detailed characterisation remain unexplored. We have conducted extensive genome-wide analysis for gene prediction, in silico gene analysis, evolutionary analysis and gene-expression profiling under drought-stress conditions by quantitative real-time PCR. Through genome-wide analysis, eight SnRK2 genes were predicted in the mungbean genome and were assigned the names VrSnRK2.1–VrSnRK2.8, according to their order on the chromosomes. The VrSnRK2 genes identified were classified into three clusters based on their phylogenetic relationship with those of Arabidopsis thaliana. Drought stress was imposed on 11-day-old mungbean plants by completely withholding water for 3 days. According to real-time qPCR data, the expression of most of the VrSnRK2 genes was induced by drought stress, indicating their role in the drought-stress response. One of the genes, namely SnRK2.6c, showed highest expression level (12-fold) under drought stress, possibly indicating a critical role under water-deficit conditions. These data provide important information about the VrSnRK2 gene family in mungbean. The results will help in future functional characterisation of VrSnRK2 genes.

Genome-wide identification, genomic organization and expression profiles of SlARR-B gene family in tomato

2020 ◽  
Vol 61 (3) ◽  
pp. 391-404
Author(s):  
Junqiang Wang ◽  
Junhui Xia ◽  
Qiushuo Song ◽  
Xiaoli Liao ◽  
Yanna Gao ◽  
...  
Keyword(s):  
Gene Family ◽  
Genomic Organization ◽  
Expression Profiles ◽  
Genome Wide

scholarly journals Genome-wide analysis of OSCA gene family members in Vigna radiata and their involvement in the osmotic response

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Lili Yin ◽  
Meiling Zhang ◽  
Ruigang Wu ◽  
Xiaoliang Chen ◽  
Fei Liu ◽  
...  
Keyword(s):  
Gene Family ◽  
Vigna Radiata ◽  
Mung Bean ◽  
Expression Profiles ◽  
Family Members ◽  
Regulatory Elements ◽  
Evolutionary Analysis ◽  
Genome Wide Analysis ◽  
Gene Pairs ◽  
Genome Wide

Abstract Background Mung bean (Vigna radiata) is a warm-season legume crop and belongs to the papilionoid subfamily of the Fabaceae family. China is the leading producer of mung bean in the world. Mung bean has significant economic and health benefits and is a promising species with broad adaptation ability and high tolerance to environmental stresses. OSCA (hyperosmolality-gated calcium-permeable channel) gene family members play an important role in the modulation of hypertonic stress, such as drought and salinity. However, genome-wide analysis of the OSCA gene family has not been conducted in mung bean. Results We identified a total of 13 OSCA genes in the mung bean genome and named them according to their homology with AtOSCAs. All the OSCAs were phylogenetically split into four clades. Phylogenetic relationship and synteny analyses showed that the VrOSCAs in mung bean and soybean shared a relatively conserved evolutionary history. In addition, three duplicated VrOSCA gene pairs were identified, and the duplicated VrOSCAs gene pairs mainly underwent purifying selection pressure during evolution. Protein domain, motif and transmembrane analyses indicated that most of the VrOSCAs shared similar structures with their homologs. The expression pattern showed that except for VrOSCA2.1, the other 12 VrOSCAs were upregulated under treatment with ABA, PEG and NaCl, among which VrOSCA1.4 showed the largest increased expression levels. The duplicated genes VrOSCA2.1/VrOSCA2.2 showed divergent expression, which might have resulted in functionalization during subsequent evolution. The expression profiles under ABA, PEG and NaCl stress revealed a functional divergence of VrOSCA genes, which agreed with the analysis of cis-acting regulatory elements in the promoter regions of VrOSCA genes. Conclusions Collectively, the study provided a systematic analysis of the VrOSCA gene family in mung bean. Our results establish an important foundation for functional and evolutionary analysis of VrOSCAs and identify genes for further investigation of their ability to confer abiotic stress tolerance in mung bean.

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