Genome-wide analysis of the Universal stress protein A gene family in Vitis and expression in response to abiotic stress

Cui, Xiaoyue; Zhang, Pingying; Hu, Yafan; Chen, Chengcheng; Liu, Qiying; Guan, Pingyin; Zhang, Jianxia

doi:10.1016/j.plaphy.2021.04.033

Cited by 13 publications

(14 citation statements)

References 58 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The Subcellular localization of these genes was predominant in cytoplasm, chloroplast, and mitochondria some in the nucleus and a few in peroxisomes. This also shows their role in certain cellular pathways and their functioning in response to stressed [51] . The role of these genes in redox reactions is proven in many studies [52] .…”

Section: Discussionmentioning

confidence: 82%

In-Silico Identification and Characterization of Universal Stress Protein (USP) Gene Family in Triticum aestivum

Imran

Aslam

Gul

et al. 2022

Preprint

View full text Add to dashboard Cite

Climate has changed drastically over the last decade. It is crucial to understand the needs of the plants and their adaptive mechanism that help them survive during adverse environmental conditions. Abiotic stressors mainly salt concentration, osmotic stress, heat stress, drought, flooding, etc. affect plants significantly. In this research work, we identified and characterized wheat's Universal Stress Protein (USP) gene family. In-silico approaches such as identification, gene ontologies, chromosomal mapping, circos, and synteny analysis were used to analyze the reported sequences. The study revealed that the domain architecture plays the most significant role in this family's multi-functional features, which is present in all plants. Moreover, the syntenic relationship revealed the conservancy among the monocot genomes. The role of USP in host cells was explored through studies/tools such as subcellular localization and gene ontologies The presence of several regulatory elements also gave insight into stress-specific modulation and regulation. Furthermore, protein modeling of the TaUSP genes revealed the presence of binding pockets with functionally important amino acids This work led us to report a total of 107 protein sequences on the ABD genome grouped into 34 TaUSP genes. Further instigations such as expression profiling might help verify these genes' stress-specific transcriptional modulation. Hence, this work would be quite useful in developing economically stress-resilient varieties.

show abstract

Section: Discussionmentioning

confidence: 82%

In-Silico Identification and Characterization of Universal Stress Protein (USP) Gene Family in Triticum aestivum

Imran

Aslam

Gul

et al. 2022

Preprint

View full text Add to dashboard Cite

show abstract

“…Among the large number of StUSP gene members, we prioritized the StUSP gene that responds to adversity. A genome-wide analysis of the USP gene family was carried out in many species, and a single plant genome usually contains 20-50 members [45], including 44 members in Arabidopsis [29], 85 in wheat [27], 42 in tomato [46], 21 in grape (Vitis vinifera) [23], 32 in Dan-Shen Root (Salvia miltiorrhiza) [47], etc.…”

Section: Discussionmentioning

confidence: 99%

“…Only the uspA domain is present in the E. coli USP structure, and uspA is involved in the reaction to hormones like salicylic acid, methyl jasmine, and abscisic acid [22]. However, the USPs of plants are functionally diversified to a large extent through additional auxiliary domains, allowing them to have many different functions [23]. Multiple USP genes have been studied in Arabidopsis thaliana [24], Oryza sativa L. [25], Solanum lycopersicum [26], Gossypium herbaceum L. [27], and other model plants.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Expression Profiling of Potato (Solanum tuberosum L.) Universal Stress Proteins Reveal Essential Roles in Mechanical Damage and Deoxynivalenol Stress

Qi,

He,

Zhang

et al. 2024

IJMS

View full text Add to dashboard Cite

Universal stress proteins (USPs) play an important regulatory role in responses to abiotic stress. Most of the research related to USPs so far has been conducted on plant models such as Arabidopsis (Arabidopsis thaliana), rice (Oryza sativa L.), and cotton (Gossypium hirsutum L.). The potato (Solanum tuberosum L.) is one of the four major food crops in the world. The potato is susceptible to mechanical damage and infection by pathogenic fungi during transport and storage. Deoxynivalenol (DON) released by Fusarium can seriously degrade the quality of potatoes. As a result, it is of great significance to study the expression pattern of the potato StUSP gene family under abiotic stress conditions. In this study, a total of 108 USP genes were identified from the genome of the Atlantic potato, divided into four subgroups. Based on their genetic structure, the physical and chemical properties of their proteins and other aspects of their biological characteristics are comprehensively analyzed. Collinear analysis showed that the homologous genes of StUSPs and four other representative species (Solanum lycopersicum, Arabidopsis, Oryza sativa L., and Nicotiana attenuata) were highly conserved. The cis-regulatory elements of the StUSPs promoter are involved in plant hormones, environmental stress, mechanical damage, and light response. RNA-seq analysis showed that there are differences in the expression patterns of members of each subgroup under different abiotic stresses. A Weighted Gene Coexpression Network Analysis (WGCNA) of the central gene showed that the differential coexpression gene is mainly involved in the plant–pathogen response process, plant hormone signal transduction, and the biosynthesis process of secondary metabolites. Through qRT-PCR analysis, it was confirmed that StUSP13, StUSP14, StUSP15, and StUSP41 may be important candidate genes involved in the response to adversity stress in potatoes. The results of this study provide a basis for further research on the functional analysis of StUSPs in the response of potatoes to adversity stress.

show abstract

“…They showed a positive response to the induction of F. oxysporum infection. According to follow-up experiments and expression patterns of USPs in other plants and microbial species [ 27 , 58 , 59 ], USPs can be used as key resistance genes for functional research to effectively promote the improvement of genetic traits and breeding of resistant varieties. In addition, results of gene enrichment analysis showed that PtrUSPs mainly functioned in two biological processes: response to stress and response to stimulus.…”

Section: Discussionmentioning

confidence: 99%

Comprehensive Analysis of Universal Stress Protein Family Genes and Their Expression in Fusarium oxysporum Response of Populus davidiana × P. alba var. pyramidalis Louche Based on the Transcriptome

Diao

Jiang

et al. 2023

IJMS

View full text Add to dashboard Cite

Universal stress proteins (USPs) are typical stress-inducible proteins that function directly in a variety of biotic or abiotic stresses and effectively protect plants from complex, adverse environments. However, the expression patterns of USP genes under pathogen stress and their molecular mechanisms in stress resistance have not been reported in detail. In this study, 46 USP genes were identified from Populus trichocarpa (PtrUSPs), and their biological characteristics were comprehensively analyzed based on phylogeny, physicochemical properties of proteins, and gene structures. The promoter regions of PtrUSPs contain a variety of cis-acting elements related to hormone and stress response. The results of a collinearity analysis showed that PtsrUSPs were highly conserved with homologous genes from four other representative species (Arabidopsis thaliana, Eucalyptus grandis, Glycine max, and Solanum lycopersicum). Furthermore, RNA-Seq analysis showed that the expression of 46 USPs from P. davidiana × P. alba var. pyramidalis Louche (PdpapUSPs) was significantly induced by Fusarium oxysporum. The co-expression network and gene ontology analysis of PtrUSPs showed that they participated in the response to stress and response to stimulus through precise coordination. The results of this paper systematically revealed the biological characteristics of PtrUSPs and the characteristics of their response to F. oxysporum stress, which will lay a theoretical foundation for improving genetic traits and the breeding of poplar disease-resistant varieties in subsequent studies.

show abstract

Genome-wide analysis of the Universal stress protein A gene family in Vitis and expression in response to abiotic stress

Cited by 13 publications

References 58 publications

In-Silico Identification and Characterization of Universal Stress Protein (USP) Gene Family in Triticum aestivum

In-Silico Identification and Characterization of Universal Stress Protein (USP) Gene Family in Triticum aestivum

Genome-Wide Identification and Expression Profiling of Potato (Solanum tuberosum L.) Universal Stress Proteins Reveal Essential Roles in Mechanical Damage and Deoxynivalenol Stress

Comprehensive Analysis of Universal Stress Protein Family Genes and Their Expression in Fusarium oxysporum Response of Populus davidiana × P. alba var. pyramidalis Louche Based on the Transcriptome

Contact Info

Product

Resources

About