scholarly journals Genome-wide investigation of superoxide dismutase (SOD) gene family and their regulatory miRNAs reveal the involvement in abiotic stress and hormone response in tea plant (Camellia sinensis)

PLoS ONE ◽  
2019 ◽  
Vol 14 (10) ◽  
pp. e0223609 ◽  
Author(s):  
Chengzhe Zhou ◽  
Chen Zhu ◽  
Haifeng Fu ◽  
Xiaozhen Li ◽  
Lan Chen ◽  
...  
Keyword(s):  
Superoxide Dismutase ◽  
Abiotic Stress ◽  
Gene Family ◽  
Camellia Sinensis ◽  
Tea Plant ◽  
Hormone Response ◽  
Genome Wide ◽  
Sod Gene Family

scholarly journals Genome-Wide Analysis and Expression Profile of Superoxide Dismutase (SOD) Gene Family in Rapeseed (Brassica napus L.) under Different Hormones and Abiotic Stress Conditions

Antioxidants ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 1182
Author(s):  
Wei Su ◽  
Ali Raza ◽  
Ang Gao ◽  
Ziqi Jia ◽  
Yi Zhang ◽  
...  
Keyword(s):  
Superoxide Dismutase ◽  
Abiotic Stress ◽  
Brassica Napus ◽  
Gene Family ◽  
Expression Profiles ◽  
Protein Structures ◽  
Brassica Napus L ◽  
Genome Wide ◽  
A Genome ◽  
Sod Gene Family

Superoxide dismutase (SOD) is an important enzyme that acts as the first line of protection in the plant antioxidant defense system, involved in eliminating reactive oxygen species (ROS) under harsh environmental conditions. Nevertheless, the SOD gene family was yet to be reported in rapeseed (Brassica napus L.). Thus, a genome-wide investigation was carried out to identify the rapeseed SOD genes. The present study recognized 31 BnSOD genes in the rapeseed genome, including 14 BnCSDs, 11 BnFSDs, and six BnMSDs. Phylogenetic analysis revealed that SOD genes from rapeseed and other closely related plant species were clustered into three groups based on the binding domain with high bootstrap values. The systemic analysis exposed that BnSODs experienced segmental duplications. Gene structure and motif analysis specified that most of the BnSOD genes displayed a relatively well-maintained exon–intron and motif configuration within the same group. Moreover, we identified five hormones and four stress- and several light-responsive cis-elements in the promoters of BnSODs. Thirty putative bna-miRNAs from seven families were also predicted, targeting 13 BnSODs. Gene ontology annotation outcomes confirm the BnSODs role under different stress stimuli, cellular oxidant detoxification processes, metal ion binding activities, SOD activity, and different cellular components. Twelve BnSOD genes exhibited higher expression profiles in numerous developmental tissues, i.e., root, leaf, stem, and silique. The qRT-PCR based expression profiling showed that eight genes (BnCSD1, BnCSD3, BnCSD14, BnFSD4, BnFSD5, BnFSD6, BnMSD2, and BnMSD10) were significantly up-regulated under different hormones (ABA, GA, IAA, and KT) and abiotic stress (salinity, cold, waterlogging, and drought) treatments. The predicted 3D structures discovered comparable conserved BnSOD protein structures. In short, our findings deliver a foundation for additional functional investigations on the BnSOD genes in rapeseed breeding programs.

scholarly journals Genome-Wide Identification, Characterization, and Expression Analysis of the Grapevine Superoxide Dismutase (SOD) Family

2019 ◽  
Vol 2019 ◽  
pp. 1-13 ◽  
Author(s):  
Xiaoxuan Hu ◽  
Chenyu Hao ◽  
Zong-Ming Cheng ◽  
Yan Zhong
Keyword(s):  
Superoxide Dismutase ◽  
Gene Family ◽  
Expression Analysis ◽  
Gene Pair ◽  
Expression Patterns ◽  
Protein Motifs ◽  
Genome Wide ◽  
Copper Zinc ◽  
Essential Enzyme ◽  
Sod Gene Family

Superoxide dismutase (SOD) is an essential enzyme of the plant antioxidant system that responds to oxidative damage caused by adverse conditions. However, little is known about the SOD gene family in Vitis vinifera (Vv). In the present study, ten SOD genes, including 6 copper/zinc SODs, 2 iron SODs, and 2 manganese SODs, were identified in the grapevine genome where they were unevenly distributed on 12 chromosomes. Ten VvSOD genes were divided into three main groups based on phylogenetic analysis, subcellular localization, and the distribution of conserved protein motifs. Additionally, many cis-elements related to different stresses were found in the promoters of the 10 VvSOD genes. Syntenic analysis revealed that VvMSD1 and VvMSD2 were derived from segmental duplication, and VvCSD4 and VvCSD5 belong to a pair of tandemly duplicated genes. Gene expression analysis based on microarray data showed that the 10 VvSOD genes were expressed in all the tested tissues. Interestingly, the segmentally duplicated gene pair (VvMSD1 and VvMSD2) exhibited differential expression patterns in various organs. In contrast, the tandemly duplicated gene pair (VvCSD4 and VvCSD5) displayed similar expression patterns in the tested organs. Our results provide a basis for further functional research on the SOD gene family in grapevine.

Genome-wide identification of WOX genes and their expression patterns under different hormone and abiotic stress treatments in tea plant (Camellia sinensis)

Trees ◽  
2019 ◽  
Vol 33 (4) ◽  
pp. 1129-1142 ◽  
Author(s):  
Pengjie Wang ◽  
Yongchun Guo ◽  
Xuejin Chen ◽  
Yucheng Zheng ◽  
Yun Sun ◽  
...  
Keyword(s):  
Abiotic Stress ◽  
Camellia Sinensis ◽  
Expression Patterns ◽  
Tea Plant ◽  
Genome Wide ◽  
Wox Genes

scholarly journals Genome-Wide Identification of the Tify Gene Family and Their Expression Profiles in Response to Biotic and Abiotic Stresses in Tea Plants (Camellia sinensis)

2020 ◽  
Vol 21 (21) ◽  
pp. 8316
Author(s):  
Xin Zhang ◽  
Wei Ran ◽  
Jin Zhang ◽  
Meng Ye ◽  
Songbo Lin ◽  
...  
Keyword(s):  
Gene Family ◽  
Camellia Sinensis ◽  
Expression Profiles ◽  
Expression Patterns ◽  
Functional Characterization ◽  
Defense Responses ◽  
Tea Plant ◽  
Specific Gene ◽  
Mechanical Wounding ◽  
Genome Wide

The TIFY family is a plant-specific gene family that is involved in regulating a variety of plant processes, including developmental and defense responses. The chromosome-level genome of the tea plant (Camellia sinensis) has recently been released, but a comprehensive view of the TIFY family in C. sinensis (the CsTIFY genes) is lacking. The current study performed an extensive genome-wide identification of CsTIFY genes. The phylogenetics, chromosome location, exon/intron structure, and conserved domains of these genes were analyzed to characterize the members of the CsTIFY family. The expression profiles of the CsTIFY genes in four organs were analyzed, and they showed different spatial expression patterns. All CsJAZ genes were observed to be induced by jasmonate acid (JA) and exhibited different responses to abiotic and biotic stresses. Six of seven CsJAZ genes (CsJAZ1, CsJAZ2, CsJAZ3, CsJAZ4, CsJAZ7, and CsJAZ8) were upregulated by mechanical wounding and infestation with the tea geometrid (Ectropis obliqua), while infection with tea anthracnose (Colletotrichum camelliae) primarily upregulated the expression levels of CsJAZ1 and CsJAZ10. In addition, CsJAZs were observed to interact with CsMYC2 and AtMYC2. Therefore, the results of this study may contribute to the functional characterization of the CsTIFY genes, especially the members of the JAZ subfamily, as regulators of the JA-mediated defense response in tea plant.

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