Genome-wide identification of SNARE gene in plant and expression pattern of TaSNARE in wheat
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Abstract
SNARE (Soluble N - ethylmaleimide - sensitive - factor attachment protein receptor) proteins are mainly mediated eukaryotic cell membrane fusion of vesicles transportation, also play an important role in plant resistance to fungal infection. In this study, 1342 SNARE proteins were identified in 18 plants. According to the reported research, it was splited into 5 subfamilies (Qa, Qb, Qc, Qb+Qc and R) and 21 classes. The number of SYP1 small classes in Qa is the largest (227), and Qb+Qc is the smallest (67). Secondly, through the analysis of phylogenetic trees, it was shown that the most SNAREs of 18 plants were distributed in 21 classes. Further analysis of the genetic structure showed that there was a large difference of 21 classes, and the structure of the same group was similar except for individual genes. In wheat, 173 SNARE proteins were identified, except for the first homologous group (14), and the number of others homologous groups were similar. The 2000bp promoter region upstream of wheat SNARE gene was analyzed, and a large number of W-box, MYB and disease-related cis-acting elements were found. The qRT-PCR results of the SNARE gene showed that the expression patterns of the same subfamily were similar in one wheat varieties. The expression patterns of the same gene in resistant/sensitive varieties were largely different at 6h after infection. This results might indicate that early stages of the SNARE protein in pathogen infection play an important role. In this study, the identification and expression analysis of the SNARE protein provides a theoretical basis for future studies on the function of the SNARE protein and wheat resistance to powdery mildew.
Cite this as
2019. Genome-wide identification of SNARE gene in plant and expression pattern of TaSNARE in wheat. PeerJ Preprints 7:e27758v1 https://doi.org/10.7287/peerj.preprints.27758v1Author comment
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Competing Interests
The authors declare that they have no competing interests.
Author Contributions
Guanghao Wang conceived and designed the experiments, performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper.
Deyu Long performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper.
Fagang Yu performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper.
Hong Zhang conceived and designed the experiments, authored or reviewed drafts of the paper.
Chunhuan Chen contributed reagents/materials/analysis tools.
Yajuan Wang contributed reagents/materials/analysis tools, authored or reviewed drafts of the paper, approved the final draft.
Wanquan Ji contributed reagents/materials/analysis tools, authored or reviewed drafts of the paper, approved the final draft.
Data Deposition
The following information was supplied regarding data availability:
RNA-seq data in available in:
1: https://urgi.versailles.inra.fr/gb2/gbrowse/wheat_annot_3B/ accession numbers: ERP004714.
2: The National Center for Biotechnology Information’s Gene Expression Omnibus (accession number GSE60635 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE60635).
3: ArrayExpress database (www.ebi.ac.uk/arrayexpress) under accession number E-MTAB-3103, E-MTAB-2137
4: NCBI SRX283514, SRR924098, SRX257915, SRR922411, SRP045409
Funding
This work was supported by the National Key R&D Program of China (NO. 2016YFD0102004). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
