Bioinformatics analysis and function prediction of NBS-LRR gene family in Broussonetia papyrifera

doi:10.1007/s10529-022-03318-y

	Bioinformatics analysis and function prediction of NBS-LRR gene family in Broussonetia papyrifera
	Zhang, Xiaokang 1; Wang, Fengfeng ; Yang, Nianhui ; Chen, Naizhi ; Hu, Yanmin ; Peng, Xianjun ; Shen, Shihua
	2023
发表期刊	BIOTECHNOLOGY LETTERS
ISSN	0141-5492
卷号	45 期号:1 页码:13-31
摘要	Most of the currently available disease resistance (R) genes have NBS (nucleotide-binding site) and LRR (leucine-rich-repeat) domain which belongs to the NBS-LRR gene family. The whole genome sequencing of Broussonetia papyrifera provides an important bioinformatics database for the study of the NBS-LRR gene family. In this study, 328 NBS-LRR family genes were identified and classified in B. papyrifera according to different classification schemes, where there are 92 N types, 47 CN type, 54 CNL type, 29 NL types, 55 TN type, and 51 TNL type. Subsequently, we conducted bioinformatics analysis of the NBS-LRR gene family. Classification, motif analysis of protein sequences, and phylogenetic tree studies of the NBS-LRR genes in B. papyrifera provide important basis for the functional study of NBS-LRR family genes. Additionally, we performed structural analysis of the chromosomal location, physicochemical properties, and sequences identified by genetic characterization. In addition, through the analysis of GO enrichment, it was found that NBS-LRR genes were involved in defense responses and were significantly enriched in biological stimulation, immune response, and abiotic stress. In addition, we found that Bp06g0955 was the most sensitive to low temperature and encoded the RPM1 protein by analyzing the low temperature transcriptome data of B. papyrifera. Quantitative results of gene expression after 48 h of Fusarium infection showed that Bp01g3293 increased 14 times after infection, which encodes RPM1 protein. The potential of NBS-LRR gene responsive to biotic and abiotic stresses can be exploited to improve the resistance of B. papyrifera.
关键词	Broussonetia papyrifera NBS-LRR genes Cis-acting elements Abiotic stress DEGs
学科领域	Biotechnology & Applied Microbiology
DOI	10.1007/s10529-022-03318-y
收录类别	SCI
语种	英语
WOS关键词	GENOME-WIDE IDENTIFICATION ; RICH REPEAT CLASS ; NUCLEOTIDE-BINDING ; RESISTANCE GENES ; PROTEIN ; ARABIDOPSIS ; EVOLUTION ; BLAST ; RECOGNITION ; GENERATION
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000881721800001
出版者	SPRINGER
文献子类	Review
出版地	DORDRECHT
EISSN	1573-6776
资助机构	National Key Research and Development Program of China [2021YFD1000100] ; Beijing Natural Science Foundation [6202026, 32070358]
作者邮箱	zhangxiaokang@ibcas.ac.cn ; wangfenfen@ibcas.ac.cn ; ynhrdfz@163.com ; chennaizhi@ibcas.ac.cn ; huyanmin@ibcas.ac.cn ; pengxianjun@ibcas.ac.cn ; shshen@ibcas.ac.cn
引用统计	被引频次：1[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/29075
专题	中科院北方资源植物重点实验室
作者单位	1.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Xiaokang,Wang, Fengfeng,Yang, Nianhui,et al. Bioinformatics analysis and function prediction of NBS-LRR gene family in Broussonetia papyrifera[J]. BIOTECHNOLOGY LETTERS,2023,45(1):13-31.
APA	Zhang, Xiaokang.,Wang, Fengfeng.,Yang, Nianhui.,Chen, Naizhi.,Hu, Yanmin.,...&Shen, Shihua.(2023).Bioinformatics analysis and function prediction of NBS-LRR gene family in Broussonetia papyrifera.BIOTECHNOLOGY LETTERS,45(1),13-31.
MLA	Zhang, Xiaokang,et al."Bioinformatics analysis and function prediction of NBS-LRR gene family in Broussonetia papyrifera".BIOTECHNOLOGY LETTERS 45.1(2023):13-31.

条目包含的文件
文件名称/大小	文献类型	版本类型	开放类型	使用许可
Zhang-2023-Bioinform（9577KB）	期刊论文	出版稿	开放获取	CC BY-NC-SA	浏览请求全文