烟草（本氏烟草）中NBS-LRR基因家族的全基因组鉴定与特征分析

Genome-wide identification and characterization of NBS-LRR gene family in tobacco (Nicotiana benthamiana).

作者信息

Zhu Lei, Huang Changjun, Yuan Cheng, Liu Yong, Yu Haiqin, Long Yan, Zeng Jianmin

机构信息

Yunnan Academy of Tobacco Agricultural Sciences, Kunming, 650021, China.

Research Institute of Biology and Agriculture, Zhongzhi International Institute of Agricultural Biosciences, University of Science and Technology Beijing, Beijing, 100083, China.

出版信息

Sci Rep. 2025 May 30;15(1):19015. doi: 10.1038/s41598-025-03507-5.

DOI:10.1038/s41598-025-03507-5

PMID:40447724

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12125187/

Abstract

Nicotiana benthamiana is an important model plant widely employed in plant virology, which involves the nucleotide binding site leucine-rich repeat (NBS-LRR) genes in disease resistance. In this study, firstly, 156 NBS-LRR homologs were identified by HMMsearch and they were divided into three clades in the phylogenetic tree by Clustal W, containing 5 TNL-type, 25 CNL-type, 23 NL-type, 2 TN-type, 41 CN-type, and 60 N-type proteins. Further, conserved motifs and domain composition were detected by MEME, showing 10 conserved motifs dispersed throughout the protein sequences in both typical- and irregular- type NBS-LRRs. Subcellular localization prediction by CELLO v.2.5 and Plant-mPLoc suggested 121 NBS-LRRs were located in cytoplasm, 33 in plasma membrane, and 12 in nucleus. And physicochemical characteristics by EXPASY ProtParam revealed common and unique features among the six types of NBS-LRR protein. Finally, gene structure analysis by TBtools exhibited most NBS-LRR genes were composed of either fewer or two introns. And regulatory cis-elements were assayed by PlantCARE, detecting 29 shared kinds and 4 kinds unique in irregular-type NBS-LRR genes, indicating potential upstream regulation factors. In summary, we provided important information on NBS-LRR genes and potential resources for improving disease resistance in tobacco, and will contribute to breeding programs for virus resistance.

摘要

本氏烟草是植物病毒学中广泛使用的重要模式植物，其抗病性涉及核苷酸结合位点富含亮氨酸重复序列（NBS-LRR）基因。在本研究中，首先通过HMMsearch鉴定出156个NBS-LRR同源物，并通过Clustal W将它们在系统发育树中分为三个进化枝，包含5个TNL型、25个CNL型、23个NL型、2个TN型、41个CN型和60个N型蛋白。进一步通过MEME检测保守基序和结构域组成，结果表明在典型和非典型NBS-LRRs的蛋白质序列中均分布有10个保守基序。通过CELLO v.2.5和Plant-mPLoc进行亚细胞定位预测，结果表明121个NBS-LRRs位于细胞质中，33个位于质膜中，12个位于细胞核中。通过EXPASY ProtParam分析理化特性，揭示了六种类型NBS-LRR蛋白的共同和独特特征。最后，通过TBtools进行基因结构分析，结果显示大多数NBS-LRR基因由较少的内含子或两个内含子组成。通过PlantCARE分析调控顺式元件，检测到29种共享类型和4种非典型NBS-LRR基因特有的类型，表明存在潜在的上游调控因子。总之，我们提供了有关NBS-LRR基因的重要信息以及用于提高烟草抗病性的潜在资源，并将有助于抗病毒育种计划。