A comparative genomics study of NBS-LRR genes in Chenopodium quinoa

Journal Information

J. Hefei Univ. Tech. (Nat. Sci.), Dec.2025, Vol.48 No.12: 1638-1645

DOI: 10.3969/j.issn.1003-5060.2025.12.009

Authors

LIU Yang $ ^{1} $, JIANG Liling $ ^{2} $, SUN Kerong $ ^{1} $, CHEN Siyu $ ^{1} $, YANG Yuruo $ ^{1} $, HUANG Shengxiong $ ^{1} $

(1. School of Food and Biological Engineering, Hefei University of Technology, Hefei 230601, China; 2. Academy of Agriculture and Forestry Sciences, Qinghai University, Xining 810016, China)

Abstract and Keywords

Abstract: In this study, based on the systematic bioinformatics methods, gene identification, phylogenetic tree construction, evolution power elucidation, demonstration of expression profiles in different organs and under multiple abiotic stresses, and encoded protein-protein interaction network construction of NBS-LRR genes in Chenopodium quinoa were performed. Totally, 304 NBS-LRR genes were identified, with 67 genes related to tandem duplication. In the phylogenetic tree, NBS-LRR genes in C. quinoa could be clustered into ten groups. The tandem duplication and whole genome duplication were proved as important powers of the expansion of NBS-LRR genes in C. quinoa. The RNA-seq data demonstrated that 44 NBS-LRR genes showed tissue-specific expression profiles in stem, leaf and inflorescence, respectively. Additionally, under drought, heat, salt and low Pi stresses, the expression levels of abundant NBS-LRR genes were significantly induced or repressed. The protein-protein interaction network demonstrated that AUR62035654 and AUR62029339 were key regulators of stress response in C. quinoa. The results can provide good NBS-LRR gene candidates and solid data reference for further functional studies of NBS-LRR genes and genetic breeding of C. quinoa.

Keywords: Chenopodium quinoa; NBS-LRR gene; comparative genomics; transcriptome; protein-protein interaction network

作者信息

刘洋 $ ^{1} $，蒋礼玲 $ ^{2} $，孙珂嵘 $ ^{1} $，陈思宇 $ ^{1} $，杨宇若 $ ^{1} $，黄胜雄 $ ^{1} $

(1. 合肥工业大学食品与生物工程学院，安徽合肥 230601；2. 青海大学农林科学院，青海西宁 810016)

摘要和关键词

摘要: 文章利用生物信息方法对藜麦 NBS-LRR 基因进行全基因组范围的挖掘、系统进化树的构建、进化动力的解析、不同器官和非生物逆境胁迫下的表达模式阐述和编码蛋白互作网络的构建。在藜麦基因组中共鉴定出 304 个 NBS-LRR 基因，其中 67 个 NBS-LRR 基因涉及串联倍增；系统进化树将藜麦 NBS-LRR 基因聚成 10 个大组，串联倍增与全基因组倍增事件被证明是藜麦 NBS-LRR 基因家族成员扩张的重要动力。转录组数据表明：44 个 NBS-LRR 基因在藜麦花簇、叶片和茎中呈现出组织特异性的表达模式；在干旱、高温、低磷、盐胁迫下，大量 NBS-LRR 基因的表达水平显著升高或被抑制。构建的蛋白互作网络显示，AUR62035654 和 AUR62029339 是藜麦抗逆反应中重要的调控因子。文章研究结果可为藜麦 NBS-LRR 基因的深入研究以及藜麦育种提供优良的 NBS-LRR 候选基因和可靠的数据参考。

关键词: 藜麦；NBS-LRR基因；比较基因组学；转录组；蛋白互作网络

Funding

农业农村部农业资源环境保护资助项目（125A0605）

合肥工业大学学报(自然科学版)

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