National Institute for Biotechnology and Genetic Engineering, College of Pakistan Institute of Engineering and Applied Sciences (PIEAS), Faisalabad, 38000, Pakistan.
School of Food and Agricultural Sciences (SFAS), University of Management and Technology (UMT), Lahore, 54000, Pakistan.
Sci Rep. 2024 May 24;14(1):11930. doi: 10.1038/s41598-024-62876-5.
Nucleotide-binding site (NBS) domain genes are one of the superfamily of resistance genes involved in plant responses to pathogens. The current study identified 12,820 NBS-domain-containing genes across 34 species covering from mosses to monocots and dicots. These identified genes are classified into 168 classes with several novel domain architecture patterns encompassing significant diversity among plant species. Several classical (NBS, NBS-LRR, TIR-NBS, TIR-NBS-LRR, etc.) and species-specific structural patterns (TIR-NBS-TIR-Cupin_1-Cupin_1, TIR-NBS-Prenyltransf, Sugar_tr-NBS etc.) were discovered. We observed 603 orthogroups (OGs) with some core (most common orthogroups; OG, OG, OG etc.) and unique (highly specific to species; OG, OG etc.) OGs with tandem duplications. The expression profiling presented the putative upregulation of OG, OG and OG in different tissues under various biotic and abiotic stresses in susceptible and tolerant plants to cotton leaf curl disease (CLCuD). The genetic variation between susceptible (Coker 312) and tolerant (Mac7) Gossypium hirsutum accessions identified several unique variants in NBS genes of Mac7 (6583 variants) and Coker312 (5173 variants). The protein-ligand and proteins-protein interaction showed a strong interaction of some putative NBS proteins with ADP/ATP and different core proteins of the cotton leaf curl disease virus. The silencing of GaNBS (OG) in resistant cotton through virus-induced gene silencing (VIGS) demonstrated its putative role in virus tittering. The presented study will be further helpful in understanding the plant adaptation mechanism.
核苷酸结合位点（NBS）结构域基因是参与植物对病原体反应的抗性基因超家族之一。本研究在涵盖苔藓、单子叶和双子叶植物的 34 个物种中鉴定了 12820 个含有 NBS 结构域的基因。这些鉴定出的基因被分为 168 类，具有几种新颖的结构域架构模式，在植物物种中包含显著的多样性。发现了几个经典的（NBS、NBS-LRR、TIR-NBS、TIR-NBS-LRR 等）和种特异性结构模式（TIR-NBS-TIR-Cupin_1-Cupin_1、TIR-NBS-Prenyltransf、Sugar_tr-NBS 等）。我们观察到 603 个直系同源群（OG），其中一些核心（最常见的直系同源群；OG、OG、OG 等）和独特（高度特定于物种；OG、OG 等）OG 具有串联重复。表达谱显示，在感病和耐病棉花叶卷曲病（CLCuD）植物的不同组织中，在各种生物和非生物胁迫下，OG、OG 和 OG 可能被上调。在感病（Coker 312）和耐病（Mac7）陆地棉品系之间的遗传变异中，在 Mac7（6583 个变体）和 Coker312（5173 个变体）的 NBS 基因中鉴定出几个独特的变体。蛋白配体和蛋白-蛋白相互作用显示，一些假定的 NBS 蛋白与 ADP/ATP 和棉花卷曲病病毒的不同核心蛋白之间存在强烈的相互作用。通过病毒诱导的基因沉默（VIGS）在抗病棉中沉默 GaNBS（OG），证明其在病毒滴度中的假定作用。本研究将进一步有助于理解植物适应机制。
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