杏NBS基因家族鉴定及其对果实抗病性的影响  

Identification of NBS gene family and its effect on fruit disease resistance in apricot

作　　者：秦兆辉 张俊环[1,2] 杨丽 张美玲[1,2] 王玉柱 姜凤超 孙浩元[1,2] QIN Zhaohui;ZHANG Junhuan;YANG Li;ZHANG Meiling;WANG Yuzhu;JIANG Feng-chao;SUN Haoyuan(Institute of Forestry and Pomology,Beijing Academy of Agriculture and Forestry Sciences,Bejig 100093,China;Key Laboratory of Biology and Genetic Improvement of Horticultural Crops(North China),Ministry of Agriculture and Rural Afairs,Bajing 100093,China)

机构地区：[1]北京市农林科学院林业果树研究所,北京100093 [2]农业农村部华北地区园艺作物生物学与种质创制重点实验室,北京100093

出　　处：《果树学报》2022年第3期321-331,共11页Journal of Fruit Science

基　　金：国家重点研发计划项目(2019YFD1001203;2018YFD1000606-4);北京市农林科学院青年基金(QNJJ201925);北京市林业果树科学研究院基金(LGYJJ202002);国家林业和草原局杏工程技术研究中心。

摘　　要：【目的】探讨杏果实发育过程中NBS基因家族的表达规律,为果实抗病机制研究提供理论指导。【方法】运用生物信息学方法进行NBS基因家族鉴定与转录组分析。【结果】在串枝红杏基因组中共鉴定到155个NBS抗病基因,主要分为CNL型(126个)和NL型(29个),45%的基因主要分布在1号与2号染色体上,顺式作用元件较多且大多属于激素调控元件,发现1个杏特有的基序CNBS-1。NBS基因在不同品种发育过程中的基因表达模式类似,但在表达量上存在较大差异。8个NBS基因在串枝红果实发育的4个时期表达量均显著高于同时期大白杏,表明这些基因可能与串枝红果实抗病性高于大白杏有关。【结论】获得8个NBS差异表达基因,主要与抗致病疫霉病原与霜霉病原有关,为杏果实抗病育种提供理论指导。【Objective】Apricot(Prunus armeniaca L.) is one of the characteristic fruit trees. However,the apricot fruits are often infected by various pathogens, ranging from powdery mildew, anthracnose and brown-rot fungi to scab and soft-rot bacteria. NBS(Nucleotide-Binding Site, NBS) gene family including a large amount of resistance(R) genes is usually necessary for plants to recognize toxic effectors secreted by pathogens and further activate defense responses. Therefore, this study aimed to systematically investigate the NBS genes in the apricot genome and analyze their expression patterns at 4 fruit developmental stages(G1, G2, CT, FR) in 2 apricot cultivars(Chuanzhihong and Dabaixing), which would provide information on the mechanism of disease-resistant of apricot fruits.【Methods】NB-ARC hmm(hidden Markov model) profile was used as a query to search the longest transcripts of NBS coding genes(E-value <le^(-50)). Based on these sequences obtained above, multiple sequence alignment was performed using a MAFFT program(maximum iterations = 1000). Then, an apricot NBS hmm profile was built and used as a query to identify NBS candidates(E-value <le^(-50)) again. Finally, NBS candidate genes were further confirmed by NCBI Conserved Domains Database and Pfam Database, and the genes without NB-ARC and PF03210 superfamily domains were deleted. The raw data of RNA-seq were processed by fastp, hista2, feature Counts, and DESeq2 programs. All analyses were performed using default parameters.【Results】A total of 155 NBS genes were identified in the apricot reference genome, which were classed into 2 groups, including 126 CNL(coiled-coil NBS leucine-rich-repeat) and29 NL(NBS-LRR), respectively. CNL group was divided into 5 subgroups, including CNL1, CNL2,CNL3, CNL4 and CNL5. Phylogenetic tree showed that NL genes were more ancient than CNL genes.The NBS genes were mainly located in linkage groups 1(LG1) and LG2(45%). Functional annotation suggested that NBS genes were homologous with previously-studied resistance(R) prot

关 键 词：杏(Prunus armeniaca L.) NBS基因家族 抗病育种 生物信息学 

分 类 号：S662.2[农业科学—果树学]