2024年2月25日 星期日
芫荽基因组中NBS-LRR家族基因的鉴定及系统演化分析
Identification and phylogenetic analysis on NBS-LRR family genes in genome of Coriandrum sativum
2021年 第30卷 第6期 页码[1-9]    下载全文[17.8MB]  
摘要

基于芫荽(Coriandrum sativum Linn.)基因组测序结果,利用BLAST和HMMER软件对芫荽基因组中的NBS-LRR家族基因进行鉴定,分析这些基因在芫荽染色体上的分布情况和复制类型,对芫荽、旱芹(Apium graveolens Linn.)和野胡萝卜(Daucus carota Linn.)基因组中的NBS-LRR家族基因进行系统演化分析,并对鉴定的NBS-LRR家族基因在芫荽根、茎、叶和花中的表达丰度进行比较。结果表明:在芫荽基因组中共鉴定出191个NBS-LRR家族基因,属于CNL、TNL和RNL 3个亚类,各包含122、62和7个基因。有155个NBS-LRR家族基因被定位到芫荽的11条染色体上,其中,7号染色体上的NBS-LRR家族基因最多(33),6号染色体上的NBS-LRR家族基因最少(2);这些基因可划分成98个位点,包括72个单基因位点和26个多基因位点,平均每个位点1.6个基因,其中,多基因位点分布在1号、2号、3号、4号、7号、9号和10号染色体上,共包含83个NBS-LRR家族基因,平均每个多基因位点3.2个基因。在定位到染色体上的NBS-LRR家族基因中,分散重复基因最多(91),串联重复和近端重复基因较多(分别为34和26),而片段重复基因最少(4)。系统演化分析结果表明:芫荽、旱芹和野胡萝卜基因组中的NBS-LRR家族基因按照CNL、TNL和RNL亚类聚成3个分支,并且芫荽、旱芹和野胡萝卜的多数NBS-LRR家族基因各自聚集,说明NBS-LRR家族基因在供试3个种类分化后发生了物种特异性扩张。芫荽NBS-LRR家族基因在不同器官中的表达分析结果显示:多数NBS-LRR家族基因能够在芫荽不同器官中表达,但表达丰度很低。综上所述,芫荽基因组中的NBS-LRR家族基因较少,在染色体间分布不均匀,并且绝大多数NBS-LRR家族基因在器官中的表达水平很低。
 

Abstract

Based on genome sequencing result of Coriandrum sativum Linn., NBS-LRR family genes in genome of C. sativum were identified by using BLAST and HMMER softwares, chromosome distribution status and replication type of these genes in C. sativum were analyzed, phylogenetic analysis was conducted for NBS-LRR family genes in genomes of C. sativum, Apium graveolens Linn., and Daucus carota Linn., and expression abundance of the identified NBS-LRR family genes in root, stem, leaf, and flower of C. sativum were compared. The results show that 191 NBS-LRR family genes are identified from genome of C. sativum, belonging to 3 subclasses of CNL, TNL, and RNL, and containing 122, 62, and 7 genes, respectively. There are 155 NBS-LRR family genes located on 11 chromosomes of C. sativum, in which, NBS-LRR family genes are the most (33) on No. 7 chromosome, but the fewest (2) on No. 6 chromosome; these genes can be divided into 98 loci, containing 72 single-gene loci and 26 multi-gene loci, with 1.6 genes per locus equally, in which, multi-gene loci distribute on No. 1, No. 2, No. 3, No. 4, No. 7, No. 9, and No. 10 chromosomes, and contain 83 NBS-LRR family genes in total, with 3.2 genes per multi-gene locus equally. Among the NBS-LRR family genes located on chromosomes, dispersed duplication genes are the most (91), tandem duplication and proximal duplication genes are relatively abundant (which are 34 and 26, respectively), while segmental duplication genes are the fewest (4). The phylogenetic analysis result shows that NBS-LRR family genes in genomes of C. sativum, A. graveolens, and D. carota are clustered into 3 branches corresponding to CNL, TNL, and RNL subclasses, and most NBS-LRR family genes of C. sativum, A. graveolens, and D. carota cluster separately, indicating that species-specific expansion of these genes occur after the differentiation of 3 test species. The expression analysis result of NBS-LRR family genes in different organs of C. sativum shows that most NBS-LRR family genes can express in different organs of C. sativum, but the expression abundance is very low. Taken together, there are few NBS-LRR family genes in genome of C. sativum, which are unevenly distributed among chromosomes, and the expression levels of most NBS-LRR family genes in organs are very low.

关键词芫荽; 植物抗病基因; NBS-LRR家族基因; 鉴定; 系统演化分析
Key wordsCoriandrum sativum Linn.; plant disease resistance gene; NBS-LRR family gene; identification; phylogenetic analysis
作者钱兰华1, 孙小芹2, 邹鑫3, 张艳梅2
所在单位1. 苏州农业职业技术学院, 江苏 苏州 215008; 2. 江苏省中国科学院植物研究所(南京中山植物园), 江苏 南京 210014;3. 苏州市种子管理站, 江苏 苏州 215011
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基金项目江苏现代农业产业技术体系建设项目(JATS[2021]118)