雷蒙德氏棉扩展蛋白基因家族的鉴定和特征分析
发布时间：2019-05-10 13:32
【摘要】：扩展蛋白具有松驰细胞壁和增加细胞壁柔韧性的功能。为了弄清该基因家族在雷蒙德氏棉中的特征,利用隐马尔科夫模型(HMM)在雷蒙德氏棉基因组中进行扩展蛋白家族基因成员的鉴定,获得了39个扩展蛋白基因家族成员,分布在12条染色体上。系统发育分析将其归入EXPA、EXPB、EXLA和EXLB共4个亚家族,分别含有26,4,3,6个基因。各亚家族中扩展蛋白基因具有相对多样化的基因结构;扩展蛋白基因家族在进化中经历了3次扩张;染色体片段重复是该基因家族扩张的主要方式;扩张后纯化选择占主导地位。比较棉纤维发育不同时期及叶片、花瓣的深度测序和基因芯片表达谱,发现大部分扩展蛋白基因参与了雷蒙德氏棉纤维、叶片和花瓣的生长发育,在不同的时空范围均表现出表达多样性。Gr EXLA1、Gr EXLA2和Gr EXPA16在花瓣中优势表达,Gr EXPA23和Gr EXPA24在叶片中表达水平较高,推测这些基因的表达分别参与了花瓣和叶片的发育进程;其余的基因,在纤维的不同发育阶段,表现出不同的表达丰度。研究结果有助于了解棉属扩展蛋白基因家族的特征及功能,为深入剖析棉纤维发育过程中的分子调控机理提供了基础。
[Abstract]:The extended protein has the function of loosening the cell wall and increasing the flexibility of the cell wall. In order to understand the characteristics of the gene family in Raymond's cotton, 39 members of the extended protein gene family were obtained by using the Hidden Markov Model (HMM) to identify the members of the extended protein gene family in the Ramund cotton genome. Distributed on 12 chromosomes. Phylogenetic analysis classified it into four subfamilies of EXPA,EXPB,EXLA and EXLB, containing 26, 4, 3 and 6 genes, respectively. The extended protein gene has a relatively diverse gene structure in each subfamily, and the extended protein gene family has experienced three expansions in evolution, and chromosome fragment repetition is the main way to expand the gene family. Purification selection was dominant after expansion. Comparing the depth sequencing and gene chip expression profiles of cotton fiber development, leaf and petal, it was found that most of the extended protein genes were involved in the growth and development of Ramund's cotton fiber, leaf and petal. The expression of Gr EXLA1,Gr EXLA2 and Gr EXPA16 was dominant in petals, and Gr EXPA23 and Gr EXPA24 were highly expressed in leaves, suggesting that the expression of these genes was involved in the development of petals and leaves, respectively. The other genes showed different expression abundance at different developmental stages of the fiber. The results are helpful to understand the characteristics and functions of cotton extended protein gene family, and provide a basis for further analysis of molecular regulation mechanism during cotton fiber development.
【作者单位】： 西北农林科技大学农学院;西北农林科技大学生命科学学院;
【基金】：现代农业产业技术体系建设专项资金(CARS-18-45) 转基因生物新品种培育科技重大专项(2014ZX08005-002)
【分类号】：S562
[Abstract]:The extended protein has the function of loosening the cell wall and increasing the flexibility of the cell wall. In order to understand the characteristics of the gene family in Raymond's cotton, 39 members of the extended protein gene family were obtained by using the Hidden Markov Model (HMM) to identify the members of the extended protein gene family in the Ramund cotton genome. Distributed on 12 chromosomes. Phylogenetic analysis classified it into four subfamilies of EXPA,EXPB,EXLA and EXLB, containing 26, 4, 3 and 6 genes, respectively. The extended protein gene has a relatively diverse gene structure in each subfamily, and the extended protein gene family has experienced three expansions in evolution, and chromosome fragment repetition is the main way to expand the gene family. Purification selection was dominant after expansion. Comparing the depth sequencing and gene chip expression profiles of cotton fiber development, leaf and petal, it was found that most of the extended protein genes were involved in the growth and development of Ramund's cotton fiber, leaf and petal. The expression of Gr EXLA1,Gr EXLA2 and Gr EXPA16 was dominant in petals, and Gr EXPA23 and Gr EXPA24 were highly expressed in leaves, suggesting that the expression of these genes was involved in the development of petals and leaves, respectively. The other genes showed different expression abundance at different developmental stages of the fiber. The results are helpful to understand the characteristics and functions of cotton extended protein gene family, and provide a basis for further analysis of molecular regulation mechanism during cotton fiber development.
【作者单位】： 西北农林科技大学农学院;西北农林科技大学生命科学学院;
【基金】：现代农业产业技术体系建设专项资金(CARS-18-45) 转基因生物新品种培育科技重大专项(2014ZX08005-002)
【分类号】：S562
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