鸡Wnt基因家族生物信息学分析及表达

doi:10.16431/j.cnki.1671-7236.2023.01.002

摘要/Abstract

摘要： 【目的】试验旨在对鸡Wnt基因家族进行全面系统地调查分析，并进一步明确鸡感染新城疫病毒（Newcastle disease virus，NDV）后Wnt基因家族成员的表达模式。【方法】基于鸡基因组测序结果，通过查询Pfam和UniPort数据库获取鸡Wnt基因家族全基因组序列，构建系统进化树，分析Wnt蛋白理化性质、亚细胞蛋白定位、染色体分布、保守结构域等，并进一步研究鸡感染NDV后Wnt基因家族成员的表达模式。【结果】试验共鉴定到39个鸡Wnt基因家族成员。系统进化树分析发现，鸡与人和鼠的Wnt成员相似性较高，均有12个亚家族，即Wnt1、Wnt2（Wnt2a和Wnt2b）、Wnt3a、Wnt4、Wnt5（Wnt5a和Wnt5b）、Wnt6、Wnt7（Wnt7a和Wnt7b）、Wnt8（Wnt8a和Wnt8b）、Wnt9（Wnt9a和Wnt9b）、Wnt10a、Wnt11及Wnt16成员，但鸡缺少Wnt10b。鸡Wnt成员分布于11条染色体上，分别为Chr1、Chr2、Chr4、Chr6、Chr7、Chr12、Chr13、Chr21、Chr26、Chr27和Chr34，成员间出现14次串联重复，且无节段重复出现。39个鸡Wnt成员中共识别出10个保守基序，其3'-端较为保守，除rna-XM_040653060.2（Wnt6）和rna-XM_040650634.2（Wnt5a）外，其余成员3'-端均由基序2和5组成；39个鸡Wnt家族成员均含保守区域，即基序1和3。转录组数据分析结果表明，鸡在感染NDV过程中Wnt7a表达量显著上调。【结论】鸡Wnt基因家族成员在染色体上呈现非均匀分布，其基因结构较为保守，且串联重复是Wnt基因家族成员的主要扩增方式。Wnt7a可能与Wnt调节巨噬细胞参与微生物感染过程密切相关。

关键词: 鸡; Wnt基因家族; 生物信息学; 表达

Abstract: 【Objective】 This study was aimed to conduct a comprehensive and systematic investigation and analysis of Wnt gene family in chickens, and further clarify the expression patterns of Wnt gene family members in chickens during Newcastle disease virus (NDV) infection.【Method】 Based on chicken genome sequencing results, the whole genome sequence of Wnt gene family in chickens was obtained by querying the Pfam and UniPort databases, the phylogenetic tree was constructed, and its physicochemical properties, subcellular protein localization, chromosome distribution, conservative domain, and so on.The expression pattern of Wnt gene family members in chickens infected with NDV was analyzed.【Result】 Thirty-nine Wnt gene family members were identified.The phylogenetic tree analysis showed that there was a high similarity of Wnt members among chicken, human and mouse, there were 12 subfamilies, namely Wnt1, Wnt2(Wnt2a and Wnt2b), Wnt3a, Wnt4, Wnt5(Wnt5a and Wnt5b), Wnt6, Wnt7(Wnt7a and Wnt7b), Wnt8(Wnt8a and Wnt8b), Wnt9(Wnt9a and Wnt9b), Wnt10a, Wnt11 and Wnt16. However, the chicken lacked Wnt10b.Wnt members in chickens distributed on 11 chromosomes (Chr1, Chr2, Chr4, Chr6, Chr7, Chr12, Chr13, Chr21, Chr26, Chr27 and CHR34, respectively).There were 14 tandem repeats among the members, and no segment repeat occurred.There was 10 conservative motifs in 39 Wnt members of chickens, the 3'-end of Wnt gene family members were relatively conservative, except for rna-XM_040653060.2(Wnt6) and rna-XM_040650634.2(Wnt5a), the 3'-end of the other Wnt members were composed of motifs 2 and 5.In addition, 39 Wnt family members of chickens all contained conservative regions, namely motifs 1 and 3. Analysis of transcriptome data revealed that the expression of Wnt7a was significantly up-regulated during NDV infection.【Conclusion】 The Wnt gene family members in chickens presented non-uniform distribution on the chromosome, and the gene structure was relatively conservative.Tandem repeat was the primary amplification mode of Wnt gene family members.Wnt7a might be closely related to Wnt regulating macrophages to participate in microbial infection.

Key words: chickens; Wnt gene family; bioinformatics; expression

中图分类号:

S831

李欣燃, 张青艳, 查玮薇, 朱淼. 鸡Wnt基因家族生物信息学分析及表达[J]. 中国畜牧兽医, 2023, 50(1): 15-25.

LI Xinran, ZHANG Qingyan, ZHA Weiwei, ZHU Miao. Bioinformatics Analysis and Expression of Wnt Gene Family in Chickens[J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(1): 15-25.

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