基于全基因组序列的核桃细菌性黑斑病菌分泌蛋白的预测及特征分析

祝友朋; 刘宏莉; 韩长志

doi:10.3969/j.issn.1000-2006.201807003

祝友朋,刘宏莉,韩长志

南京林业大学学报（自然科学版） ›› 2019, Vol. 43 ›› Issue (03) : 17-22.

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南京林业大学学报（自然科学版） ›› 2019, Vol. 43 ›› Issue (03) : 17-22. DOI: 10.3969/j.issn.1000-2006.201807003

研究论文

基于全基因组序列的核桃细菌性黑斑病菌分泌蛋白的预测及特征分析

祝友朋¹,刘宏莉¹,韩长志^1,2*

作者信息 +

Prediction of secretory protein in walnut bacterial black spot pathogen

ZHU Youpeng¹, LIU Hongli¹, HAN Changzhi^1,2*

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文章历史 +

摘要

【目的】充分了解核桃黑斑病菌的侵染机制。【方法】以全基因组序列已经公布的7个核桃细菌性黑斑病菌菌株CFBP2528、CFBP7179、CFBP8253、DW3F3、J303、NCPPB1447、Xaj417等所具有的蛋白序列为预测数据,基于分泌蛋白所具有的主要特征,利用SignalP v4.1、ProtCompB v9.0、TMHMM v2.0、big-PI Fungal predictor、TargetP v1.1、LipoP v1.0等在线分析程序对分泌蛋白进行预测,同时分析其氨基酸组成及分布、信号肽长度、信号肽切割位点等特征。【结果】核桃细菌性黑斑病菌的分泌蛋白平均为74个,其氨基酸长度多集中于101～400氨基酸,所占比例为63.65%。信号肽氨基酸残基中以A最多,所占比例为22.04%; 其次是L,所占比例为19.27%。信号肽长度以19～29个氨基酸的最多,所占比例为79.62%,信号肽切割位点属于A-X-A类型。【结论】核桃细菌性黑斑病菌中分泌蛋白的有效预测,可为深入解析核桃细菌性黑斑病菌中分泌蛋白在侵染过程中所发挥的功能提供理论依据。

Abstract

【Objective】 Fully understand the infection mechanism of black spot pathogen of walnut. 【Method】 The genome sequence of seven bacterial pathogens causing black spot of walnut, CFBP2528, CFBP7179, CFBP8253, DW3F3, J303, NCPPB1447 and Xaj417, whose complete genome sequence is known, were analyzed. Secretory proteins were predicted in the genome sequence based on the features of secretory protein using the online prediction programs such as SignalP v4.1, ProtCompB v9.0, TMHMM v2.0, big-PI Fungal predictor, TargetP v1.1, and LipoP v1.0. Additionally, the amino acid composition and distribution, signal peptide length, and signal peptide cleavage site of the secretory proteins were analyzed. 【Result】 The average number of secretory proteins predicted in the pathogens causing bacterial black spot of walnut was 74. The length of secretory proteins was mostly in the range of 101-400 amino acid residues, which accounted for about 63.65% of the total predicted secretory proteins. The abundant amino acid residue in the signal peptide was alanine, which accounted for 22.04%, followed by leucine, which accounted for 19.27% of the total amino acid residues. The length of signal peptide was mostly in the range of 19-29 amino acids residues, which accounted for 79.62% of the total predicted signal peptides. The signal peptide cleavage site belonged to the A-X-A type. 【Conclusion】The prediction of secreted proteins in the bacterial black spot pathogen of walnut is effe-ctively realized, which provides a theoretical foundation for further analysis of the secretory protein functions in the pathogens causing bacterial black spot of walnut during the process of infection.

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祝友朋,刘宏莉,韩长志. 基于全基因组序列的核桃细菌性黑斑病菌分泌蛋白的预测及特征分析[J]. 南京林业大学学报（自然科学版）. 2019, 43(03): 17-22 https://doi.org/10.3969/j.issn.1000-2006.201807003

ZHU Youpeng, LIU Hongli, HAN Changzhi. Prediction of secretory protein in walnut bacterial black spot pathogen[J]. JOURNAL OF NANJING FORESTRY UNIVERSITY. 2019, 43(03): 17-22 https://doi.org/10.3969/j.issn.1000-2006.201807003

中图分类号： S763 Q816

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基金

收稿日期:2018-07-02 修回日期:2019-02-11
基金项目:国家留学基金资助项目(留金法[2017]5086号,201708535056); 国家自然科学基金项目(31560211); 云南省森林灾害预警与控制重点实验室开放基金项目(ZK150004); 云南省高等学校大学生创新创业训练计划项目(S2017106770131)。
第一作者:祝友朋(3420204485@qq.com)。*通信作者:韩长志(hanchangzhi2010@163.com),副教授,ORCID(0000-0002-8622-6232)。