冷鲜鸡肉中莓实假单胞菌NMC25的全基因组测序及分析

doi:10.7506/spkx1002-6630-20200526-305

食品科学 ›› 2021, Vol. 42 ›› Issue (16): 233-238.doi: 10.7506/spkx1002-6630-20200526-305

冷鲜鸡肉中莓实假单胞菌NMC25的全基因组测序及分析

王光宇，邱伟芬，徐幸莲，周光宏

（1.南京财经大学食品科学与工程学院，江苏南京 210023；2.南京农业大学食品科技学院，江苏南京 210095）

发布日期:2021-08-27
基金资助:
国家自然科学基金青年科学基金项目（31901759）；现代农业（肉鸡）产业技术体系建设专项（CARS-41）

Whole Genome Sequencing and Analysis of Pseudomonas fragi NMC25 from Chilled Chicken

WANG Guangyu, QIU Weifen, XU Xinglian, ZHOU Guanghong

(1. College of Food Science and Engineering, Nanjing University of Finance and Economics, Nanjing 210023, China; 2. College of Food Science and Technology, Nanjing Agricultural University, Nanjing 210095, China)

Published:2021-08-27

摘要/Abstract

摘要： 通过PacBio RS II测序平台，对在腐败冷鲜鸡肉中分离到的1 株莓实假单胞菌（Pseudomonas fragi NMC25）进行基因组完成图测序，并对测序数据进行组装、基因预测和功能注释。同时与已公布全基因组序列的铜绿假单胞菌PAO1（P. aeruginosa PAO1）、恶臭假单胞菌KT2440（P. putida KT2440）和荧光假单胞菌F113（P. fluorescens F113）及另外2 株莓实假单胞菌分离株（P121和NRRLB-727）进行初步比较基因组分析。结果显示NMC25菌株基因组大小为5.152?13?Mb，GC含量为59.21%，包含1?个染色体和3?个质粒。通过对COG、GO、KEGG和CAZy数据库的比对分析发现基因组中包含大量致腐相关基因。比较基因组结果表明莓实假单胞菌NMC25与其他3 种假单胞菌的共线性序列比例较小，而同种之间与P. fragi P121的共线性比例也不足70%，说明不同环境来源的莓实假单胞菌分离株基因组存在较大差异。本研究结果从基因水平上证明了莓实假单胞菌NMC25确实有较强的致腐潜力，有助于深入了解莓实假单胞菌的代谢特征，为今后阐明其对冷鲜鸡肉的致腐机制提供理论支撑。

关键词: 冷鲜鸡肉；腐败；莓实假单胞菌；全基因组测序

Abstract: In the present study, the whole genome sequencing of Pseudomonas fragi NMC25, a strain isolated from spoiled chilled chicken, was carried out using the PacBio RS II platform. The sequencing data were subsequently assembled, predicted, and annotated. Meanwhile, a preliminary comparative genomic analysis was conducted with the published genomes of P. aeruginosa PAO1, P. putida KT2440, P. fluorescens F113, and two other P. fragi isolates (P121 and NRRLB-727). The results showed that the genome size of P. fragi NMC25 was 5.152 13 Mb with GC content of 59.21%, and the genome contained one chromosome and three plasmids. A large number of spoilage-related genes were annotated in the genome by comparison with the COG, GO, KEGG, and CAZy databases. A low level of genome synteny between P. fragi NMC25 and three other Pseudomonas spp. was found in the comparative genomic analysis. Moreover, the synteny between NMC25 and P121 was less than 70%, indicating that the genomes of P. fragi isolated from different sources were quite different from each other. The genetic data demonstrated that P. fragi NMC25 had strong spoilage potential. These findings are helpful for in-depth understanding the metabolic characteristics of P. fragi and provide theoretical support for elucidating the mechanism of chilled chicken spoilage caused by P. fragi.

Key words: chilled chicken; spoilage; Pseudomonas fragi; whole genome sequencing

中图分类号:

TS251.1

王光宇，邱伟芬，徐幸莲，周光宏. 冷鲜鸡肉中莓实假单胞菌NMC25的全基因组测序及分析[J]. 食品科学, 2021, 42(16): 233-238.

WANG Guangyu, QIU Weifen, XU Xinglian, ZHOU Guanghong. Whole Genome Sequencing and Analysis of Pseudomonas fragi NMC25 from Chilled Chicken[J]. FOOD SCIENCE, 2021, 42(16): 233-238.

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冷鲜鸡肉中莓实假单胞菌NMC25的全基因组测序及分析

Whole Genome Sequencing and Analysis of Pseudomonas fragi NMC25 from Chilled Chicken

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