猪产业链中鼠伤寒沙门菌及沙门菌血清型4,[5],12:i:-基因组学分析

doi:10.11843/j.issn.0366-6964.2023.03.031

畜牧兽医学报 ›› 2023, Vol. 54 ›› Issue (3): 1199-1209.doi: 10.11843/j.issn.0366-6964.2023.03.031

猪产业链中鼠伤寒沙门菌及沙门菌血清型4,[5],12:i:-基因组学分析

蒋增海^1,3, 滕霖², 贺安文¹, 刘言言¹, 乐敏², 何启盖^3*

1. 河南牧业经济学院动物医药学院, 郑州 450046;
2. 浙江大学动物科学学院动物医学系&动物预防医学研究所, 杭州 310058;
3. 华中农业大学动物医学院, 武汉 430070

收稿日期:2022-03-23 出版日期:2023-03-23 发布日期:2023-03-21
通讯作者: 乐敏,主要从事兽医微生物学相关研究,E-mail:myue@zju.edu.cn;何启盖,主要从事猪传染病防控与净化研究,E-mail:he628@mail.hzau.edu.cn
作者简介:蒋增海(1976-)，男，四川简阳人，副教授，博士，主要从事动物疾病防控研究，E-mail: 80147@hnuahe.edu.cn；滕霖(1990-)，男，福建福州人，助理研究员，博士生，主要从事病原菌基因组流行病学研究，E-mail: tenglinchn@zju.edu.cn。
基金资助:
河南省科技攻关(212102110096)；浙江省重点研发计划(2020C02032；2021C02008)；财政部和农业农村部：国家现代农业产业技术体系资助项目(CARS-35)；河南牧业经济学院博士启动基金(2022HNUAHEDF027)

Genomic Analysis of Salmonella Typhimurium Isolates and Salmonella Serotype 4, [5], 12: i:- Isolates from Pig-borne Food Chain

JIANG Zenghai^1,3, TENG Lin², HE Anwen¹, LIU Yanyan¹, YUE Min², HE Qigai^3*

1. College of Veterinary Medicine, Henan University of Animal Husbandry and Economy, Zhengzhou 450046, China;
2. Institute of Preventive Veterinary Medicine & Department of Veterinary Medicine, College of Animal Sciences, Zhejiang University, Hangzhou 310058, China;
3. College of Veterinary Medicine, Huazhong Agricultural University, Wuhan 430070, China

Received:2022-03-23 Online:2023-03-23 Published:2023-03-21

摘要/Abstract

摘要： 旨在探究鼠伤寒沙门菌及沙门菌血清型4,[5],12:i:-基因组学特征。采用Illumina NovaSeq 6000平台对91株河南省猪产业链中鼠伤寒沙门菌及沙门菌血清型4,[5],12:i:-分离菌进行全基因组测序，通过生物信息学分析，进行其血清型的预测、多位点序列的分型以及质粒类型、耐药基因和毒力基因分析。结果表明，在河南省猪产业链中沙门菌4,[5],12:i:-的流行率(1.58%, 50/3 173)已经超过鼠伤寒沙门菌的流行率(1.29%, 41/3 173)；91株沙门菌的序列型分为ST34(71.42%，65/91)和ST19(28.57%，26/91)；鼠伤寒沙门菌/ST34菌株和4,[5],12:i:- /ST34菌株都是 IncHI2A_1、IncHI2_1和Col440I_1质粒的偏好宿主；沙门菌血清型4,[5],12:i:-携带率较高的耐药基因是blaTEM-1B_1(72%)、tet(B)_2(90%)、sul2_3(66%)、blaOXA-1_1(34%)等；相比鼠伤寒沙门菌菌株，沙门菌血清型4,[5],12:i:-菌株中质粒的携带率更高，且携带更多种类的耐药基因和毒力基因。本研究首次证实，河南省猪产业链中沙门菌血清型4,[5],12:i:-的流行已经超过鼠伤寒沙门菌，在一定程度上解释了该血清型在河南省病人中主要流行的原因。

关键词: 沙门菌血清型4,[5],12:i:-, 鼠伤寒沙门菌单相变种, 猪产业链, 基因组学, 耐药基因, 毒力基因

Abstract: Whole genomes of 91 Salmonella isolates from pig-borne food chain of Henan province were sequenced by Illumina NovaSeq 6000 platform for the understanding of genomic characteristics of Salmonella typhimurium and Salmonella serotype 4,[5],12:i:-. Serotype prediction, multi-locus sequence typing, plasmid types, virulence genes and drug resistance genes were analyzed by bioinformatics. The results showed that the prevalence of Salmonella 4,[5],12:i:- (1.58%, 50/3 173) was higher than that of Salmonella typhimurium (1.29%, 41/3 173) in pig-borne food chain of Henan Province. Sequence types(STs) of 91 Salmonella isolates included ST34 (71.42%, 65/91) and ST19 (28.57%, 26/91). Typhimurium/ST34 strains and 4,[5],12:i:-/ST34 strains were the preferred hosts of some plasmids including IncHI2A _1, IncHI2 _1 and Col440I _1. Resistant genes highly carried by Salmonella serotypes 4,[5],12:i:- were blaTEM-1B_1 (72%), tet (B)_2 (90%), sul2_3 (66%), blaOXA-1_1 (34%), etc. Compared with Salmonella typhimurium isolates, Salmonella serotype 4,[5],12:i:- isolates had a higher plasmid-carrying rate, carrying a greater variety of resistance genes and virulence genes. This study confirmed for the first time that the prevalence of Salmonella serotype 4,[5],12:i:- has exceeded that of Salmonella typhimurium in pig-borne food chain of Henan Province. To a certain extent, this may explain the predominant prevalence of the Salmonella serotype among patients in the area.

Key words: Salmonella serotype 4,[5],12:i-, Salmonella typhimurium monophasic variant, pig-borne food chain, genomics, drug-resistant genes, virulence genes

中图分类号:

S852.61

蒋增海, 滕霖, 贺安文, 刘言言, 乐敏, 何启盖. 猪产业链中鼠伤寒沙门菌及沙门菌血清型4,[5],12:i:-基因组学分析[J]. 畜牧兽医学报, 2023, 54(3): 1199-1209.

JIANG Zenghai, TENG Lin, HE Anwen, LIU Yanyan, YUE Min, HE Qigai. Genomic Analysis of Salmonella Typhimurium Isolates and Salmonella Serotype 4, [5], 12: i:- Isolates from Pig-borne Food Chain[J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(3): 1199-1209.

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猪产业链中鼠伤寒沙门菌及沙门菌血清型4,[5],12:i:-基因组学分析

Genomic Analysis of Salmonella Typhimurium Isolates and Salmonella Serotype 4, [5], 12: i:- Isolates from Pig-borne Food Chain

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