通辽部分地区鸭源大肠杆菌耐药性检测及多重耐药菌株YA-1全基因组测序分析

doi:10.16431/j.cnki.1671-7236.2024.06.033

Abstract

Abstract: 【Objective】 As one of the most common bacterial pathogens in poultry,the increasing resistance of Escherichia coli (E.coli) has attracted wide attention.The purpose of this study was to understand the distribution of drug resistance and drug resistance genes of E.coli in some duck farms in Tongliao area,so as to provide reference for the study of drug resistance and drug resistance genes of E.coli from ducks in this area.【Method】 The pathogenic bacteria were isolated and purified from 15 intestinal samples of dead ducks in each county of Tongliao city by 16S rRNA sequencing,biochemical test and mouse pathogenicity test.The isolated strains were subjected to drug sensitivity test and PCR detection of drug resistance genes,and multi-drug resistant strains were selected for whole genome sequencing.【Result】 All 10 strains of E.coli had different degrees of drug resistance.The resistance rates to streptomycin,ciprofloxacin,ofloxacin and enrofloxacin were all above 80%,and the detection rates of drug resistance genes aphA1, strB and qnrS were 100%.The whole genome sequencing of the multi-drug resistant strain YA-1 confirmed that the chromosome size of the strain was 4 844 827 bp,carrying 3 complete plasmids,which were 144 776 bp (pTLYA-1),113 584 bp (pTLYA-2) and 77 544 bp (pTLYA-3),respectively.The isolated strains carried 70 drug resistance genes such as arr-3,aadA16 and sul1.Among them,pTLYA-1 carried 8 mobile drug resistance genes such as arr-3,dfrA27 and aadA16,pTLYA-3 carried 5 mobile drug resistance genes such as floR,tetA and sul2,and no drug resistance genes were found in pTLYA-2.【Conclusion】 E.coli isolated from some duck farms in Tongliao area had multiple drug resistance,and the resistance level was high.The resistance genes of aphA1,strB and qnrS were prevalent.

Key words: ducks; Escherichia coli; drug resistance; drug resistance genes; whole genome sequencing

CLC Number:

S852.61⁺7

WANG Zi, SUN Miao, WANG Yongqiang, MENG Linghao, GENG Chao, SHI Jinchuan, CHEN Wei, QIU Jun, LIU Kai. Detection of Drug Resistance of Escherichia coli from Ducks in Some Areas of Tongliao and Whole Genome Sequencing Analysis of Multi-drug Resistant Strain YA-1[J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(6): 2585-2596.

References

[1] LAXMINARAYAN R,SRIDHAR D,BLASER M,et al.Achieving global targets for antimicrobial resistance[J].Science,2016,353(6302):874-875.
[2] 陈霞.猪源大肠杆菌五种毒力因子单重及多重荧光定量PCR方法的建立及初步应用[D].武汉:华中农业大学,2022. CHEN X.Establishment and preliminary application of single and multiplex qPCR methods for detection of five virulence of porcine E.coli[D].Wuhan:Huazhong Agricultural University,2022.(in Chinese)
[3] PILATI G V T,CADAMURO R D,FILHO V B,et al.Bacteriophage-associated antimicrobial resistance genes in avian pathogenic Escherichia coli isolated from Brazilian poultry[J].Viruses-basel,2023,15(7):1485.
[4] ABERKANE C,MESSAÏ A,MESSAÏ C R,et al.Antimicrobial resistance pattern of avian pathogenic Escherichia coli with detection of extended-spectrum β-lactamase-producing isolates in broilers in East Algeria[J].Veterinary World,2023,16(3):449-454.
[5] 王颖.安徽部分地区APEC的分离鉴定及其致病性和耐药性分析[D].合肥:安徽农业大学,2023. WANG Y.Isolation,identification and analysis of pathogenicity and drug resistance of pathogenic Escherichia coli from poultry in some areas of Anhui province[D].Hefei:Anhui Agricultural University,2023.(in Chinese)
[6] 李翠函.不同禽源β-内酰胺类耐药沙门菌和大肠杆菌传播特征及沙门菌噬菌体与抗生素联合杀菌研究[D].哈尔滨:东北农业大学,2023. LI C H.Study on transmission characteristics of β-lactam resistant Salmonella and E.coli from different poultry sources and bactericidal combination of Salmonella phage and antibiotics[D].Harbin:Northeast Agricultural University,2023.(in Chinese)
[7] LUO S,LIAO C,PENG J,et al.Resistance and virulence gene analysis and molecular typing of Escherichia coli from duck farms in Zhanjiang,China[J].Frontiers in Cellular and Infection Microbiology,2023,13:1202013.
[8] 李宏博,陈月月,杨玉洁,等.新疆伊犁昭苏健康鸡源大肠杆菌耐药性及耐药基因分析[J].中国农业科技导报,2023,25(11):123-131. LI H B,CHEN Y Y,YANG Y J,et al.Drug resistance and genotype analysis of Escherichia coli in healthy chickens from Zhaosu,Yili,Xinjiang[J].China Agricultural Science and Technology Review,2023,25(11):123-131.(in Chinese)
[9] 刘青,雷蕾,李伟,等.圈养野生动物粪便中大肠杆菌的分离鉴定和耐药性分析[J].野生动物学报,2020,41(4):937-945. LIU Q,LEI L,LI W,et al.Isolation,identification and drug resistance analysis of Escherichia coli in feces of wild animals in captivity[J].Wildlife Journal,2020,41(4):937-945.(in Chinese)
[10] 王永强,李偲,耿超,等.通辽地区犊牛腹泻大肠杆菌耐药性检测及一株多重耐药菌全基因组测序分析[J].微生物学通报,2022,49(12):4964-4977. WANG Y Q,LI C,GENG C,et al.Drug resistance of Escherichia coli strains causing calf diarrhea in Tongliao and whole-genome sequencing of a multi-drug resistant strain[J].Microbiology Bulletin,2022,49(12):4964-4977.(in Chinese)
[11] CLSI.Performance standards for antimicrobial disk and dilution susceptibility tests for bacteria isolated from animals;Clinical Laboratory Standard Institution[S].Wayne,PA,USA,2015.
[12] 郭双.通辽地区犊牛腹泻大肠杆菌耐药性检测及一株多重耐药菌株全基因组测序分析[D].通辽:内蒙古民族大学,2022. GUO S.Detection of drug resistance of Escherichia coli in calves with diarrhea in Tongliao region and whole genome sequencing analysis of a multi-drug resistant strain[D].Tongliao:Inner Mongolia Minzu University,2022.(in Chinese)
[13] WICK R R,JUDD L M,GORRIE C L,et al.Unicycler:Resolving bacterial genome assemblies from short and long sequencing reads[J].PLoS Computational Biology,2017,13(6):e1005595.
[14] SEEMANN T.Prokka:Rapid prokaryotic genome annotation[J].Bioinformatics,2014,30(14):2068-2069.
[15] BERTELLI C,BRINKMAN F S L.Improved genomic island predictions with IslandPath-DIMOB[J].Bioinformatics,2018,34(13):2161-2167.
[16] ASHBURNER M,BALL C A,BLAKE J A,et al.Gene ontology:Tool for the unification of biology.The Gene Ontology Consortium[J]. NatureGenetics,2000,25(1):25-29.
[17] KANEHISA M,GOTO S,KAWASHIMA S,et al.The KEGG resource for deciphering the genome[J]. Nucleic Acids Research,2004,32(Database issue):D277-D280.
[18] ALCOCK B P,RAPHENYA A R,LAU T T Y,et al.CARD 2020:Antibiotic resistome surveillance with the comprehensive antibiotic resistance database[J].Nucleic Acids Research,2020,48(D1):D517-D525.
[19] AFAYIBO DJA,ZHU H,ZHANG B,et al.Isolation,molecular characterization,and antibiotic resistance of avian pathogenic Escherichia coli in Eastern China[J].Veterinary Sciences,2022,9(7):319.
[20] 崔俊岭,梁玉蕾,刘新新,等.携带bla_CTX-M禽大肠杆菌的多重耐药特征和体外致病性研究[J/OL].河南农业大学学报,2023.Doi:10.16445/j.cnki.1000-2340.20230918.001. CUI J L,LIANG Y L,LIU X X,et al.Multi-drug resistance characteristics and in vitro pathogenicity in bla_CTX-M-carrying avian Escherichia coli[J/OL].Journal of Henan Agricultural University,2023.Doi:10.16445/j.cnki.1000-2340.20230918.001.(in Chinese)
[21] 李翠函,曲志娜,高玉斌,等.三类禽源碳青霉烯类耐药大肠杆菌流行病学调查及全基因组测序分析[J].中国畜牧兽医,2023,50(4):1653-1662. LI C H,QU Z N,GAO Y B,et al.Epidemiology investigation and whole genome sequencing analysis of three types of poultry originated carbapenem-resistant Escherichia coli[J].China Animal Husbandry & Veterinary Medicine,2023,50(4):1653-1662.(in Chinese)
[22] 崔艳丽,马策,崔云昊,等.青岛地区鸭源四环素类耐药大肠杆菌流行情况调查及耐药基因分析[J].中国畜牧兽医,2023,50(11):4681-4692. CUI Y L,MA C,CUI Y H,et al.Epidemiological investigation and resistance gene analysis of tetracycline-resistant Escherichia coli from ducks in Qingdao[J]. China Animal Husbandry & Veterinary Medicine,2023,50(11):4681-4692.(in Chinese)
[23] 陈淑凌.四川地区鸭源大肠杆菌多重耐药性及可移动遗传元件多样性的调查研究[D].雅安:四川农业大学,2022. CHEN S L.Investigation on multidrug resistance and diversity of mobile genetic elements of Escherichia coli isolated from ducks in Sichuan[D].Ya’an:Sichuan Agricultural University,2022.(in Chinese)
[24] 赵以恒.多重耐药大肠杆菌噬菌体分离鉴定及鸡尾酒疗法研究[D].扬州:扬州大学,2023. ZHAO Y H.Isolation and identification bacteriophages to multiple drug resistant Escherichia coli and therapy study of cocktail[D]. Yangzhou:Yangzhou University,2023.(in Chinese)
[25] 冯曼玉,缪娟娟,杨跃飞,等.水禽源大肠杆菌耐药基因和质粒的相关性研究[J].黑龙江畜牧兽医,2023,9:80-86. FENG M Y,MIAO J J,YANG Y F,et al.Correlation study on drug resistance genes and plasmids in waterfowl-derived Escherichia coli[J].Heilongjiang Animal Science and Veterinary Medicine,2023 9:80-86.(in Chinese)
[26] 宗帅州,辛丽娜,白佳琪,等.浙江省肉鸡源耐药大肠杆菌耐药表型及耐药基因型的分析[J].中国食品学报,2023,23(9):276-284. ZONG S Z,XIN L N,BAI J Q,et al.Analysis of drug-resistant phenotypes and genotypes of drug-resistant Escherichia coli from broiler sources in Zhejiang province[J].Chinese Journal of Food Science,2023,23(9):276-284.(in Chinese)
[27] GAUBA A,RAHMAN K M.Evaluation of antibiotic resistance mechanisms in Gram-negative bacteria[J].Antibiotics-Basel,2023,12(11):1590.
[28] 陈栋,张言浩,张阳,等.3株鸭疫里氏杆菌的分离鉴定与药敏试验[J].中国畜牧兽医,2023,50(3):1250-1258. CHEN D,ZHANG Y H,ZHANG Y,et al.Isolation,identification and drug sensitivity test of 3 strains of Riemerella anatipestifer[J].China Animal Husbandry & Veterinary Medicine,2023,50(3):1250-1258.(in Chinese)
[29] ANDRADE J C,MORAIS-BRAGA M F,GUEDES G M,et al.Enhancement of the antibiotic activity of aminoglycosides by alpha-tocopherol and other cholesterol derivates[J].Biomedicine & Pharmacotherapy,2014,68(8):1065-1069.
[30] MISAWA K,TARUMOTO N,TAMURA S,et al.Single nucleotide polymorphisms in genes encoding penicillin-binding proteins in β-lactamase-negative ampicillin-resistant Haemophilus influenzae in Japan[J]. BMC Research Notes,2018,11(1):53.
[31] JIA Y,MAO W,LIU B,et al.Study on the drug resistance and pathogenicity of Escherichia coli isolated from calf diarrhea and the distribution of virulence genes and antimicrobial resistance genes[J].Frontiers in Microbiology,2022,13:992111.

Detection of Drug Resistance of Escherichia coli from Ducks in Some Areas of Tongliao and Whole Genome Sequencing Analysis of Multi-drug Resistant Strain YA-1

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Recommended Articles

Metrics

Comments

[1]	LIU Dingyu, LIU Baoling, HE Zhenwen, LUO Qin, QIAO Changhong, CHEN Xiangyu, WANG Xiaohu, XIANG Hua, WANG Gang, TAN Chen, CAI Rujian. Isolation,Identification and Pathogenicity Analysis of a Strain of Streptococcus suis Causing Meningitis in Piglets [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(5): 2143-2153.
[2]	MA Ziwei, MA Xuejun, MA Yanan, SUN Yawei, OMAR Yakup, SHAOBAI Xinyue, YANG Zuobin, WANG Xuanyi, WANG Mengjiao, ZHONG Qi, MA Xuelian, YAO Gang. Isolation,Identification and Drug Resistance Analysis of Clostridium perfringens in Calves in a Large-scale Angus Beef Cattle Farm in Kashgar,Xinjiang [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(5): 2188-2197.
[3]	DUAN Xingxun, LIU Lu, GAO Shiwen, MA Yuhui, CAI Tao, LIU Laizhen, GU Weifang, ZHAO Hongqiong. Isolation and Identification,Drug Resistance and Pathogenicity Analysis of A Rhodococcus equi Strain from Horse [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(5): 2210-2218.
[4]	WANG Yingping, ZHAO Jingxian, SHANG Jiafu, HAO Chengsen, ZUO Yuqi, ZHU Huanyi, FENG Xudong, XU Tingting, NI Xingwei, LIU Xia, YANG Xiaowei, CAO Lanyun, ZHANG Liwu, TAN Changfan, CAO Lijing, ZHAO Guangwei. Isolation,Identification and Whole Genome Analysis of Aeromonas caviae from Micropterus salmoides [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(4): 1706-1716.
[5]	MU Zhengrong, CHENG Qingqing, ZHANG Dongjie, ZHAI Shanshan, LI Zhuxin, TAO Junyu, LENG Jing. Isolation,Identification and Biological Characteristics of Carbapenem-resistant Pseudomonas aeruginosa from Tupaia belangeri [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(4): 1717-1728.
[6]	WANG Yu, SHI Song, JIN Panhao, LI Jinxin, ZHANG Mingxi, LI Tuo, LI Longping, QU Lei, DONG Shuwei. Isolation,Identification and Detection of Resistance and Virulence Genes of Pathogenic Bacteria Causing Mastitis in Some Areas of Yulin [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(4): 1746-1756.
[7]	LIU Chunhong, LYU Zhihang, ZHANG Yuqian, LIAN Chunyang, ZHENG Xucan, YAN Changyan, ZHANG Xuelian. Isolation and Identification of Chicken-derived Salmonella Senftenberg and Detection of Drug Resistance and Virulence Genes [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(4): 1773-1783.
[8]	ZHANG Haiyang, WANG Shuang, CHEN Wei, ZHENG Chuntian, JIANG Meihong, ZHU Yuanzhao. Study on Energy,Protein and Amino Acid Utilization of Corn DDGS by Cherry Valley Male Ducks [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(3): 999-1006.
[9]	ZHANG Yan, CAO Mengtao, LU Yuewei, JIANG Hongxia, WANG Ling, LI Bin. Co-transmission Characteristics of bla_CTX-M-65 and mcr-1 Genes in Escherichia coli Isolated from Diarrhea Piglets in Guangdong Province [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(3): 1286-1297.
[10]	HUANG Zibei, LUO Jianya, ZHAO Yiheng, LI Meng, SU Siyuan, ZHAO Zhenhua, LIU Wenbo. Isolation,Identification and Drug Resistance Analysis of Clostridium perfringens from Broiler Chickens [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(3): 1298-1307.
[11]	ZHAN Tongtong, WANG Pingfeng, ZHENG Xiaomei, WEN Qiqi, YE Gang, DENG Linhua, YOU Yuyan, HE Ming, WANG Qian, LI Caiwu, LING Shanshan. Research Progress on Klebsiella pneumoniae from Giant Pandas [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(2): 770-778.
[12]	LI Yafei, LIANG Xiaoyun, WU Liqin, XIAO Tianan, WANG Fuhua, ZENG Zhenling. Drug Resistance and Prevalence of Escherichia coli Isolated from Livestock and Poultry in Areas of Guangdong [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(2): 837-849.
[13]	WANG Dongjing, WU Jincuomu, ZENG Jiangyong. Isolation, Identification and Biological Characteristics Analysis of Clostridium perfringens Type A from Yaks [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(1): 229-241.
[14]	ZHANG Lei, CHEN Liang, JIN Zhenhua, FENG Wanyu, MIAO Yan, LAN Shijie, QIN Pingwei, SHEN Sisi, LI Dan, ZHANG Bei, DONG Jiaqiang, HUANG Xuankai, LI Xuye, JIANG Botao, WANG Hongbao, SHI Tongrui. Isolation, Identification and Pathogenic Characteristics of One Pasteurella multocida Isolate from Sheep [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(1): 347-356.
[15]	SONG Xiangbin, ZHAO Xiaoyu, LI Chuanpu, MEN Xiaodong, LIANG Meng, WEI Xiuli, LI Youzhi, YANG Zhikun, ZHANG Dechen, GUO Yuqiu, TANG Wenli. Molecular Epidemiological Analysis of Avian Extended Spectrum β-lactamases Producing Escherichia coli in Shandong Province [J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(1): 407-416.