Antimicrobial resistance and genomic characterization of Salmonella enterica isolates from chicken meat

被引:17
作者
Alzahrani, Khaloud O. [1 ]
AL-Reshoodi, Fahad M. [2 ]
Alshdokhi, Elaf A. [1 ]
Alhamed, Ashwaq S. [1 ]
Al Hadlaq, Meshari A. [1 ]
Mujallad, Mohammed I. [1 ]
Mukhtar, Lenah E. [2 ]
Alsufyani, Amani T. [2 ]
Alajlan, Abdullah A. [3 ]
Al Rashidy, Malfi S. [3 ]
Al Dawsari, Mashan J. [3 ]
Al-Akeel, Saleh I. [3 ]
AL-Harthi, Meshari H. [4 ]
Al Manee, Abdulaziz M. [5 ,6 ]
Alghoribi, Majed F. [7 ,8 ]
Alajel, Suliman M. [9 ]
机构
[1] Saudi Food & Drug Author SFDA, Execut Dept Reference Labs, Reference Lab Microbiol, Res & Labs Sect,Mol Biol Div, Riyadh, Saudi Arabia
[2] Saudi Food & Drug Author SFDA, Antimicrobial Resistance Div, Reference Lab Microbiol, Res & Labs Sect,Execut Dept Reference Labs, Riyadh, Saudi Arabia
[3] Saudi Food & Drug Author SFDA, Microbial Identificat Div, Reference Lab Microbiol, Res & Labs Sect,Execut Dept Reference Labs, Riyadh, Saudi Arabia
[4] Saudi Food & Drug Author SFDA, Labs Execut Dept, Microbiol Sect, Food Lab, Riyadh, Saudi Arabia
[5] Saudi Food & Drug Author SFDA, Risk Assessment Dept, Execut Dept Monitoring & Risk Assessment, Microbial Hazards Div, Riyadh, Saudi Arabia
[6] King Abdulaziz Univ, Fac Sci, Biol Dept, Jeddah, Saudi Arabia
[7] King Abdullah Int Med Res Ctr KAIMRC, Infect Dis Res Dept, Riyadh, Saudi Arabia
[8] King Saud Bin Abdulaziz Univ Hlth Sci KSAU, Coll Sci & Hlth Profess, Dept Basic Sci, Riyadh, Saudi Arabia
[9] Saudi Food & Drug Author SFDA, Execut Dept Reference Labs, Reference Lab Microbiol, Res & Labs Sect, Riyadh, Saudi Arabia
关键词
Salmonella; whole genome sequencing; molecular epidemiology; molecular typing; virulence factors; antimicrobial resistant genes (ARG); phylogenetic analysis; ANTIBIOTIC-RESISTANCE; ESCHERICHIA-COLI; FOOD ANIMALS; GENES; INFECTIONS; PATHOGENICITY; PLASMIDS; POULTRY; EPIDEMIOLOGY; PATHOGENESIS;
D O I
10.3389/fmicb.2023.1104164
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
This study investigated genotypic and phenotypic antimicrobial resistance profiles, phylogenic relatedness, plasmid and virulence composition of 39 Salmonella enterica strains isolated from chicken meat samples using whole genome sequencing (WGS) technology. Four distinct serotypes were identified; Salmonella Minnesota (16/39, 41%), Salmonella Infantis (13/39, 33.3%), Salmonella Enteritidis (9/39, 23.1%), and one isolate was detected for Salmonella Kentucky (1/39, 2.6%), with sequence types (STs) as followed: ST548, ST32, ST11, and ST198, respectively. Phenotypic resistance to tetracycline (91.2%), ampicillin (82.4%), sulfisoxazole (64.7%), and nalidixic acid (61.6%) was the most observed. Resistome analysis revealed the presence of resistance genes to aminoglycosides, beta-lactamase, sulfonamides, trimethoprim, phenicol, lincosamide, macrolides, and tetracyclines. Plasmidome showed the presence of eight incompatibility groups, including IncA/C2, IncFIB(K)_1_Kpn3, Col440I_1, IncR, IncX1, IncI1_1_Alpha, IncFIB(S)/IncFII(S), IncHI2/IncHI2A, IncX2 and ColpVC plasmids across the 39 genomes. Three resistance genes, sul2, tetA and bla(CMY-2,) were predicted to be located on IncA/C2 plasmid in S. Minnesota isolates, whereas all S. Infantis isolates were positive to IncFIB(K)_1_Kpn3 plasmid that carries bla(CTX-M-65) gene. Eleven Salmonella pathogenicity islands and up to 131 stress and/or virulence genes were identified in the evaluated genomes. Phylogenetic analysis showed four phylogroups that were consistent with the identified ST profiles with a high level of inter-diversity between isolates. This is the first genomic characterization of Salmonella isolates from retail chicken meat in Saudi Arabia using WGS technology. The availability of Salmonella genomes from multiple geographic locations, including Saudi Arabia, would be highly beneficial in future source-tracking, especially during epidemiological surveillance and outbreak investigations.
引用
收藏
页数:12
相关论文
共 79 条
[1]   Enteric Infections Circulating during Hajj Seasons, 2011-2013 [J].
Abd El Ghany, Moataz ;
Alsomali, Mona ;
Almasri, Malak ;
Regalado, Eriko Padron ;
Naeem, Raeece ;
Tukestani, AbdulHafeez ;
Asiri, Abdullah ;
Hill-Cawthorne, Grant A. ;
Pain, Arnab ;
Memish, Ziad A. .
EMERGING INFECTIOUS DISEASES, 2017, 23 (10) :1640-1649
[2]   The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update [J].
Afgan, Enis ;
Baker, Dannon ;
Batut, Berenice ;
van den Beek, Marius ;
Bouvier, Dave ;
Cech, Martin ;
Chilton, John ;
Clements, Dave ;
Coraor, Nate ;
Gruening, Bjoern A. ;
Guerler, Aysam ;
Hillman-Jackson, Jennifer ;
Hiltemann, Saskia ;
Jalili, Vahid ;
Rasche, Helena ;
Soranzo, Nicola ;
Goecks, Jeremy ;
Taylor, James ;
Nekrutenko, Anton ;
Blankenberg, Daniel .
NUCLEIC ACIDS RESEARCH, 2018, 46 (W1) :W537-W544
[3]   Representative Salmonella serovars isolated from poultry and poultry environments in Saudi Arabia [J].
Al-Nakhli, HM ;
Al-Ogaily, ZH ;
Nassar, TJ .
REVUE SCIENTIFIQUE ET TECHNIQUE DE L OFFICE INTERNATIONAL DES EPIZOOTIES, 1999, 18 (03) :700-709
[4]  
Albreiki Hassan Mohammed, 2004, Saudi J Gastroenterol, V10, P140
[5]   Dynamics of Salmonella enterica and antimicrobial resistance in the Brazilian poultry industry and global impacts on public health [J].
Alikhan, Nabil-Fareed ;
Moreno, Luisa Zanolli ;
Castellanos, Luis Ricardo ;
Chattaway, Marie Anne ;
McLauchlin, Jim ;
Lodge, Martin ;
O'Grady, Justin ;
Zamudio, Roxana ;
Doughty, Emma ;
Petrovska, Liljana ;
Cunha, Marcos Paulo Vieira ;
Knobl, Terezinha ;
Moreno, Andrea Micke ;
Mather, Alison E. .
PLOS GENETICS, 2022, 18 (06)
[6]   A genomic overview of the population structure of Salmonella [J].
Alikhan, Nabil-Fareed ;
Zhou, Zhemin ;
Sergeant, Martin J. ;
Achtman, Mark .
PLOS GENETICS, 2018, 14 (04)
[7]  
Alsayeqh Abdullah F., 2020, Alexandria Journal of Veterinary Sciences, V67, P30, DOI 10.5455/ajvs.136155
[8]  
Archana P, 2014, Wulfenia J, V21, P1
[9]   A unique megaplasmid contributes to stress tolerance and pathogenicity of an emergent Salmonella enterica serovar Infantis strain [J].
Aviv, Gili ;
Tsyba, Katherine ;
Steck, Natalie ;
Salmon-Divon, Mali ;
Cornelius, Antje ;
Rahav, Galia ;
Grassl, Guntram A. ;
Gal-Mor, Ohad .
ENVIRONMENTAL MICROBIOLOGY, 2014, 16 (04) :977-994
[10]  
Badahdah SA, 2018, Int J Food Sci Nutr Eng, V8, P127, DOI DOI 10.5923/J.FOOD.20180805.03