Rafique Muhammad, Potter Robert F, Ferreiro Aura, Wallace Meghan A, Rahim Abdul, Ali Malik Akbar, Siddique Naila, Abbas Muhammad Athar, D'Souza Alaric W, Burnham Carey-Ann D, Ali Naeem, Dantas Gautam
Department of Microbiology, Quaid-I-Azam University, Islamabad, Pakistan.
The Edison Family Center for Genome Sciences & Systems Biology, Washington University School of Medicine, St. Louis, MO, United States.
Front Microbiol. 2020 Jan 17;10:3052. doi: 10.3389/fmicb.2019.03052. eCollection 2019.
Poultry husbandry is important for the economic health of Pakistan, but the Pakistani poultry industry is negatively impacted by infections from . We performed Illumina whole genome sequencing on 92 isolates obtained from the livers of deceased chickens originating in five Pakistani geographical regions. Our analysis indicates that the isolates are predominantly from the B1 and A clade and harbor a diverse number of antibiotic resistance and virulence genes, with no linkage between phylogeny and antibiotic resistance gene presence but some association between phylogeny and virulence gene and SNP presence for the B1 and E phylogroups. The colistin resistance gene and the quinolone resistance gene were both found in 13/92 isolates. Alarmingly, 82/92 of the strains characterized in this study are multidrug resistant with 100% (92/92) resistance to lincomycin, 81.5% (75/92) to streptomycin, 79.3% (73/92) to ampicillin and 66.3% (61/92) to ciprofloxacin. These results provide a high-resolution analysis of poultry-associated isolates in an area with a high endemic burden of antibiotic resistance. Surveillance of antibiotic resistance in poultry associated isolates is an important pillar of the One Health concept to integrate analysis of potential pathogens in human, animal, and environmental niches.
家禽养殖对巴基斯坦的经济健康至关重要，但巴基斯坦的家禽业受到[病原体名称未给出]感染的负面影响。我们对从巴基斯坦五个地理区域死亡鸡只的肝脏中获得的92株[病原体名称未给出]分离株进行了Illumina全基因组测序。我们的分析表明，这些分离株主要来自B1和A进化枝，并且含有多种抗生素抗性和毒力基因，系统发育与抗生素抗性基因的存在之间没有关联，但B1和E系统发育组的系统发育与毒力基因和单核苷酸多态性的存在之间存在一些关联。在13/92的分离株中均发现了黏菌素抗性基因和喹诺酮抗性基因。令人担忧的是，本研究中鉴定的82/92株菌株具有多重耐药性，对林可霉素的耐药率为100%（92/92），对链霉素为81.5%（75/92），对氨苄青霉素为79.3%（73/92），对环丙沙星为66.3%（61/92）。这些结果对一个抗生素耐药性高流行负担地区的家禽相关[病原体名称未给出]分离株进行了高分辨率分析。监测家禽相关[病原体名称未给出]分离株中的抗生素耐药性是“同一健康”概念的一个重要支柱，以整合对人类、动物和环境生态位中潜在病原体的分析。
