Large-scale genomic analysis of antimicrobial resistance in the zoonotic pathogen Streptococcus suis.
Large-scale genomic analysis of antimicrobial resistance in the zoonotic pathogen Streptococcus suis.
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DOI：
10.1186/s12915-021-01094-1
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发表时间：
2021-09-07
期刊：
影响因子：
5.4
通讯作者：
Weinert LA
中科院分区：
文献类型：
--
作者：
Hadjirin NF;Miller EL;Murray GGR;Yen PLK;Phuc HD;Wileman TM;Hernandez-Garcia J;Williamson SM;Parkhill J;Maskell DJ;Zhou R;Fittipaldi N;Gottschalk M;Tucker AWD;Hoa NT;Welch JJ;Weinert LA
抗生素耐药性（AMR）是全球人类健康和粮食安全面临的最严重威胁之一。在畜牧生产中使用抗菌剂可能导致AMR的出现，这可能通过人畜共患病的传播对人类产生直接影响。猪是人畜共患疾病的源头，比大多数其他牲畜接受更多的抗菌剂，因此构成特别的风险。在这里，我们使用大规模的基因组方法来检测猪链球菌中的AMR，猪链球菌是一种在大多数猪中发现的链球菌，但它也会在猪和人类中引起严重的疾病。我们获得了来自世界主要养猪区的678株分离株的16种抗生素的最低抑菌浓度（MIC）的重复测量值。对于几种药物，没有自然的分离成“耐药”和“敏感”，突出了将MIC作为一个数量性状的必要性。我们发现各国MIC存在差异，与其抗菌药物使用模式一致。即使是不用于治疗S的药物，AMR水平也很高。suis，具有许多多药耐药分离株。在与人畜共患病传播有关的地区的猪和人中发现了类似水平的耐药性。接下来，我们使用每个分离株的全基因组序列鉴定了43个候选耐药决定簇，其中22个是新的。猪。这些决定因素的存在解释了MIC的大部分变化。但也有有趣的并发症，包括上位性相互作用，已知的抗性等位基因在某些遗传背景中没有影响。β-内酰胺耐药涉及许多影响较小的核心基因组变体，以特征性顺序出现。我们提出了一个大的数据集，允许分析多种因素的AMR在S。猪。S.我们观察到的抗生素使用模式反映了猪的耐药性，但我们的结果证实了基因组数据有助于对抗AMR的潜力。在线版本包含补充材料，可通过10.1186/s12915-021-01094-1获得。
Antimicrobial resistance (AMR) is among the gravest threats to human health and food security worldwide. The use of antimicrobials in livestock production can lead to emergence of AMR, which can have direct effects on humans through spread of zoonotic disease. Pigs pose a particular risk as they are a source of zoonotic diseases and receive more antimicrobials than most other livestock. Here we use a large-scale genomic approach to characterise AMR in Streptococcus suis, a commensal found in most pigs, but which can also cause serious disease in both pigs and humans. We obtained replicated measures of Minimum Inhibitory Concentration (MIC) for 16 antibiotics, across a panel of 678 isolates, from the major pig-producing regions of the world. For several drugs, there was no natural separation into ‘resistant’ and ‘susceptible’, highlighting the need to treat MIC as a quantitative trait. We found differences in MICs between countries, consistent with their patterns of antimicrobial usage. AMR levels were high even for drugs not used to treat S. suis, with many multidrug-resistant isolates. Similar levels of resistance were found in pigs and humans from regions associated with zoonotic transmission. We next used whole genome sequences for each isolate to identify 43 candidate resistance determinants, 22 of which were novel in S. suis. The presence of these determinants explained most of the variation in MIC. But there were also interesting complications, including epistatic interactions, where known resistance alleles had no effect in some genetic backgrounds. Beta-lactam resistance involved many core genome variants of small effect, appearing in a characteristic order. We present a large dataset allowing the analysis of the multiple contributing factors to AMR in S. suis. The high levels of AMR in S. suis that we observe are reflected by antibiotic usage patterns but our results confirm the potential for genomic data to aid in the fight against AMR. The online version contains supplementary material available at 10.1186/s12915-021-01094-1.
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影响因子：
4.5
作者：
Chewapreecha C;Marttinen P;Croucher NJ;Salter SJ;Harris SR;Mather AE;Hanage WP;Goldblatt D;Nosten FH;Turner C;Turner P;Bentley SD;Parkhill J
通讯作者：
Parkhill J
DOI：
10.1007/s10096-016-2616-x
发表时间：
2016-06
期刊：
European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology
影响因子：
--
作者：
Bojarska A;Molska E;Janas K;Skoczyńska A;Stefaniuk E;Hryniewicz W;Sadowy E
通讯作者：
Sadowy E
影响因子：
5.2
作者：
Beall, Bernard;Chochua, Sopio;Pilishvili, Tamara
通讯作者：
Pilishvili, Tamara
影响因子：
4.9
作者：
Antonio Escudero, Jose;San Millan, Alvaro;Gonzalez-Zorn, Bruno
通讯作者：
Gonzalez-Zorn, Bruno
影响因子：
4.9
作者：
Farrow, KA;Lyras, D;Rood, JI
通讯作者：
Rood, JI