A genomic epidemiological study shows that prevalence of antimicrobial resistance in Enterobacterales is associated with the livestock host, as well as antimicrobial usage.
A genomic epidemiological study shows that prevalence of antimicrobial resistance in Enterobacterales is associated with the livestock host, as well as antimicrobial usage.
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DOI：
10.1099/mgen.0.000630
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发表时间：
2021-10
影响因子：
3.9
通讯作者：
On Behalf Of The Rehab Consortium
中科院分区：
文献类型：
--
作者：
AbuOun M;Jones H;Stubberfield E;Gilson D;Shaw LP;Hubbard ATM;Chau KK;Sebra R;Peto TEA;Crook DW;Read DS;Gweon HS;Walker AS;Stoesser N;Smith RP;Anjum MF;On Behalf Of The Rehab Consortium
来自牲畜的肠道菌是抗菌素耐药性（AMR）通过食物链传递给人类的潜在重要宿主，从而增加AMR负担并影响我们应对感染的能力。本文研究了该目4属168个分离物 肠球菌目，主要是 从英国14个农场的牲畜（牛、猪和羊）粪便中纯化大肠杆菌。在采样前三个月内，使用长读和短读测序解析其基因组，以分析AMR基因及其遗传背景，并探索AMR负荷与农场抗菌药物使用（AMU）之间的关系。虽然 E.杆菌 分离物是基因组多样的，使用核心基因组SNP树的系统发育分析表明猪分离物通常不同于绵羊分离物，牛分离物是中间体。大约28%的分离株携带AMR基因，在猪中检测到的比例最大，其次是牛，然后是绵羊;猪分离株也携带最多的AMR基因。 虽然90%的测序分离株携带不同的质粒，但仅11%的质粒（522个中的58个）含有AMR基因，其中91%的AMR质粒来自猪，9%来自牛，没有来自绵羊分离株;这些结果表明，猪是质粒携带的AMR基因的主要储存者，可能参与其水平转移。 AMU（mg kg−1）和AMR之间存在显著相关性。随着农场使用的不同抗菌剂种类的总数和数量增加，分离株中的多药耐药性（MDR）风险上升。然而，即使当猪场的AMU相对较低时，猪分离物也增加了MDR的可能性;比其他牲畜物种具有相对更多的抗性。因此，我们的研究结果表明，AMR在牲畜中的流行不仅受到最近AMU农场的影响，而且还受到牲畜相关因素的影响，这些因素可以影响这些水库中的AMR负担及其质粒介导的传播。
Enterobacterales from livestock are potentially important reservoirs for antimicrobial resistance (AMR) to pass through the food chain to humans, thereby increasing the AMR burden and affecting our ability to tackle infections. In this study 168 isolates from four genera of the order Enterobacterales , primarily Escherichia coli , were purified from livestock (cattle, pigs and sheep) faeces from 14 farms in the United Kingdom. Their genomes were resolved using long- and short-read sequencing to analyse AMR genes and their genetic context, as well as to explore the relationship between AMR burden and on-farm antimicrobial usage (AMU), in the three months prior to sampling. Although E. coli isolates were genomically diverse, phylogenetic analysis using a core-genome SNP tree indicated pig isolates to generally be distinct from sheep isolates, with cattle isolates being intermediates. Approximately 28 % of isolates harboured AMR genes, with the greatest proportion detected in pigs, followed by cattle then sheep; pig isolates also harboured the highest number of AMR genes per isolate. Although 90 % of sequenced isolates harboured diverse plasmids, only 11 % of plasmids (n=58 out of 522) identified contained AMR genes, with 91 % of AMR plasmids being from pig, 9 % from cattle and none from sheep isolates; these results indicated that pigs were a principle reservoir of AMR genes harboured by plasmids and likely to be involved in their horizontal transfer. Significant associations were observed between AMU (mg kg−1) and AMR. As both the total and the numbers of different antimicrobial classes used on-farm increased, the risk of multi-drug resistance (MDR) in isolates rose. However, even when AMU on pig farms was comparatively low, pig isolates had increased likelihood of being MDR; harbouring relatively more resistances than those from other livestock species. Therefore, our results indicate that AMR prevalence in livestock is not only influenced by recent AMU on-farm but also livestock-related factors, which can influence the AMR burden in these reservoirs and its plasmid mediated transmission.
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影响因子：
4.6
作者：
Duggett N;AbuOun M;Randall L;Horton R;Lemma F;Rogers J;Crook D;Teale C;Anjum MF
通讯作者：
Anjum MF
开放式细菌种群基因组学：BIGSDB软件，pubmlst.org网站及其应用。
影响因子：
--
作者：
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通讯作者：
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影响因子：
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作者：
Anjum, Muna F.;Duggett, Nicholas A.;Teale, Christopher
通讯作者：
Teale, Christopher
影响因子：
5.2
作者：
Anjum, Muna F.;Choudhary, Suman;Woodward, Martin J.
通讯作者：
Woodward, Martin J.
影响因子：
3.3
作者：
Didelot, Xavier;Falush, Daniel
通讯作者：
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