The importance of using whole genome sequencing and extended spectrum beta-lactamase selective media when monitoring antimicrobial resistance.
The importance of using whole genome sequencing and extended spectrum beta-lactamase selective media when monitoring antimicrobial resistance.
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在监测抗菌素耐药性时，使用全基因组测序和扩展谱β -内酰胺酶选择性培养基的重要性。
DOI：
10.1038/s41598-020-76877-7
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发表时间：
2020-11-16
影响因子：
4.6
通讯作者：
Anjum MF
中科院分区：
文献类型：
--
作者：
Duggett N;AbuOun M;Randall L;Horton R;Lemma F;Rogers J;Crook D;Teale C;Anjum MF
为了解决抗菌素耐药性（AMR）问题，欧洲采用表型方法实施了监测方案，但也有实施全基因组测序（WGS）的计划。我们使用从2013年至2017年进行的猪监测中收集的大肠杆菌测试了WGS的益处。对498 E.产ESBL和AmpC酶的大肠杆菌，从猪盲肠中回收，在麦康凯+头孢噻肟（McC + CTX）琼脂上，如欧盟委员会推荐的，或在ESBL琼脂上，英国额外使用。我们的研究结果表明，WGS对于监测特定ESBL基因的趋势以及大量AMR基因型非常有用，有助于建立它们的患病率和与某些质粒的共联系。McC + CTX培养基对多药耐药（MDR）菌株的回收率低于ESBL培养基。分布最广的ESBL基因属于blaCTX-M家族。blaCTX-M-1在所有年份中占主导地位，并且在两种高度稳定的IncI 1 MDR质粒中常见，所述质粒携带（blaCTX-M-1，sul 2，tetA）或（blaCTX-M-1，aadA 5，sul 2，dfrA 17），在遗传学上不相似的分离株中，表明质粒传播。因此，WGS提供了大量关于AMR基因型的流行率和表型数据中缺少的质粒持久性的数据，并且还证明了培养基对于检测ESBL E的重要性。杆菌
To tackle the problem of antimicrobial resistance (AMR) surveillance programmes are in place within Europe applying phenotypic methods, but there are plans for implementing whole genome sequencing (WGS). We tested the benefits of WGS using Escherichia coli collected from pig surveillance performed between 2013 to 2017. WGS was performed on 498 E. coli producing ESBL and AmpC enzymes, recovered from pig caeca on MacConkey + cefotaxime (McC + CTX) agar, as recommended by the European Commission, or ESBL agar, used additionally by United Kingdom. Our results indicated WGS was extremely useful for monitoring trends for specific ESBL genes, as well as a plethora of AMR genotypes, helping to establish their prevalence and co-linkage to certain plasmids. Recovery of isolates with multi-drug resistance (MDR) genotypes was lower from McC + CTX than ESBL agar. The most widespread ESBL genes belonged to the blaCTX-M family. blaCTX-M-1 dominated all years, and was common in two highly stable IncI1 MDR plasmids harbouring (blaCTX-M-1,sul2, tetA) or (blaCTX-M-1, aadA5, sul2, dfrA17), in isolates which were phylogenetically dissimilar, suggesting plasmid transmission. Therefore, WGS provided a wealth of data on prevalence of AMR genotypes and plasmid persistence absent from phenotypic data and, also, demonstrated the importance of culture media for detecting ESBL E. coli.
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影响因子：
4.6
作者：
Gomes, Claudia;Ruiz-Roldan, Lidia;Ruiz, Joaquim
通讯作者：
Ruiz, Joaquim
影响因子：
5.2
作者：
Anjum, Muna F.;Duggett, Nicholas A.;Teale, Christopher
通讯作者：
Teale, Christopher
影响因子：
5.2
作者：
Fischer, Jennie;Rodriguez, Irene;Guerra, Beatriz
通讯作者：
Guerra, Beatriz
影响因子：
7.5
作者：
KNOTHE, H;SHAH, P;MITSUHASHI, S
通讯作者：
MITSUHASHI, S
影响因子：
5.2
作者：
Duggett, Nicholas A.;Randall, Luke P.;Anjum, Muna F.
通讯作者：
Anjum, Muna F.