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泰国地区地理分布和药敏相关性分析伯氏考克斯体的精细进化谱系。

Analysis of fine-scale phylogeny of Burkholderia pseudomallei in relation to regional geography and drug susceptibility in Thailand.

机构信息

Department of Microbiology, Faculty of Medicine, Khon Kaen University, Khon Kaen, Thailand.

Research and Diagnostic Center for Emerging Infectious Diseases (RCEID), Khon Kaen University, Khon Kaen, Thailand.

出版信息

Sci Rep. 2024 Aug 28;14(1):19961. doi: 10.1038/s41598-024-70558-5.

DOI:10.1038/s41598-024-70558-5
PMID:39198570
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11358268/
Abstract

Melioidosis caused by Burkholderia pseudomallei (Bp) is a public health threat. Genomic-epidemiology research on this deadly disease is scarce. We investigated whole-genome sequences of Bp isolates in relation to environmental source and drug susceptibility. In total, 563 Bp isolates were collected from 11 Northeast Thai provinces during the period 2004-2021. Patients (n = 530 isolates), infected animals (n = 8), and environmental sources (n = 25) provided samples. Phylogenetic analysis revealed genetic diversity among the Bp isolates, including numerous well-supported clusters of varying sizes. Through in-depth analysis of 38 monophyletic clades (MCs), we found eleven associated with province of origin (p-value < 0.001). Closely related clusters (CRCs) within MCs resembled MLST-identified "sequence types" (STs). We found 102 known and 52 novel STs. ST-70 was the most prevalent in this area (n = 78; 13.85%). Sample type (human/environmental) and sampling time intervals were not correlated with genetic distance among clonal Bp isolates. Some members of 12 CRCs had acquired resistance to co-trimoxazole and one against amoxicillin-clavulanic acid. Within Northeast Thailand, there is an association between Bp genotype and geographical origin.

摘要

类鼻疽伯克霍尔德菌（Bp）引起的类鼻疽病是一种公共卫生威胁。对这种致命疾病的基因组流行病学研究很少。我们调查了与环境来源和药物敏感性相关的 Bp 分离株的全基因组序列。总共从 2004 年至 2021 年期间泰国东北部的 11 个省份收集了 563 株 Bp 分离株。患者（n=530 株分离株）、受感染的动物（n=8）和环境来源（n=25）提供了样本。系统发育分析显示 Bp 分离株存在遗传多样性，包括许多大小不同的得到充分支持的聚类。通过对 38 个单系聚类（MC）进行深入分析，我们发现其中 11 个与来源省份有关（p 值<0.001）。MC 内的密切相关聚类（CRC）类似于 MLST 确定的“序列类型”（ST）。我们发现了 102 个已知和 52 个新的 ST。在该地区，ST-70 最为普遍（n=78；13.85%）。样本类型（人类/环境）和采样时间间隔与克隆 Bp 分离株之间的遗传距离无关。12 个 CRC 中的一些成员获得了对复方磺胺甲噁唑的耐药性，一个对阿莫西林-克拉维酸耐药。在泰国东北部，Bp 基因型与地理来源之间存在关联。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/6c58cca5640f/41598_2024_70558_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/91de41f37c1a/41598_2024_70558_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/96cf0674ae18/41598_2024_70558_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/337e85cc2146/41598_2024_70558_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/b2ddb95fc4f1/41598_2024_70558_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/6c58cca5640f/41598_2024_70558_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/91de41f37c1a/41598_2024_70558_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/96cf0674ae18/41598_2024_70558_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/337e85cc2146/41598_2024_70558_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/b2ddb95fc4f1/41598_2024_70558_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8599/11358268/6c58cca5640f/41598_2024_70558_Fig5_HTML.jpg

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