人畜共患病病原体艰难梭菌的比较基因组学,以了解其多样性。

IF 2.6 4区 生物学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY 3 Biotech Pub Date : 2024-11-01 Epub Date: 2024-10-04 DOI:10.1007/s13205-024-04102-7
Kumaragurubaran Karthik, Subbaiyan Anbazhagan, Murugaiyan Latha Mala Priyadharshini, Rajeev Kumar Sharma, Seeralan Manoharan
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引用次数: 0

摘要

艰难梭菌(Clostridioides difficile)是一种人畜共患病原,可导致不同动物和人类患上肠道疾病。根据艰难梭菌基因组数据对动物体内存在的毒素基因和抗菌药耐药性基因进行的全面研究还很少。在本研究中,从狗身上共分离出 15 株艰难梭菌,并将带有毒素基因(D1、CD15 和 CD26)的分离株与另外两株非致毒菌株(CD28 和 CD32)一起用于全基因组测序和比较基因组学研究。在全基因组系统发育中发现了基于序列类型的聚类,有 4 个已知的多焦点序列分型(MLST)支系,即 I、II、IV 和 V 支系以及一个隐性支系。ST11和ST54是全球范围内第二次在狗身上发现。在研究中使用的 109 个基因组中,29 个基因组被预测具有全部四个毒素基因(toxA、toxB、cttA、cttB),而 22 个基因组没有任何毒素基因。MLST 第 V 支系的 ST11 基因组最多,有 46 个基因组被预测含有至少一个毒素基因。在本研究测序的基因组中,CD26 最多有 5 个 AMR 基因(aac(6')-aph(2″)、ant(6)-Ia、catP、erm(B)_18 和 tet(M)_11),CD15 被预测有 2 个 AMR 基因(aac(6')-aph(2″)、erm(B)_18)。四环素抗性基因在 ST11 基因组中被预测得最多。在 22 个非致毒菌株中,有 9 个基因组(ST48 = 5、ST3 = 2、ST109 = 1、ST15 = 1)至少含有一个 AMR 基因。泛基因组分析表明,Bpan 值为 0.12,表明艰难梭菌具有开放的泛基因组结构。这表明该生物可通过增加新基因而进化。本研究报告了临床上重要的 ST11 菌株和耐多药的非致毒菌株在动物中的流通情况:在线版本包含补充材料,可查阅 10.1007/s13205-024-04102-7。
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Comparative genomics of zoonotic pathogen Clostridioides difficile of animal origin to understand its diversity.

Clostridioides difficile, a zoonotic pathogen causing enteric diseases in different animals and humans. A comprehensive study on the presence of toxin genes and antimicrobial resistance genes based on genome data of C. difficile in animals is scanty. In the present study, a total of 15 C. difficile isolates were recovered from dogs and isolates with toxin genes (D1, CD15 and CD26) along with two other non-toxigenic strains (CD28, CD32) were used for whole genome sequencing and comparative genomics. Sequence type-based clustering was noted in the whole genome phylogeny with 4 known multi-locus sequence typing (MLST) clades namely I, II, IV, and V and a cryptic clade. ST11 and ST54 were reported for the 2nd time worldwide in dogs. Out of 109 genomes used in the study, 29 genomes were predicted with all four toxin genes (toxA, toxB, cdtA, cdtB) while 22 did not have any of the toxin genes. ST11 of MLST clade V had the maximum number of 46 genomes predicted with at least one toxin gene. Among the genomes sequenced in this study, CD26 had a maximum of 5 AMR genes (aac(6')-aph(2″), ant(6)-Ia, catP, erm(B)_18, and tet(M)_11) and CD15 was predicted with 2 AMR genes (aac(6')-aph(2″), erm(B)_18). Tetracycline resistance genes were predicted most in the ST11 genome. Of the 22 non-toxigenic strains, 9 genomes (ST48 = 5, ST3 = 2, ST109 = 1, ST15 = 1) were predicted with a minimum of one AMR gene. Pangenome analysis indicated that the Bpan value is 0.12 showing that C. difficile has an open pangenome structure. This indicates that the organism can evolve by the addition of new genes. This study reports the circulation of clinically important ST11 and multidrug-resistant non-toxigenic strains among animals.

Supplementary information: The online version contains supplementary material available at 10.1007/s13205-024-04102-7.

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来源期刊
3 Biotech
3 Biotech Agricultural and Biological Sciences-Agricultural and Biological Sciences (miscellaneous)
CiteScore
6.00
自引率
0.00%
发文量
314
期刊介绍: 3 Biotech publishes the results of the latest research related to the study and application of biotechnology to: - Medicine and Biomedical Sciences - Agriculture - The Environment The focus on these three technology sectors recognizes that complete Biotechnology applications often require a combination of techniques. 3 Biotech not only presents the latest developments in biotechnology but also addresses the problems and benefits of integrating a variety of techniques for a particular application. 3 Biotech will appeal to scientists and engineers in both academia and industry focused on the safe and efficient application of Biotechnology to Medicine, Agriculture and the Environment.
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