Comparative genome analysis of Pasteurella multocida strains of porcine origin.

IF 2.3 3区生物学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genome Pub Date : 2024-01-01 Epub Date: 2023-08-28 DOI:10.1139/gen-2023-0021

Awadhesh Prajapati, Revanaiah Yogisharadhya, Nihar Nalini Mohanty, Suresh Kumar Mendem, Mohammed Mudassar Chanda, Shivakumara Siddaramappa, Sathish Bhadravati Shivachandra

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引用次数: 0

Abstract

Pasteurella multocida causes acute/chronic pasteurellosis in porcine, resulting in considerable economic losses globally. The draft genomes of two Indian strains NIVEDIPm17 (serogroup D) and NIVEDIPm36 (serogroup A) were sequenced. A total of 2182-2284 coding sequences (CDSs) were predicted along with 5-6 rRNA and 45-46 tRNA genes in the genomes. Multilocus sequence analysis and LPS genotyping showed the presence of ST50: genotype 07 and ST74: genotype 06 in NIVEDIPm17 and NIVEDIPm36, respectively. Pangenome analysis of 61 strains showed the presence of 1653 core genes, 167 soft core genes, 750 shell genes, and 1820 cloud genes. Analysis of virulence-associated genes in 61 genomes indicated the presence of nanB, exbB, exbD, ptfA, ompA, ompH, fur, plpB, fimA, sodA, sodC, tonB, and omp87 in all strains. The 61 genomes contained genes encoding tetracycline (54%), streptomycin (48%), sulphonamide (28%), tigecycline (25%), chloramphenicol (21%), amikacin (7%), cephalosporin (5%), and trimethoprim (5%) resistance. Multilocus sequence type revealed that ST50 was the most common (34%), followed by ST74 (26%), ST13 (24%), ST287 (5%), ST09 (5%), ST122 (3%), and ST07 (2%). Single-nucleotide polymorphism and core genome-based phylogenetic analysis clustered the strains into three major clusters. In conclusion, we described the various virulence factors, mobile genetic elements, and antimicrobial resistance genes in the pangenome of P. multocida of porcine origin, besides the rare presence of LPS genotype 7 in serogroup D.

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猪源多杀性巴氏杆菌菌株的比较基因组分析。

多杀性巴氏杆菌导致猪急性/慢性巴氏杆菌病，在全球范围内造成相当大的经济损失。对两个印度菌株NIVEDIPm17（血清组D）和NIVEDIPm36（血清组A）的基因组草案进行了测序。基因组中总共预测了2182-2284个编码序列（CDS）以及5-6个rRNA和45-46个tRNA基因。多基因座序列分析和LPS基因分型显示，NIVEDIPm17和NIVEDIPm36中分别存在ST50:基因型07和ST74:基因型06。对61个菌株的基因组分析显示，存在1653个核心基因、167个软核心基因、750个外壳基因和1820个云基因。对61个基因组中毒力相关基因的分析表明，所有菌株中都存在nanB、exbB、exbD、ptfA、ompA、ompH、fur、plpB、fimA、sodA、sodC、tonB和omp87。61个基因组包含编码四环素（54%）、链霉素（48%）、磺酰胺（28%）、替加环素（25%）、氯霉素（21%）、阿米卡星（7%）、头孢菌素（5%）和甲氧苄啶（5%）耐药性的基因。多基因座序列型显示ST50最常见（34%），其次是ST74（26%）、ST13（24%）、ST287（5%）、ST09（5%），ST122（3%）和ST07（2%）。单核苷酸多态性和基于核心基因组的系统发育分析将菌株分为三大类。总之，除了在血清组D中罕见地存在LPS基因型7外，我们还描述了猪源多杀性巴氏杆菌泛基因组中的各种毒力因子、可移动遗传元件和抗微生物基因。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Genome 生物-生物工程与应用微生物

CiteScore

5.30

自引率

3.20%

发文量

审稿时长

6-12 weeks

期刊介绍： Genome is a monthly journal, established in 1959, that publishes original research articles, reviews, mini-reviews, current opinions, and commentaries. Areas of interest include general genetics and genomics, cytogenetics, molecular and evolutionary genetics, developmental genetics, population genetics, phylogenomics, molecular identification, as well as emerging areas such as ecological, comparative, and functional genomics.