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比较基因组分析表明,从动物分离出并与人类疾病相关的物种存在基因组异质性和基因组缩减。

comparative genome analysis demonstrates genome heterogeneity and reduction in species isolated from animals and associated with human illness.

作者信息

Buzzanca Davide, Kerkhof Pieter-Jan, Alessandria Valentina, Rantsiou Kalliopi, Houf Kurt

机构信息

Department of Veterinary and Biosciences, Faculty of Veterinary Medicine, Ghent University, Heidestraat 19, Merelbeke, Belgium.

Department of Agricultural, Forest and Food Sciences (DISAFA), University of Turin, Largo Paolo Braccini 2, 10095 Grugliasco (TO), Italy.

出版信息

Heliyon. 2023 Jun 27;9(7):e17652. doi: 10.1016/j.heliyon.2023.e17652. eCollection 2023 Jul.

Abstract

The family groups Gram-negative bacterial species previously included in the family . These species of which some are considered foodborne pathogens, have been isolated from different environmental niches and hosts. They have been isolated from various types of foods, though predominantly from food of animal origin, as well as from stool of humans with enteritis. Their different abilities to survive in different hosts and environments suggest an evolutionary pressure with consequent variation in their genome content. Moreover, their different physiological and genomic characteristics led to the recent proposal to create new genera within this family, which is however criticized due to the lack of discriminatory features and biological and clinical relevance. Aims of the present study were to assess the pangenome, and to characterize existing similarities and differences in 20 validly described species. For this, analysis has been conducted on the genomes of the corresponding type strains obtained by Illumina sequencing, applying several bioinformatic tools. Results of the present study do not support the proposed division into different genera and revealed the presence of pangenome partitions with numbers comparable to other Gram-negative bacteria genera, such as . Different gene class compositions in animal and human-associated species are present, including a higher percentage of virulence-related gene classes such as cell motility genes. The adaptation to environmental and/or host conditions of some species was identified by the presence of specific genes. Furthermore, a division into pathogenic and non-pathogenic species is suggested, which can support future research on food safety and public health.

摘要

这个菌科曾包含革兰氏阴性细菌物种。其中一些物种被认为是食源性病原体,已从不同的环境生态位和宿主中分离出来。它们已从各类食品中分离得到,不过主要来自动物性食品,以及患有肠炎的人类粪便。它们在不同宿主和环境中生存能力的差异表明存在进化压力,其基因组内容也因此发生了变化。此外,它们不同的生理和基因组特征导致最近有人提议在这个菌科内创建新的属,然而,由于缺乏鉴别特征以及生物学和临床相关性,这一提议受到了批评。本研究的目的是评估泛基因组,并描述20个有效描述物种中现有的异同。为此,对通过Illumina测序获得的相应模式菌株的基因组进行了分析,并应用了多种生物信息学工具。本研究结果不支持将其划分为不同属的提议,并揭示了存在与其他革兰氏阴性菌属(如……)数量相当的泛基因组分区。在与动物和人类相关的物种中存在不同的基因类别组成,包括较高比例的与毒力相关的基因类别,如细胞运动基因。通过特定基因的存在确定了一些物种对环境和/或宿主条件的适应性。此外,建议将其分为致病物种和非致病物种,这可为未来食品安全和公共卫生研究提供支持。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4d1f/10336517/1acbc4e5ac42/gr1.jpg

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