An in silico pan-genomic probe for the molecular traits behind Lactobacillus ruminis gut autochthony

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Kant , R , Palva , A & von Ossowski , I 2017 , ' An in silico pan-genomic probe for the molecular traits behind Lactobacillus ruminis gut autochthony ' , PLoS One , vol. 12 , no. 4 , 0175541 . https://doi.org/10.1371/journal.pone.0175541

Title: An in silico pan-genomic probe for the molecular traits behind Lactobacillus ruminis gut autochthony
Author: Kant, Ravi; Palva, Airi; von Ossowski, Ingemar
Other contributor: University of Helsinki, Departments of Faculty of Veterinary Medicine
University of Helsinki, University of Helsinki
University of Helsinki, Veterinary Biosciences





Date: 2017-04-17
Language: eng
Number of pages: 26
Belongs to series: PLoS One
ISSN: 1932-6203
DOI: https://doi.org/10.1371/journal.pone.0175541
URI: http://hdl.handle.net/10138/185427
Abstract: As an ecological niche, the mammalian intestine provides the ideal habitat for a variety of bacterial microorganisms. Purportedly, some commensal genera and species offer a beneficial mix of metabolic, protective, and structural processes that help sustain the natural digestive health of the host. Among these sort of gut inhabitants is the Gram-positive lactic acid bacterium Lactobacillus ruminis, a strict anaerobe with both pili and flagella on its cell surface, but also known for being autochthonous (indigenous) to the intestinal environment. Given that the molecular basis of gut autochthony for this species is largely unexplored and unknown, we undertook a study at the genome level to pinpoint some of the adaptive traits behind its colonization behavior. In our pan-genomic probe of L. ruminis, the genomes of nine different strains isolated from human, bovine, porcine, and equine host guts were compiled and compared for in silico analysis. For this, we conducted a geno-phenotypic assessment of protein-coding genes, with an emphasis on those products involved with cell-surface morphology and anaerobic fermentation and respiration. We also categorized and examined the core and accessory genes that define the L. ruminis species and its strains. Here, we made an attempt to identify those genes having ecologically relevant phenotypes that might support or bring about intestinal indigenousness.
Subject: GRAM-POSITIVE BACTERIA
LACTIC-ACID BACTERIA
HIDDEN MARKOV MODEL
SIGNAL PEPTIDES
PROTEIN SECRETION
BINDING-PROTEIN
SURFACE DISPLAY
SP-NOV
MICROBIOTA
SEQUENCE
1183 Plant biology, microbiology, virology
3142 Public health care science, environmental and occupational health
413 Veterinary science
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