Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective

The predominance of bacterial taxa in the gut, was examined in view of the putative antimicrobial peptide sequences (AMPs) within their proteomes. The working assumption was that compatible bacteria would share homology and thus immunity to their putative AMPs, while competing taxa would have dissim...

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Autores principales:	Anastasis Oulas, Margarita Zachariou, Christos T. Chasapis, Marios Tomazou, Umer Z. Ijaz, Georges Pierre Schmartz, George M. Spyrou, Alexios Vlamis-Gardikas
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	putative antimicrobial peptides interbacterial antagonism network analysis bioinformatics analysis bacterial competition Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/37b86733a72d4968b7a44de18a5c837b
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spelling	oai:doaj.org-article:37b86733a72d4968b7a44de18a5c837b2021-11-12T06:53:49ZPutative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective1664-302X10.3389/fmicb.2021.752674https://doaj.org/article/37b86733a72d4968b7a44de18a5c837b2021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fmicb.2021.752674/fullhttps://doaj.org/toc/1664-302XThe predominance of bacterial taxa in the gut, was examined in view of the putative antimicrobial peptide sequences (AMPs) within their proteomes. The working assumption was that compatible bacteria would share homology and thus immunity to their putative AMPs, while competing taxa would have dissimilarities in their proteome-hidden AMPs. A network–based method (“Bacterial Wars”) was developed to handle sequence similarities of predicted AMPs among UniProt-derived protein sequences from different bacterial taxa, while a resulting parameter (“Die” score) suggested which taxa would prevail in a defined microbiome. T he working hypothesis was examined by correlating the calculated Die scores, to the abundance of bacterial taxa from gut microbiomes from different states of health and disease. Eleven publicly available 16S rRNA datasets and a dataset from a full shotgun metagenomics served for the analysis. The overall conclusion was that AMPs encrypted within bacterial proteomes affected the predominance of bacterial taxa in chemospheres.Anastasis OulasAnastasis OulasMargarita ZachariouMargarita ZachariouChristos T. ChasapisMarios TomazouMarios TomazouUmer Z. IjazGeorges Pierre SchmartzGeorge M. SpyrouGeorge M. SpyrouAlexios Vlamis-GardikasFrontiers Media S.A.articleputative antimicrobial peptidesinterbacterial antagonismnetwork analysisbioinformatics analysisbacterial competitionMicrobiologyQR1-502ENFrontiers in Microbiology, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	putative antimicrobial peptides interbacterial antagonism network analysis bioinformatics analysis bacterial competition Microbiology QR1-502
spellingShingle	putative antimicrobial peptides interbacterial antagonism network analysis bioinformatics analysis bacterial competition Microbiology QR1-502 Anastasis Oulas Anastasis Oulas Margarita Zachariou Margarita Zachariou Christos T. Chasapis Marios Tomazou Marios Tomazou Umer Z. Ijaz Georges Pierre Schmartz George M. Spyrou George M. Spyrou Alexios Vlamis-Gardikas Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective
description	The predominance of bacterial taxa in the gut, was examined in view of the putative antimicrobial peptide sequences (AMPs) within their proteomes. The working assumption was that compatible bacteria would share homology and thus immunity to their putative AMPs, while competing taxa would have dissimilarities in their proteome-hidden AMPs. A network–based method (“Bacterial Wars”) was developed to handle sequence similarities of predicted AMPs among UniProt-derived protein sequences from different bacterial taxa, while a resulting parameter (“Die” score) suggested which taxa would prevail in a defined microbiome. T he working hypothesis was examined by correlating the calculated Die scores, to the abundance of bacterial taxa from gut microbiomes from different states of health and disease. Eleven publicly available 16S rRNA datasets and a dataset from a full shotgun metagenomics served for the analysis. The overall conclusion was that AMPs encrypted within bacterial proteomes affected the predominance of bacterial taxa in chemospheres.
format	article
author	Anastasis Oulas Anastasis Oulas Margarita Zachariou Margarita Zachariou Christos T. Chasapis Marios Tomazou Marios Tomazou Umer Z. Ijaz Georges Pierre Schmartz George M. Spyrou George M. Spyrou Alexios Vlamis-Gardikas
author_facet	Anastasis Oulas Anastasis Oulas Margarita Zachariou Margarita Zachariou Christos T. Chasapis Marios Tomazou Marios Tomazou Umer Z. Ijaz Georges Pierre Schmartz George M. Spyrou George M. Spyrou Alexios Vlamis-Gardikas
author_sort	Anastasis Oulas
title	Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective
title_short	Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective
title_full	Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective
title_fullStr	Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective
title_full_unstemmed	Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective
title_sort	putative antimicrobial peptides within bacterial proteomes affect bacterial predominance: a network analysis perspective
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/37b86733a72d4968b7a44de18a5c837b
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Putative Antimicrobial Peptides Within Bacterial Proteomes Affect Bacterial Predominance: A Network Analysis Perspective

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