Community composition and development of the post-weaning piglet gut microbiome

Gaio, D; DeMaere, M; Anantanawat, K; Eamens, G; Liu, M; Zingali, T; Falconer, L; Chapman, T; Djordjevic, S; Darling, A

Community composition and development of the post-weaning piglet gut microbiome

Gaio, D

DeMaere, M

Anantanawat, K

Eamens, G Liu, M Zingali, T Falconer, L Chapman, T Djordjevic, S

Darling, A

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Publisher:: Cold Spring Harbor Laboratory
Publication Type:: Journal Article
Citation:: 2020
Issue Date:: 2020-07-20

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Field	Value	Language
dc.contributor.author	Gaio, D https://orcid.org/0000-0002-7695-3145
dc.contributor.author	DeMaere, M https://orcid.org/0000-0002-7601-5108
dc.contributor.author	Anantanawat, K https://orcid.org/0000-0002-7862-0969
dc.contributor.author	Eamens, G
dc.contributor.author	Liu, M
dc.contributor.author	Zingali, T
dc.contributor.author	Falconer, L
dc.contributor.author	Chapman, T
dc.contributor.author	Djordjevic, S https://orcid.org/0000-0001-9301-5372
dc.contributor.author	Darling, A https://orcid.org/0000-0003-2397-7925
dc.date.accessioned	2020-11-18T05:36:39Z
dc.date.available	2020-11-18T05:36:39Z
dc.date.issued	2020-07-20
dc.identifier.citation	2020
dc.identifier.uri	http://hdl.handle.net/10453/144123
dc.description.abstract	ABSTRACT We report on the largest metagenomic analysis of the pig gut microbiome to date. By processing over 800 faecal time-series samples from 126 piglets and 42 sows, we generated over 8Tbp of metagenomic shotgun sequence data. Here we describe the animal trial procedures, the generation of our metagenomic dataset and the analysis of the microbial community composition using a phylogenetic framework. We assess the effects of intramuscular antibiotic treatment and probiotic oral treatment on the diversity of gut microbial communities. We found differences between individual hosts such as breed, litter, and age, to be important contributors to variation in the community composition. Treatment effects of the antibiotic and probiotic treatments were found but were subtle, while host age was the dominant factor in shaping the gut microbiota of piglets after weaning. The post-weaning pig gut microbiome appears to follow a highly structured developmental program with characteristic post-weaning changes that can distinguish hosts that were born as little as two days apart in the second month of life.
dc.language	en
dc.publisher	Cold Spring Harbor Laboratory
dc.relation	http://purl.org/au-research/grants/arc/LP150100912
dc.relation.isbasedon	10.1101/2020.07.20.211326
dc.rights	info:eu-repo/semantics/openAccess
dc.title	Community composition and development of the post-weaning piglet gut microbiome
dc.type	Journal Article
pubs.organisational-group	/University of Technology Sydney/Faculty of Science
pubs.organisational-group	/University of Technology Sydney
pubs.organisational-group	/University of Technology Sydney/Strength - ithree - Institute of Infection, Immunity and Innovation
utslib.copyright.status	open_access	*
dc.date.updated	2020-11-18T05:36:33Z
pubs.publication-status	Published

Abstract:

ABSTRACT We report on the largest metagenomic analysis of the pig gut microbiome to date. By processing over 800 faecal time-series samples from 126 piglets and 42 sows, we generated over 8Tbp of metagenomic shotgun sequence data. Here we describe the animal trial procedures, the generation of our metagenomic dataset and the analysis of the microbial community composition using a phylogenetic framework. We assess the effects of intramuscular antibiotic treatment and probiotic oral treatment on the diversity of gut microbial communities. We found differences between individual hosts such as breed, litter, and age, to be important contributors to variation in the community composition. Treatment effects of the antibiotic and probiotic treatments were found but were subtle, while host age was the dominant factor in shaping the gut microbiota of piglets after weaning. The post-weaning pig gut microbiome appears to follow a highly structured developmental program with characteristic post-weaning changes that can distinguish hosts that were born as little as two days apart in the second month of life.

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http://hdl.handle.net/10453/144123