Dataset Information

Sheep fecal microbiota - Diversity and functions of the sheep faecal microbiota: a multi-omic characterization

ABSTRACT: Characterization of the fecal metaproteome of dairy sheep

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Microbiota

TISSUE(S): Gastrointestinal Tract

SUBMITTER: Alessandro Tanca

LAB HEAD: Sergio Uzzau

PROVIDER: PXD004524 | Pride | 2017-02-22

REPOSITORIES: Pride

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Publications

Diversity and functions of the sheep faecal microbiota: a multi-omic characterization.

Tanca Alessandro A Fraumene Cristina C Manghina Valeria V Palomba Antonio A Abbondio Marcello M Deligios Massimo M Pagnozzi Daniela D Addis Maria Filippa MF Uzzau Sergio S

Microbial biotechnology 20170206 3

Little is currently known on the microbial populations colonizing the sheep large intestine, despite their expected key role in host metabolism, physiology and immunity. This study reports the first characterization of the sheep faecal microbiota composition and functions, obtained through the application of a multi-omic strategy. An optimized protocol was first devised for DNA extraction and amplification from sheep stool samples. Then, 16S rDNA sequencing, shotgun metagenomics and shotgun meta ...[more]

PMID: 28165194

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Project description:Sequencing technologies have recently facilitated the characterization of bacterial communities present in lungs during health and disease. However, there is currently a dearth of information concerning the variability of such data in health both between and within subjects. This study seeks to examine such variability using healthy adult sheep as our model system. Protected specimen brush samples were collected from three spatially disparate segmental bronchi of six adult sheep (age, 20 months) on three occasions (day 0, 1 month, and 3 months). To further explore the spatial variability of the microbiotas, more-extensive brushing samples (n = 16) and a throat swab were taken from a separate sheep. The V2 and V3 hypervariable regions of the bacterial 16S rRNA genes were amplified and sequenced via Illumina MiSeq. DNA sequences were analyzed using the mothur software package. Quantitative PCR was performed to quantify total bacterial DNA. Some sheep lungs contained dramatically different bacterial communities at different sampling sites, whereas in others, airway microbiotas appeared similar across the lung. In our spatial variability study, we observed clustering related to the depth within the lung from which samples were taken. Lung depth refers to increasing distance from the glottis, progressing in a caudal direction. We conclude that both host influence and local factors have impacts on the composition of the sheep lung microbiota.Until recently, it was assumed that the lungs were a sterile environment which was colonized by microbes only during disease. However, recent studies using sequencing technologies have found that there is a small population of bacteria which exists in the lung during health, referred to as the "lung microbiota." In this study, we characterize the variability of the lung microbiotas of healthy sheep. Sheep not only are economically important animals but also are often used as large animal models of human respiratory disease. We conclude that, while host influence does play a role in dictating the types of microbes which colonize the airways, it is clear that local factors also play an important role in this regard. Understanding the nature and influence of these factors will be key to understanding the variability in, and functional relevance of, the lung microbiota.

			Action	DRS
	DB1_S-MG.fasta	Fasta
	Peptide_ID_annotation_table.xlsx	Xlsx
	Sheep_1.raw	Raw
	Sheep_1_DB1.msf	Msf
	Sheep_1_DB2.msf	Msf