A cross-sectional study of the nasal and fecal microbiota of sows from different health status within six commercial swine farms
Abstract
Cull sows are a unique population on swine farms, often representing poor producing or compromised animals, and even though recent studies have reported that the microbiome is associated with susceptibility to diseases, the microbiome of the cull sow population has not been explored. The main objective of this study was to investigate whether there were differences in fecal and upper respiratory tract microbiota composition for groups of sows of different health status (healthy, cull, and compromised/ clinical sows) and from different farms (1 to 6). Six swine farms were visited once. Thirty individual fecal samples and nasal swabs were obtained at each farm and pooled by five across health status and farm. Samples underwent 16S rRNA gene amplicon sequencing and nasal and fecal microbiota were analyzed using QIIME2 v.2021.4. Overall, the diversity of the nasal microbiota was lower than the fecal microbiota (p < 0.01). No significant differences were found in fecal or nasal alpha diversity by sow’s health status or by farm. Furthermore, there were significant differences in nasal microbial composition by farm and health status (PERMANOVA, p < 0.05), and in fecal microbiota by farm (PERMANOVA, p < 0.05), but not by health status. Lastly, at the L7 level, there was one differentially abundantmore »
- Authors:
-
[3];
- The Ohio State Univ., Columbus, OH (United States)
- North Carolina State Univ., Raleigh, NC (United States)
- Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
- Publication Date:
- Research Org.:
- Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
- Sponsoring Org.:
- USDOE Laboratory Directed Research and Development (LDRD) Program
- OSTI Identifier:
- 1835778
- Report Number(s):
- LA-UR-20-28622
Journal ID: ISSN 2167-8359
- Grant/Contract Number:
- 89233218CNA000001
- Resource Type:
- Accepted Manuscript
- Journal Name:
- PeerJ
- Additional Journal Information:
- Journal Volume: 9; Journal ID: ISSN 2167-8359
- Publisher:
- PeerJ Inc.
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Agricultural science; Bioinformatics; Microbiology; Veterinary medicine; Swine; Swine microbiota; Nasal and fecal microbiota; Cull sows; Swine health
Citation Formats
Arruda, Andreia G., Deblais, Loic, Hale, Vanessa L., Madden, Christopher, Pairis-Garcia, Monique, Srivastava, Vishal, Kathayat, Dipak, Kumar, Anand, and Rajashekara, Gireesh. A cross-sectional study of the nasal and fecal microbiota of sows from different health status within six commercial swine farms. United States: N. p., 2021.
Web. doi:10.7717/peerj.12120.
Arruda, Andreia G., Deblais, Loic, Hale, Vanessa L., Madden, Christopher, Pairis-Garcia, Monique, Srivastava, Vishal, Kathayat, Dipak, Kumar, Anand, & Rajashekara, Gireesh. A cross-sectional study of the nasal and fecal microbiota of sows from different health status within six commercial swine farms. United States. https://doi.org/10.7717/peerj.12120
Arruda, Andreia G., Deblais, Loic, Hale, Vanessa L., Madden, Christopher, Pairis-Garcia, Monique, Srivastava, Vishal, Kathayat, Dipak, Kumar, Anand, and Rajashekara, Gireesh. Fri .
"A cross-sectional study of the nasal and fecal microbiota of sows from different health status within six commercial swine farms". United States. https://doi.org/10.7717/peerj.12120. https://www.osti.gov/servlets/purl/1835778.
@article{osti_1835778,
title = {A cross-sectional study of the nasal and fecal microbiota of sows from different health status within six commercial swine farms},
author = {Arruda, Andreia G. and Deblais, Loic and Hale, Vanessa L. and Madden, Christopher and Pairis-Garcia, Monique and Srivastava, Vishal and Kathayat, Dipak and Kumar, Anand and Rajashekara, Gireesh},
abstractNote = {Cull sows are a unique population on swine farms, often representing poor producing or compromised animals, and even though recent studies have reported that the microbiome is associated with susceptibility to diseases, the microbiome of the cull sow population has not been explored. The main objective of this study was to investigate whether there were differences in fecal and upper respiratory tract microbiota composition for groups of sows of different health status (healthy, cull, and compromised/ clinical sows) and from different farms (1 to 6). Six swine farms were visited once. Thirty individual fecal samples and nasal swabs were obtained at each farm and pooled by five across health status and farm. Samples underwent 16S rRNA gene amplicon sequencing and nasal and fecal microbiota were analyzed using QIIME2 v.2021.4. Overall, the diversity of the nasal microbiota was lower than the fecal microbiota (p < 0.01). No significant differences were found in fecal or nasal alpha diversity by sow’s health status or by farm. Furthermore, there were significant differences in nasal microbial composition by farm and health status (PERMANOVA, p < 0.05), and in fecal microbiota by farm (PERMANOVA, p < 0.05), but not by health status. Lastly, at the L7 level, there was one differentially abundant taxa across farms for each nasal and fecal pooled samples. This study provided baseline information for nasal and fecal microbiota of sows under field conditions, and results suggest that farm of origin can affect microbial diversity and composition. Furthermore, sow’s health status may have an impact on the nasal microbiota composition.},
doi = {10.7717/peerj.12120},
journal = {PeerJ},
number = ,
volume = 9,
place = {United States},
year = {Fri Sep 17 00:00:00 EDT 2021},
month = {Fri Sep 17 00:00:00 EDT 2021}
}
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