Raw milk and fecal microbiota of commercial Alpine dairy cows varies with herd, fat content and diet
The factors that influence the diversity and composition of raw milk and fecal microbiota in healthy commercial dairy herds are not fully understood, partially because the majority of metataxonomic studies involve experimental farms and/or single factors. We analyzed the raw milk and fecal microbiot...
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| creator | Albonico, Francesca Barelli, Claudia Albanese, Davide Manica, Mattia Partel, Erika Rosso, Fausta Ripellino, Silvia Pindo, Massimo Donati, Claudio Zecconi, Alfonso Mortarino, Michele Hauffe, Heidi C |
| description | The factors that influence the diversity and composition of raw milk and fecal microbiota in healthy commercial dairy herds are not fully understood, partially because the majority of metataxonomic studies involve experimental farms and/or single factors. We analyzed the raw milk and fecal microbiota of 100 healthy cows from 10 commercial alpine farms from the Province of Trento, Italy, using metataxonomics and applied statistical modelling to investigate which extrinsic and intrinsic parameters (e.g. herd, diet and milk characteristics) correlated with microbiota richness and composition in these relatively small traditional farms. We confirmed that Firmicutes, Ruminococcaceae and Lachnospiraceae families dominated the fecal and milk samples of these dairy cows, but in addition, we found an association between the number of observed OTUs and Shannon entropy on each farm that indicates higher microbiota richness is associated with increased microbiota stability. Modelling showed that herd was the most significant factor affecting the variation in both milk and fecal microbiota composition. Furthermore, the most important predictors explaining the variation of microbiota richness were milk characteristics (i.e. percentage fat) and diet for milk and fecal samples, respectively. We discuss how high intra-herd variation could affect the development of treatments based on microbiota manipulation. |
| doi_str_mv | 10.1371/journal.pone.0237262 |
| format | Article |
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We analyzed the raw milk and fecal microbiota of 100 healthy cows from 10 commercial alpine farms from the Province of Trento, Italy, using metataxonomics and applied statistical modelling to investigate which extrinsic and intrinsic parameters (e.g. herd, diet and milk characteristics) correlated with microbiota richness and composition in these relatively small traditional farms. We confirmed that Firmicutes, Ruminococcaceae and Lachnospiraceae families dominated the fecal and milk samples of these dairy cows, but in addition, we found an association between the number of observed OTUs and Shannon entropy on each farm that indicates higher microbiota richness is associated with increased microbiota stability. Modelling showed that herd was the most significant factor affecting the variation in both milk and fecal microbiota composition. Furthermore, the most important predictors explaining the variation of microbiota richness were milk characteristics (i.e. percentage fat) and diet for milk and fecal samples, respectively. We discuss how high intra-herd variation could affect the development of treatments based on microbiota manipulation.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0237262</identifier><identifier>PMID: 32760129</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animal Feed - analysis ; Animals ; Bacteria - classification ; Bacteria - isolation & purification ; Biodiversity ; Biology ; Biology and Life Sciences ; Cattle - microbiology ; Composition ; Dairy cattle ; Dairy farming ; Dairying ; Diet ; Ecology ; Ecology and Environmental Sciences ; Entropy (Information theory) ; Experimental farms ; Farms ; Fats - analysis ; Fecal microflora ; Feces ; Feces - microbiology ; Female ; Food and nutrition ; Food quality ; Influence ; Livestock ; Mathematical models ; Medicine and Health Sciences ; Microbiota ; Microbiota (Symbiotic organisms) ; Milk ; Milk - chemistry ; Milk - microbiology ; Pathogens ; Physiological aspects ; Raw milk ; Research and analysis methods ; Statistical methods ; Statistical models ; Variation ; Veterinary medicine</subject><ispartof>PloS one, 2020-08, Vol.15 (8), p.e0237262-e0237262</ispartof><rights>COPYRIGHT 2020 Public Library of Science</rights><rights>2020 Albonico et al. 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We analyzed the raw milk and fecal microbiota of 100 healthy cows from 10 commercial alpine farms from the Province of Trento, Italy, using metataxonomics and applied statistical modelling to investigate which extrinsic and intrinsic parameters (e.g. herd, diet and milk characteristics) correlated with microbiota richness and composition in these relatively small traditional farms. We confirmed that Firmicutes, Ruminococcaceae and Lachnospiraceae families dominated the fecal and milk samples of these dairy cows, but in addition, we found an association between the number of observed OTUs and Shannon entropy on each farm that indicates higher microbiota richness is associated with increased microbiota stability. Modelling showed that herd was the most significant factor affecting the variation in both milk and fecal microbiota composition. 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| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2020-08, Vol.15 (8), p.e0237262-e0237262 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_2430976793 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Public Library of Science (PLoS); PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Animal Feed - analysis Animals Bacteria - classification Bacteria - isolation & purification Biodiversity Biology Biology and Life Sciences Cattle - microbiology Composition Dairy cattle Dairy farming Dairying Diet Ecology Ecology and Environmental Sciences Entropy (Information theory) Experimental farms Farms Fats - analysis Fecal microflora Feces Feces - microbiology Female Food and nutrition Food quality Influence Livestock Mathematical models Medicine and Health Sciences Microbiota Microbiota (Symbiotic organisms) Milk Milk - chemistry Milk - microbiology Pathogens Physiological aspects Raw milk Research and analysis methods Statistical methods Statistical models Variation Veterinary medicine |
| title | Raw milk and fecal microbiota of commercial Alpine dairy cows varies with herd, fat content and diet |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-19T19%3A42%3A46IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Raw%20milk%20and%20fecal%20microbiota%20of%20commercial%20Alpine%20dairy%20cows%20varies%20with%20herd,%20fat%20content%20and%20diet&rft.jtitle=PloS%20one&rft.au=Albonico,%20Francesca&rft.date=2020-08-06&rft.volume=15&rft.issue=8&rft.spage=e0237262&rft.epage=e0237262&rft.pages=e0237262-e0237262&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0237262&rft_dat=%3Cgale_plos_%3EA631767722%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2430976793&rft_id=info:pmid/32760129&rft_galeid=A631767722&rft_doaj_id=oai_doaj_org_article_413dd0a001eb47beb4a448c35f4f9b50&rfr_iscdi=true |