Animal-to-Animal Variation in Fecal Microbial Diversity among Beef Cattle

Durso, Lisa M., Harhay, Gregory P., Smith, Timothy P. L., Bono, James L., DeSantis, Todd Z., Harhay, Dayna M., Andersen, Gary L., Keen, James E., Laegreid, William W., Clawson, Michael L.·2010·Applied and Environmental Microbiology

DOI 10.1128/aem.00207-10

Cited by (168)

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Application of Metagenomic Technologies for Antimicrobial Resistance and Food Safety Research and Beyond☆☆CYC and XY contributed equally to this review. The opinions expressed in this review are entirely those of the authors and do not represent those of the USDA.
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Additional file 4 of Classification and prediction of Mycobacterium Avium subsp. Paratuberculosis (MAP) shedding severity in cattle based on young stock heifer faecal microbiota composition using random forest algorithms
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