A Collection of Bacterial Isolates from the Pig Intestine Reveals Functional and Taxonomic Diversity
ARTICLE https://doi.org/10.1038/s41467-020-19929-w OPEN A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity David Wylensek1,25, Thomas C. A. Hitch 1,25, Thomas Riedel2,3, Afrizal Afrizal1, Neeraj Kumar1,4, Esther Wortmann1, Tianzhe Liu5, Saravanan Devendran6,7, Till R. Lesker8, Sara B. Hernández 9, Viktoria Heine10, Eva M. Buhl11, Paul M. D’Agostino 5, Fabio Cumbo 12, Thomas Fischöder10, Marzena Wyschkon2,3, Torey Looft 13, Valeria R. Parreira14, Birte Abt2,3, Heidi L. Doden6,7, Lindsey Ly6,7, João M. P. Alves15, Markus Reichlin16, Krzysztof Flisikowski17, Laura Navarro Suarez18, Anthony P. Neumann19, Garret Suen 19, Tomas de Wouters16, Sascha Rohn18,24, Ilias Lagkouvardos4,20, Emma Allen-Vercoe 14, 2 2 21 22 21 1234567890():,; Cathrin Spröer , Boyke Bunk , Anja J. Taverne-Thiele , Marcel Giesbers , Jerry M. Wells , Klaus Neuhaus 4, Angelika Schnieke4,17, Felipe Cava9, Nicola Segata 12, Lothar Elling 10, Till Strowig 8,23, ✉ Jason M. Ridlon6,7, Tobias A. M. Gulder5, Jörg Overmann 2,3 & Thomas Clavel 1 Our knowledge about the gut microbiota of pigs is still scarce, despite the importance of these animals for biomedical research and agriculture. Here, we present a collection of cultured bacteria from the pig gut, including 110 species across 40 families and nine phyla. We provide taxonomic descriptions for 22 novel species and 16 genera. Meta-analysis of 16S rRNA amplicon sequence data and metagenome-assembled genomes reveal prevalent and pig-specific species within Lactobacillus, Streptococcus, Clostridium, Desulfovibrio, Enterococcus, Fusobacterium, and several new genera described in this study. Potentially interesting func- tions discovered in these organisms include a fucosyltransferase encoded in the genome of the novel species Clostridium porci, and prevalent gene clusters for biosynthesis of sactipeptide-like peptides.
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