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http://dx.doi.org/10.5187/jast.2021.e124

Decoding the intestinal microbiota repertoire of sow and weaned pigs using culturomic and metagenomic approaches  

Mun, Daye (Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Science, Seoul National University)
Kim, Hayoung (Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Science, Seoul National University)
Shin, Minhye (Department of Microbiology, Inha University School of Medicine)
Ryu, Sangdon (Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Science, Seoul National University)
Song, Minho (Division of Animal and Dairy Science, Chungnam National University)
Oh, Sangnam (Department of Functional Food and Biotechnology, Jeonju University)
Kim, Younghoon (Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Science, Seoul National University)
Publication Information
Journal of Animal Science and Technology / v.63, no.6, 2021 , pp. 1423-1432 More about this Journal
Abstract
To elucidate the role and mechanism of microbes, we combined culture-dependent and culture-independent approaches to investigate differences in gut bacterial composition between sows and weaned pigs. Under anaerobic conditions, several nonselective and selective media were used for isolation from fecal samples. All isolated bacteria were identified and classified through 16S rRNA sequencing, and the microbiota composition of the fecal samples was analyzed by metagenomics using next generation sequencing (NGS) technology. A total of 278 and 149 colonies were acquired from the sow and weaned pig fecal samples, respectively. Culturomics analysis revealed that diverse bacterial genus and species belonged to Firmicutes, Actinobacteria, Proteobacteria, and Bacteroidetes were isolated from sow and weaned pigs. When comparing culture-dependent and culture-independent analyses, 191 bacterial species and 2 archaeal bacterial species were detected through culture-independent analysis, and a total of 23 bacteria were isolated through a culture-dependent approach, of which 65% were not detected by metagenomics. In conclusion, culturomics and metagenomics should be properly combined to fully understand the intestinal microbiota, and livestock-derived microbial resources should be informed by culturomic approaches to understand and utilize the mechanism of host-microbe interactions.
Keywords
Culturomics; Metagenomics; Intestinal microbiota; Sow; Weaned pig;
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