title: Characterization of the fecal microbiome in different swine groups by high-throughput sequencing.
abstract: Swine have a complex microbial community within their gastrointestinal tract that plays a critical role in both health and disease. High-throughput 16S rRNA gene-based pyrosequencing was used to identify the possible core microorganisms in the gut of swine groups that differ in meat quality and weight grades (level 1 as higher meat quality and level 2 as lower meat quality). Samples were taken from the rectum and/or stool from ten animals, DNA was extracted, and the V1-V3 regions of the 16S rRNA gene were amplified. Two bacterial populations (Bacteroidetes and Firmicutes) dominated and were shared between the two groups. Significant differences between the groups were found at the genus level. The genera Lactobacillus and Oscillibacter were found in slightly higher proportions in the level 2 group (12.6 and 12.4% of the classified reads, respectively) than those of level 1 (9.6 and 7.7%, respectively). By contrast, the proportion of reads assigned to the genus Roseburia in the level 1 group (13.0%) was higher than that of level 2 (4.8%). The largest differences were related to the genera Clostridium, Oscillibacter, and Roseburia as core microorganisms. Moreover, two genera, Roseburia and Clostridium, related to level 1 produced linoleic acid or short chain fatty acids that might contribute to swine health and development. In conclusion, the presence of core bacteria in the swine gut is associated with meat quality with reduced body fat in swine.
authors: Department of Biology, Jeju National University, 102 Jejudaehak-ro, Jeju 650-756, Republic of Korea. Electronic address: sjpark@jejunu.ac.kr.
authors: Soo-Je
authors: SJ
authors: Park
authors: Department of Anatomy, Jeju National University School of Medicine, 102 Jejudaehak-ro, Jeju 650-756, Republic of Korea.
authors: Jinu
authors: J
authors: Kim
authors: College of Veterinary Medicine (BK21 Plus Program), Chungnam National University, Daejeon 305-764, Republic of Korea.
authors: Jong-Soo
authors: JS
authors: Lee
authors: Department of Microbiology, Chungbuk National University, 52 Naesudong-ro, Cheongju 361-763, Republic of Korea.
authors: Sung-Keun
authors: SK
authors: Rhee
authors: R&D Division, VITABIO, Inc., Daejeon 300-728, Republic of Korea. Electronic address: hongiknice@daum.net.
authors: Hongik
authors: H
authors: Kim
mesh_terms: D000818:Animals; D001419:Bacteria / Q000145:classification* / Q000235:genetics*; D016000:Cluster Analysis; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D005227:Fatty Acids / Q000378:metabolism; D005243:Feces / Q000382:microbiology*; D005260:Female; D059014:High-Throughput Nucleotide Sequencing; D019787:Linoleic Acid / Q000378:metabolism; D008297:Male; D064307:Microbiota; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012007:Rectum / Q000382:microbiology; D017422:Sequence Analysis, DNA; D013552:Swine
chemical_list: D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D005227:Fatty Acids; D012336:RNA, Ribosomal, 16S; D019787:Linoleic Acid
keywords: 16S rRNA gene; Fecal; Gut; Microbiome; Next-generation sequencing; Swine