title: A comparison of faecal microbial populations of South African Windsnyer-type indigenous pigs (SAWIPs) and Large White × Landrace (LW × LR) crosses fed diets containing ensiled maize cobs.
abstract: Faecal microbial communities in South African Windsnyer-type indigenous pigs (SAWIPs) and Large White × Landrace (LW × LR) crosses were investigated using high-throughput sequencing of the 16S rDNA genes. The faecal microbial communities in LW × LR crosses and SAWIPs fed control (CON) and high maize cob (HMC) diets were evaluated through parallel sequencing of 16S rDNA genes. Butrivibrio, Faecalibacterium and Desulfovibrio, although present in LW × LR pigs, were absent from the SAWIP microbial community. Bacteroides, Succiniclasticum, Peptococcus and Akkermansia were found in SAWIPs but not in LW × LR crosses. The ratios of Bacteroidia to Clostridia on the CON and HMC diets were similar (0.37 versus 0.39) in SAWIPs but different (0.24 versus 0.1) in LW × LR crosses. The faecal microbial profiles determined were different between the LW × LR and SAWIP breeds but not between pigs fed the CON and HMC diets. The composition of faecal bacterial communities in SAWIPs was determined for the first time. The differences in microbial communities detected may explain the enhanced ability of SAWIPs to digest fibrous diets compared with the LW × LR crosses.
authors.affiliation: Agricultural Research Council-Animal Production Institute, Private Bag X2, Irene, 0062, South Africa Department of Animal Sciences, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa Arnoldk@arc.agric.za.
authors.forename: Arnold T
authors.initials: AT
authors.lastname: Kanengoni
authors.affiliation: Discipline of Animal & Poultry Science, University of KwaZulu-Natal, Private Bag X01, Scottsville, Pietermaritzburg, 3209, South Africa.
authors.forename: Michael
authors.initials: M
authors.lastname: Chimonyo
authors.affiliation: Institute for Food Safety and Hygiene, Vetsuisse Faculty University of Zurich, Switzerland.
authors.forename: Taurai
authors.initials: T
authors.lastname: Tasara
authors.affiliation: Animal & Grassland Research and Innovation Centre, Teagasc, Grange, Co. Meath, Ireland.
authors.forename: Paul
authors.initials: P
authors.lastname: Cormican
authors.affiliation: Ross University School of Veterinary Medicine, Department of Clinical Sciences, Box 34, Basseterre, St Kitts and Nevis.
authors.forename: Aspinas
authors.initials: A
authors.lastname: Chapwanya
authors.affiliation: Agricultural Research Council, Proteomics Research and Services Unit, Helshoogte Road, Infruitech. Nietvoorbij Institute, Stellenbosch 7599, South Africa Department of Biotechnology, University of the Western Cape, Private Bag X17, Bellville, Cape Town, 7535, South Africa.
authors.forename: Bongani K
authors.initials: BK
authors.lastname: Ndimba
authors.affiliation: Department of Animal Sciences, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa.
authors.forename: Kennedy
authors.initials: K
authors.lastname: Dzama
mesh_terms: D000821:Animal Feed; D000818:Animals; D001439:Bacteroides / Q000235:genetics / Q000302:isolation & purification; D003013:Clostridium / Q000235:genetics / Q000302:isolation & purification; D003901:Desulfovibrio / Q000235:genetics / Q000302:isolation & purification; D004032:Diet / Q000592:standards / Q000662:veterinary; D004043:Dietary Fiber / Q000378:metabolism; D005243:Feces / Q000382:microbiology*; D005285:Fermentation; D059014:High-Throughput Nucleotide Sequencing; D007422:Intestines / Q000382:microbiology*; D056186:Metagenomics; D059013:Microbial Consortia; D010460:Peptococcus / Q000235:genetics / Q000302:isolation & purification; D013019:South Africa; D034421:Sus scrofa / Q000145:classification* / Q000382:microbiology* / Q000502:physiology; D013552:Swine; D003313:Zea mays
keywords: agriculture; fermentation; genomics; intestinal microbiology; metagenomics