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The use of PCR-DGGE to determine bacterial fingerprints for poultry and red meat abattoir effluent

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dc.contributor.author de Smidt, O
dc.date.accessioned 2018-08-07T07:34:06Z
dc.date.available 2018-08-07T07:34:06Z
dc.date.issued 2015
dc.identifier.issn 0266-8254
dc.identifier.issn 1472-765X
dc.identifier.uri http://hdl.handle.net/11462/1453
dc.description Published Article en_US
dc.description.abstract Strict legislation and chemical composition monitoring of effluent may be useful, but the data generated do not allow for source tracking, and enforcing legislation remains problematic in the South African setting. These difficulties emphasize the necessity for effluent source traceability. Denaturing gradient gel electrophoresis (DGGE) targeting the V3 region of the 16S rRNA gene was considered as fingerprinting technique for effluent originating from abattoirs slaughtering different animal species. The influence of treatment to remove excess fat from effluent prior to molecular analyses and different PCR approaches on the detection of bacterial diversity were considered. Use of a treatment option to remove fat and a nested PCR approach resulted in up to 51% difference in inter-sample diversity similarity. A robust approach with no pre-treatment to remove PCR inhibitors, such as fat, and direct amplification from genomic DNA yielded optimal/maximal bacterial diversity fingerprints. Repeatable fingerprints were obtained for poultry abattoir effluent over a 4- month period, but profiles for the red meat abattoir varied with maximum similarity detected only 33 2%. Genetic material from faecal indicators Aeromona spp and Clostridium spp were detected. Genera unique to each effluent were present; Anoxybacillus, Patulibacter and Oleispira in poultry abattoir effluent and Porphyromonas and Peptostreptococcus in red meat abattoir effluent. en_US
dc.format.extent 224 025 bytes, 1 file
dc.format.mimetype Application/PDF
dc.language.iso en_US en_US
dc.publisher Letters in Applied Microbiology en_US
dc.subject abattoir effluent en_US
dc.subject denaturing gradient gel en_US
dc.subject electrophoresis en_US
dc.subject Green Drop en_US
dc.subject molecular fingerprint en_US
dc.subject source tracking en_US
dc.subject wastewater en_US
dc.title The use of PCR-DGGE to determine bacterial fingerprints for poultry and red meat abattoir effluent en_US
dc.type Article en_US

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