Use of rpoB and 16S rRNA genes to analyse bacterial diversity of a tropical soil using PCR and DGGE.

Aim: To evaluate the rpoB gene as a biomarker for PCR-DGGE microbial analyses using soil DNA from the Cerrado, Brazil. Methods: DNA extraction from soil was followed by Polymerase Chain Reaction (PCR) amplification of rpoB and 16S rRNA genes. PCR products were compared by Denaturing Gradient Gel Electrophoresis (DGGE) to compare gene/community profiles. Results: The rpoB DGGE profiles comprised fewer bands than the 16S rDNA profiles and were easier to delineate and therefore to analyse. Comparison of the community profiles revealed that the methods were complementary. Conclusions, Significance and Impact of the Study: The gene for the beta subunit of the RNA polymerase, rpoB, is a single copy gene unlike 16S rDNA. Multiple copies of 16S rRNA genes in bacterial genomes complicate diversity assessments made from DGGE profiles. Using the rpoB gene offers a better alternative to the commonly used 16S rRNA gene for microbial community analyses based on DGGE.

Bibliographic Details

Main Authors:	PEIXOTO, R. S., COUTINHO, H. L. da C., RUMJANEK, N. G., MACRAE, A., ROSADO, A. S.
Other Authors:	R. S. PEIXOTO, UFRJ; HEITOR LUIZ DA COSTA COUTINHO, CNPS; NORMA GOUVEA RUMJANEK, CNPAB; A. MACRAE, UFRJ; A. S. ROSADO, UFRJ.
Format:	Artigo de periódico biblioteca
Language:	Ingles English
Published:	2021-09-20
Subjects:	DNA extraction, Tropical soils, Polymerase chain reaction,
Online Access:	http://www.alice.cnptia.embrapa.br/alice/handle/doc/1134559 https://doi.org/10.1046/j.1472-765X.2002.01183.x
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