Class P dye-decolorizing peroxidase gene: Degenerated primers design and phylogenetic analysis

• Published in: Journal of microbiological methods Vol. 130; pp. 148 - 153
• Main Authors: Tian, J-H., Pourcher, A-M., Klingelschmitt, F., Le Roux, S., Peu, P.
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 01-11-2016; Elsevier
• Subjects: Anaerobiosis; Bacteria; Bacteria - classification; Bacteria - enzymology; Bacteria - genetics; Bacteria - isolation & purification; Bacterial Proteins - genetics; Base Sequence; Biomass; Coloring Agents - metabolism; DNA Primers; DNA, Bacterial - analysis; DNA, Bacterial - isolation & purification; Dye-decolorizing peroxidases; Environmental samples; Environmental Sciences; Genes, Bacterial - genetics; Geologic Sediments - microbiology; Lignin - metabolism; PCR primers; Peroxidases - genetics; Phylogenetic analysis; Phylogeny; Polymerase Chain Reaction - methods; Quantitative PCR; RNA, Ribosomal, 16S - genetics; RNA, Ribosomal, 18S - genetics; Sequence Alignment; Soil Microbiology; Phylogenetic analysis; PCR primers; Bacteria; Environmental samples; Dye-decolorizing peroxidases; Quantitative PCR; ENVIRONMENTAL SAMPLES; QUANTITATIVE PCR; BACTERIA; PCR PRIMERS; PHYLOGENETIC ANALYSIS; DYE-DECOLORIZING PEROXIDASES
• ISSN: 0167-7012; 1872-8359
• DOI: 10.1016/j.mimet.2016.09.016

Dye-decolorizing peroxidases (DyPs) were classified as a new family of heme peroxidase in 2007. Produced by various bacteria, they are the first bacterial enzymes known able to degrade lignin and dyes, for which their application in waste treatment and pretreatment of lignocellulosic biomass could be envisaged. In this work, a PCR primer pair was created and tested that enabled the detection and quantification of a wide range of bacterial genes of P class DyP in complex matrices. In addition, a phylogenetic tree was built with all available sequences of DyP genes available, offering a first overview of their presence in the bacteria kingdom.
•A PCR primer pair was created for bacterial class P dye-decolorizing peroxidases.•Dye-decolorizing peroxidase genes exist even in anaerobic conditions.•The relative abundance of DyP genes ranged from 10−2 to 10−6.•A phylogenetic tree was created for available bacterial DyP genes.