title: Occurrence of lignin degradation genotypes and phenotypes among prokaryotes.
abstract: A number of prokaryotes actively contribute to lignin degradation in nature and their activity could be of interest for many applications including the production of biogas/biofuel from lignocellulosic biomass and biopulping. This review compares the reliability and efficiency of the culture-dependent screening methods currently used for the isolation of ligninolytic prokaryotes. Isolated prokaryotes exhibiting lignin-degrading potential are presented according to their phylogenetic groups. With the development of bioinformatics, culture-independent techniques are emerging that allow larger-scale data mining for ligninolytic prokaryotic functions but today, these techniques still have some limits. In this work, two phylogenetic affiliations of isolated prokaryotes exhibiting ligninolytic potential and laccase-encoding prokaryotes were determined on the basis of 16S rDNA sequences, providing a comparative view of results obtained by the two types of screening techniques. The combination of laboratory culture and bioinformatics approaches is a promising way to explore lignin-degrading prokaryotes.
authors.affiliation: IRSTEA, UR GERE, 17 avenue de Cucillé, CS 64427, 35044, Rennes, France.
authors.forename: Jiang-Hao
authors.initials: JH
authors.lastname: Tian
authors.forename: Anne-Marie
authors.initials: AM
authors.lastname: Pourcher
authors.forename: Théodore
authors.initials: T
authors.lastname: Bouchez
authors.forename: Eric
authors.initials: E
authors.lastname: Gelhaye
authors.forename: Pascal
authors.initials: P
authors.lastname: Peu
mesh_terms: D001105:Archaea / Q000145:classification / Q000235:genetics / Q000378:metabolism*; D001419:Bacteria / Q000145:classification / Q000235:genetics / Q000378:metabolism*; D001711:Biotransformation; D016000:Cluster Analysis; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D005838:Genotype; D006868:Hydrolysis; D008031:Lignin / Q000378:metabolism*; D010641:Phenotype; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D017422:Sequence Analysis, DNA
chemical_list: D004275:DNA, Ribosomal; D012336:RNA, Ribosomal, 16S; D008031:Lignin