Riley_2014_Proc.Natl.Acad.Sci.U.S.A_111_9923

Reference

Title : Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot\/brown-rot paradigm for wood decay fungi - Riley_2014_Proc.Natl.Acad.Sci.U.S.A_111_9923
Author(s) : Riley R , Salamov AA , Brown DW , Nagy LG , Floudas D , Held BW , Levasseur A , Lombard V , Morin E , Otillar R , Lindquist EA , Sun H , LaButti KM , Schmutz J , Jabbour D , Luo H , Baker SE , Pisabarro AG , Walton JD , Blanchette RA , Henrissat B , Martin F , Cullen D , Hibbett DS , Grigoriev IV
Ref : Proc Natl Acad Sci U S A , 111 :9923 , 2014
Abstract :

Basidiomycota (basidiomycetes) make up 32% of the described fungi and include most wood-decaying species, as well as pathogens and mutualistic symbionts. Wood-decaying basidiomycetes have typically been classified as either white rot or brown rot, based on the ability (in white rot only) to degrade lignin along with cellulose and hemicellulose. Prior genomic comparisons suggested that the two decay modes can be distinguished based on the presence or absence of ligninolytic class II peroxidases (PODs), as well as the abundance of enzymes acting directly on crystalline cellulose (reduced in brown rot). To assess the generality of the white-rot/brown-rot classification paradigm, we compared the genomes of 33 basidiomycetes, including four newly sequenced wood decayers, and performed phylogenetically informed principal-components analysis (PCA) of a broad range of gene families encoding plant biomass-degrading enzymes. The newly sequenced Botryobasidium botryosum and Jaapia argillacea genomes lack PODs but possess diverse enzymes acting on crystalline cellulose, and they group close to the model white-rot species Phanerochaete chrysosporium in the PCA. Furthermore, laboratory assays showed that both B. botryosum and J. argillacea can degrade all polymeric components of woody plant cell walls, a characteristic of white rot. We also found expansions in reducing polyketide synthase genes specific to the brown-rot fungi. Our results suggest a continuum rather than a dichotomy between the white-rot and brown-rot modes of wood decay. A more nuanced categorization of rot types is needed, based on an improved understanding of the genomics and biochemistry of wood decay.

PubMedSearch : Riley_2014_Proc.Natl.Acad.Sci.U.S.A_111_9923
PubMedID: 24958869
Gene_locus related to this paper: pleos-a0a067nlj6 , 9agar-a0a067t0n0 , 9agar-a0a067sha0 , 9homo-a0a067pav0 , pleos-a0a067n337 , 9homo-a0a067pz82 , 9homo-a0a067m7p7 , pleos-a0a067p245 , 9homo-a0a067lrz6 , 9homo-a0a067m4r5 , 9homo-a0a067mr63 , 9homo-a0a067mrq8 , 9agar-a0a067t4j6 , 9homo-a0a067pdz2 , 9homo-a0a067q2n9 , 9agar-a0a067tsx5 , 9homo-a0a067mfq5 , 9homo-a0a067qc90 , pleos-a0a067p113 , 9homo-a0a067pwi6 , 9agar-a0a067s6d7 , 9agar-a0a067tie7 , pleos-a0a067ngc3 , 9agar-a0a067st69 , 9agar-a0a067t6h9 , 9agar-a0a067tj80 , pleos-a0a067npl2 , 9agar-a0a067sm07 , 9agar-a0a067tar9 , 9agar-a0a067tid6 , 9agar-a0a067u335 , pleos-a0a067ndv5 , pleos-a0a067nqw6 , 9homo-a0a067pkj2 , 9agar-a0a067t683 , 9homo-a0a067mgl1 , 9agar-a0a067sg35 , 9homo-a0a067q7g6 , 9agar-a0a067tub0 , 9agar-a0a067t8f5 , 9agar-a0a067tj19 , 9homo-a0a067pyu9 , 9agar-a0a067tjp8 , 9agar-a0a067sjg9 , 9agar-a0a067u0h4 , pleos-a0a067nxe9 , 9agar-a0a067sqt2 , 9agar-a0a067tgx3 , 9homo-a0a067psv8 , 9agar-a0a067sq58 , 9homo-a0a067m4m0 , 9agar-a0a067tqz5 , pleos-a0a067new9 , 9homo-a0a067m9v3 , 9agar-a0a067tlx5 , 9agar-a0a067tfq4 , pleos-a0a067nln4 , pleos-a0a067ndf5 , pleos-a0a067nn26 , pleos-a0a067nfv2 , 9homo-a0a067pnd3 , 9agar-a0a067sw48 , pleos-a0a067neg3 , pleos-a0a067nz51 , pleos-a0a067naf9 , pleos-a0a067nad7 , 9agar-a0a067sxe2 , 9agar-a0a067slu3 , pleos-a0a067n7p8 , pleos-a0a067nl60 , pleos-a0a067ncd0 , 9agar-a0a067th99 , 9agar-a0a067sp22 , pleos-a0a067pbw7 , 9homo-a0a067q916 , 9homo-a0a067pwe5 , galm3-a0a067scb0 , galm3-popa

Related information

Gene_locus pleos-a0a067nlj6    9agar-a0a067t0n0    9agar-a0a067sha0    9homo-a0a067pav0    pleos-a0a067n337    9homo-a0a067pz82    9homo-a0a067m7p7    pleos-a0a067p245    9homo-a0a067lrz6    9homo-a0a067m4r5    9homo-a0a067mr63    9homo-a0a067mrq8    9agar-a0a067t4j6    9homo-a0a067pdz2    9homo-a0a067q2n9    9agar-a0a067tsx5    9homo-a0a067mfq5    9homo-a0a067qc90    pleos-a0a067p113    9homo-a0a067pwi6    9agar-a0a067s6d7    9agar-a0a067tie7    pleos-a0a067ngc3    9agar-a0a067st69    9agar-a0a067t6h9    9agar-a0a067tj80    pleos-a0a067npl2    9agar-a0a067sm07    9agar-a0a067tar9    9agar-a0a067tid6    9agar-a0a067u335    pleos-a0a067ndv5    pleos-a0a067nqw6    9homo-a0a067pkj2    9agar-a0a067t683    9homo-a0a067mgl1    9agar-a0a067sg35    9homo-a0a067q7g6    9agar-a0a067tub0    9agar-a0a067t8f5    9agar-a0a067tj19    9homo-a0a067pyu9    9agar-a0a067tjp8    9agar-a0a067sjg9    9agar-a0a067u0h4    pleos-a0a067nxe9    9agar-a0a067sqt2    9agar-a0a067tgx3    9homo-a0a067psv8    9agar-a0a067sq58    9homo-a0a067m4m0    9agar-a0a067tqz5    pleos-a0a067new9    9homo-a0a067m9v3    9agar-a0a067tlx5    9agar-a0a067tfq4    pleos-a0a067nln4    pleos-a0a067ndf5    pleos-a0a067nn26    pleos-a0a067nfv2    9homo-a0a067pnd3    9agar-a0a067sw48    pleos-a0a067neg3    pleos-a0a067nz51    pleos-a0a067naf9    pleos-a0a067nad7    9agar-a0a067sxe2    9agar-a0a067slu3    pleos-a0a067n7p8    pleos-a0a067nl60    pleos-a0a067ncd0    9agar-a0a067th99    9agar-a0a067sp22    pleos-a0a067pbw7    9homo-a0a067q916    9homo-a0a067pwe5    galm3-a0a067scb0    galm3-popa
Gene_locus_frgt pleos-a0a067nb12    pleos-a0a067nfa3    pleos-a0a067ngv1

Citations formats

Riley R, Salamov AA, Brown DW, Nagy LG, Floudas D, Held BW, Levasseur A, Lombard V, Morin E, Otillar R, Lindquist EA, Sun H, LaButti KM, Schmutz J, Jabbour D, Luo H, Baker SE, Pisabarro AG, Walton JD, Blanchette RA, Henrissat B, Martin F, Cullen D, Hibbett DS, Grigoriev IV (2014)
Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot\/brown-rot paradigm for wood decay fungi
Proc Natl Acad Sci U S A 111 :9923

Riley R, Salamov AA, Brown DW, Nagy LG, Floudas D, Held BW, Levasseur A, Lombard V, Morin E, Otillar R, Lindquist EA, Sun H, LaButti KM, Schmutz J, Jabbour D, Luo H, Baker SE, Pisabarro AG, Walton JD, Blanchette RA, Henrissat B, Martin F, Cullen D, Hibbett DS, Grigoriev IV (2014)
Proc Natl Acad Sci U S A 111 :9923