Counts of lignin and decay related enzymes in Chalara fraxinea/Hymenscyphus pseudoalbidus and known wood-rotting fungi

2014-04-23T16:01:19Z (GMT) by Dan MacLean
<p>The list of proteins in the TGAC 1.1 KW 1 genome assembly [2] of Chalara fraxinea and the list of wood decaying proteins in [1]  were used as input to BLAST searches to identify proteins with strong sequence identity in the Chalara (see [3] ). </p> <p>For each group in the Floudas decay-related list Chalara proteins were assayed to identify proteins in the with >50% sequence identity to the representative protein in at least 10 members. Counts of the number of Chalara proteins passing this threshold were used as the estimate of the number of members of each group in the Chalara genome. </p> <p> </p> <p>- Hpseu, Hymenoscyphus pseudoalbidus; Aurde, Auricularia delicata; Conpu, Coniophora puteana; Dacsp, Dacryopinax sp., Dicsqs, Dichomitus squalens; Fomme, Fomitiporia mediterranea; Fompi, Fomitopsis pinicola; Gt, Gloeophyllum trabeum; Punst, Punctularia strigosozonata; Stehi, Stereum hirsutum; Treme, Tremella mesenterica, Trave, Trametes versicolor; Wolco, Wolfiporia cocos. Others: Aspni, Aspergillus niger; Batde, Batrachochytrium dendrobatidis; Copci, Coprinopsis cinerea; Cn, Cryptococcus neoformans; Crypa, Cryphonectria parasitica; Hetan, Heterobasidion annosum; Lacbi, Laccaria bicolor; Malgi, Malassezia globosa; Mellp, Melampsora laricis-populina; Phybl, Phycomyces blakesleeanus; Phchr, Phanerochaete chrysosporium; Pospl, Postia placenta; Picst, Pichia stipitis; Schco, Schizophyllum commune; Serls, Serpula lacrymans; Stano, Stagonospora nodorum; Sporo, Sporobolomyces roseus; Trire, Trichoderma reesei; Ustma, Ustilago maydis. Genes: GH, glycoside hydrolases; CE, carbohydrate esterases; POD, class II peroxidases; MCO, multicopper oxidases; CRO, copper-radical oxidases; CDH, cellobiose dehydrogenase; cytb562, cytochrome b562; OXO, oxalate oxidase/decarboxylases; GLP, Fe(III)-reducing glycopeptides; QRD, quinone reductases; DyP, dye-decolorizing peroxidases; HTP, heme-thiolate peroxidases.</p>