TABLE 2

Specific genes with functions related to plant cell wall decay investigated specifically in this studya

Gene by function (abbreviation)Transcriptome IDJGI protein IDFunction
Oxalate synthesis and oxalate decomposition
    Glyoxylate dehydrogenase (GlyD)TRINITY_DN33196_c1_g1121561Involved in oxalic acid synthesis
    Oxaloacetate acetylhydrolase (OahA)TRINITY_DN26529_c1_g1112832Involved in oxalic acid synthesis
    Oxalate decarboxylase (OxaD)TRINITY_DN21938_c3_g243912Involved in oxalate decomposition
Redox enzymes
    AA3 GMC oxidoreductase (AOx1)TRINITY_DN18773_c0_g144331Involved in oxidative depolymerization; likely source of H2O2
    AA3 GMC oxidoreductases (AOx2)TRINITY_DN20417_c3_g1129158Involved in oxidative depolymerization; likely source of H2O2
    AA3 GMC oxidoreductase (AOx3)TRINITY_DN28649_c4_g1118723Involved in oxidative depolymerization; likely source of H2O2
    AA3_3 alcohol oxidase (AOx4)TRINITY_DN21062_c1_g155972Involved in oxidative depolymerization; likely source of H2O2
    AA5 copper radical oxidase (Cro1)TRINITY_DN21070_c1_g156703Involved in oxidative depolymerization; likely source of H2O2
    AA5 copper radical oxidase (Cro2)TRINITY_DN9270_c1_g1104114Involved in oxidative depolymerization; likely source of H2O2
    AA6 benzoquinone reductases (BqR)TRINITY_DN21924_c2_g1124517Involved in oxidative depolymerization; possibly involved in reduction/regeneration of chelator/reductants
Cellulose degradation
    GH5 endoglucanase (Cel5a)TRINITY_DN26393_c3_g1_i1115648Major endocellulase
    GH5 endoglucanase (Cel5b)TRINITY_DN21725_c8_g1103675Major endocellulase
    GH12 glucoside hydrolase (XyGEg)TRINITY_DN33048_c6_g2121191Endoglucanase active on cellulose or xyloglucan
    AA9 lytic polysaccharide monooxygenase (LPMO)TRINITY_DN16131_c0_g1126811Polysaccharide depolymerization via oxidative cleavage of glycosidic bonds
    GH3 beta-glucosidase (βGlu)TRINITY_DN21749_c2_g1128500Hydrolyses cellobiose, releasing glucose
Hemicellulose and pectin degradation
    Endomannanase (Man5a)TRINITY_DN30802_c4_g1121831Involved in glucomannan depolymerization, highly expressed
    GH10 endoxylanase (Xyl10a)TRINITY_DN11072_c0_g2113670Involved in xylose depolymerization
    GH10b endoxylanase (Xyl10b)TRINITY_DN17151_c1_g1105534Involved in xylose depolymerization
    GH3 beta-xylosidase (βXyl)TRINITY_DN28569_c4_g151213Hemicellulose depolymerization
    CE16 carbohydrate esterase (CE16a)TRINITY_DN26470_c5_g1125801Deacetylation of polysaccharides
    CE16 carbohydrate esterase family 16 (CE16b)TRINITY_DN21066_c2_g648548Deacetylation of polysaccharides
    GH28 polygalacturonase (Gal28a)TRINITY_DN7127_c0_g2111730Involved pectin depolymerization
Expansins
    Exp1TRINITY_DN6700_c0_g2126976Most likely involved in increasing enzyme accessibility
    Exp2TRINITY_DN24238_c3_g1128179Most likely involved in increasing enzyme accessibility
  • a For identification, the transcriptome ID from our study (strain FPRL 280) and the JGI protein ID (strain MAD 698-R) are used.