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Table 4 Forty unique GH-like contig hits by BLAST analysis of secretome mass data against transcriptome assemblya

From: Functional characterization of cellulases identified from the cow rumen fungus Neocallimastix patriciarum W5 by transcriptomic and secretomic analyses

Contig name Putative GH family Gene length RPKMb
value
Accession number Enzyme annotation [species name] Mass spot hits (a: first batch; b: second batch; c: third batch)
(number: band ID on SDS-PAGE)
Contig18827 GH13 891 105.6 EEQ33998.1 1,4-α-glucan branching enzyme [Microsporum canis] b9
Contig148 GH13 819 19.8 XP_963252.2 1,4-α-glucan branching enzyme [Neurospora crassa] b9
Contig1907 GH1 882 757.2 CAC34952.1c β-glucosidase [Piromyces sp. E2] a3, a10, b4, b5, b6, b8, b9, b12
Contig11849 GH3 2,064 29.0 ZP_04746179.1 β-glucosidase [Roseburia intestinalis] b5
Contig4463 GH1 522 2,290.4 AAP30745.1c β-glucosidase Cel1C [Piromyces sp. E2] a11, b2, b4, b5, b10, b12
Contig16557 GH1 1,959 1,612.4 AAP30745.1c β-glucosidase Cel1C [Piromyces sp. E2] a3, a10, a11, b1, b2, b4, b5, b8, b9, b10, b12
Contig7663 GH1 1,959 1,096.6 AAP30745.1 c β-glucosidase Cel1C [Piromyces sp. E2] a3, a10, a11, b1, b2, b4, b5, b8, b9, b10, b12
Contig19120 GH1 1,548 166.5 AAP30745.1 c β-glucosidase Cel1C [Piromyces sp. E2] b1, b2, b5, b6
Contig8008 GH3 2,277 408.1 AAO41704.1 c β-glucosidase precursor [Piromyces sp. E2] b2, b3, b4, b5, b6, b8, b12
Contig2687 GH6 552 241.0 AAR08200.1 CelA [Neocallimastix frontalis] a11
Contig6374 GH6 1,854 24.7 AAM94167.1 c Cellulosomal exoglucanase Cel6A [Piromyces equi] b5
Contig12342 GH43 1,653 664.5 ZP_06201238.1 Conserved hypothetical protein [Bacteroides sp. D20] b12
Contig19148 GH10 519 7.8 YP_001181173.1 Endo-1,4-β-xylanase [Caldicellulosiruptor saccharolyticus] b4
Contig1253 GH43 2,103 236.9 ACZ98594.1 Endo-1,4-β-xylanase [Cellulosilyticum ruminicola] a11
Contig15284 GH11 1,137 341.8 ACL68347.1 Endo-1,4-β-xylanase [Neocallimastix patriciarum] b5
Contig8371 GH11 2,412 158.3 ACL68347.1 Endo-1,4-β-xylanase [Neocallimastix patriciarum] b3, b9
Contig19624 GH45 696 60.0 CAB92325.1 c Endoglucanase 45A [Piromyces equi] b3
Contig14117 GH11 1,017 159.8 CAA57820.1 Endoxylanase [Neocallimastix frontalis] b9
Contig18110 GH11 879 32.3 CAA57820.1 Endoxylanase [Neocallimastix frontalis] b9
Contig10964 GH18 687 82.7 YP_001643260.1 GH family protein [Bacillus weihenstephanensis] b4, b8
Contig6246 GH31 1,932 232.1 XP_002438844.1 Hypothetical protein [Sorghum bicolor] b2
Contig13446 GH31 3,237 301.4 XP_002109215.1 Hypothetical protein [Trichoplax adhaerens] a4
Contig2828 GH4 948 9,936.5 CAA76361.1 Malate dehydrogenase [Piromyces sp. E2] b8
Contig9297 GH10 993 984.7 AAB30669.1 Xylanase B; XYLB [Neocallimastix patriciarum] b2, b3, b4, b5, b10
Contig13211 GH10 819 352.0 AAB30669.1 Xylanase B; XYLB [Neocallimastix patriciarum] b2, b3, b5
Contig13165 GH10 990 205.1 AAB30669.1 Xylanase B; XYLB [Neocallimastix patriciarum] b3, b5, b10
Contig8421 GH10 1,998 138.5 AAB30669.1 Xylanase B; XYLB [Neocallimastix patriciarum] b9
Contig2430 GH10 1,098 132.9 AAB30669.1 Xylanase B; XYLB [Neocallimastix patriciarum] b10, b12
Contig3792 GH10 927 5.1 AAB30669.1 Xylanase B; XYLB [Neocallimastix patriciarum] a5
Contig11636 GH43 510 966.2 BAC75546.1 Xylosidase [Penicillium herquei] a1, c11
Contig8146 GH1 1,986 2,290.4 AAD45834.1 c β-glucosidase [Orpinomyces sp. PC-2] b2, b12
Contig13432 GH1 723 33.0 AAD45834.1 c β-glucosidase [Orpinomyces sp. PC-2] a8, a10, b5, b6
Contig13654 GH48 2,271 6,167.8 AAN76734.1 c Cellulase Cel48A precursor [Piromyces sp. E2] a2, a3, a10, a11, b10, b12
Contig4845 GH48 2,286 362.2 AAN76734.1 c Cellulase Cel48A precursor [Piromyces sp. E2] b10
Contig6576 GH48 1,896 351.4 AAN76734.1 c Cellulase Cel48A precursor [Piromyces sp. E2] a11
Contig69 GH48 1,179 141.9 AAN76734.1 c Cellulase Cel48A precursor [Piromyces sp. E2] a2, a3, b12
Contig2523 GH48 1,596 86.8 AAN76735.1 c Cellulase Cel48A precursor [Piromyces equi] a2, a11, b12
Contig6878 GH9 1,032 285.9 AAM81967.1 Cellulase Cel9A precursor [Piromyces sp. E2] b9
Contig8960 GH9 2,037 154.1 AAM81967.1 Cellulase Cel9A precursor [Piromyces sp. E2] b9
Contig7007 GH11 1,131 479.8 Q12667 Endo-1,4-β-xylanase A b2, b3, b4, b5
  1. aGH: glycosyl hydrolase; RPKM: Reads Per Kilobase of exon model per million mapped reads. bRPKM is a method for estimating relative expression levels of a transcriptome by normalizing short-read expressed tags from deep sequencing over ORF length and total reads (RPKM) [35]. cOnline protein sequences hits by using only ESI-Trap LC-MS/MS data against MASCOT online database.
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