The first genome-level transcriptome of the wood-degrading fungus Phanerochaete chrysosporium grown on red oak

Shin Sato, F. Alex Feltus, Prashanti Iyer, Ming Tien

Research output: Contribution to journalReview article

44 Citations (Scopus)

Abstract

As part of an effort to determine all the gene products involved in wood degradation, we have performed massively parallel pyrosequencing on an expression library from the white rot fungus Phanerochaete chrysosporium grown in shallow stationary cultures with red oak as the carbon source. Approximately 48,000 high quality sequence tags (246 bp average length) were generated. 53% of the sequence tags aligned to 4,262 P. chrysosporium gene models, and an additional 18.5% of the tags reliably aligned to the P. chrysosporium genome providing evidence for 961 putative novel fragmented gene models. Due to their role in lignocellulose degradation, the secreted proteins were focused upon. Our results show that the four enzymes required for cellulose degradation: endocellulase, exocellulase CBHI, exocellulase CBHII, and β-glucosidase are all produced. For hemicellulose degradation, not all known enzymes were produced, but endoxylanases, acetyl xylan esterases and mannosidases were detected. For lignin degradation, the role of peroxidases has been questioned; however, our results show that lignin peroxidase is highly expressed along with the H2 O2 generating enzyme, alcohol oxidase. The transcriptome snapshot reveals that H2O2 generation and utilization are central in wood degradation. Our results also reveal new transcripts that encode extracellular proteins with no known function.

Original languageEnglish (US)
Pages (from-to)273-286
Number of pages14
JournalCurrent Genetics
Volume55
Issue number3
DOIs
StatePublished - Apr 27 2009

Fingerprint

Phanerochaete
Cellulases
Transcriptome
Fungi
acetylxylan esterase
Genome
alcohol oxidase
Enzymes
Mannosidases
Endo-1,4-beta Xylanases
Glucosidases
Genes
Peroxidases
Lignin
Cellulose
Proteolysis
Carbon
Proteins

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

Sato, Shin ; Feltus, F. Alex ; Iyer, Prashanti ; Tien, Ming. / The first genome-level transcriptome of the wood-degrading fungus Phanerochaete chrysosporium grown on red oak. In: Current Genetics. 2009 ; Vol. 55, No. 3. pp. 273-286.
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abstract = "As part of an effort to determine all the gene products involved in wood degradation, we have performed massively parallel pyrosequencing on an expression library from the white rot fungus Phanerochaete chrysosporium grown in shallow stationary cultures with red oak as the carbon source. Approximately 48,000 high quality sequence tags (246 bp average length) were generated. 53{\%} of the sequence tags aligned to 4,262 P. chrysosporium gene models, and an additional 18.5{\%} of the tags reliably aligned to the P. chrysosporium genome providing evidence for 961 putative novel fragmented gene models. Due to their role in lignocellulose degradation, the secreted proteins were focused upon. Our results show that the four enzymes required for cellulose degradation: endocellulase, exocellulase CBHI, exocellulase CBHII, and β-glucosidase are all produced. For hemicellulose degradation, not all known enzymes were produced, but endoxylanases, acetyl xylan esterases and mannosidases were detected. For lignin degradation, the role of peroxidases has been questioned; however, our results show that lignin peroxidase is highly expressed along with the H2 O2 generating enzyme, alcohol oxidase. The transcriptome snapshot reveals that H2O2 generation and utilization are central in wood degradation. Our results also reveal new transcripts that encode extracellular proteins with no known function.",
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The first genome-level transcriptome of the wood-degrading fungus Phanerochaete chrysosporium grown on red oak. / Sato, Shin; Feltus, F. Alex; Iyer, Prashanti; Tien, Ming.

In: Current Genetics, Vol. 55, No. 3, 27.04.2009, p. 273-286.

Research output: Contribution to journalReview article

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