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Genome comparison and transcriptome analysis of the invasive brown root rot pathogen, Phellinus noxius, from different geographic regions reveals potential enzymes associated with degradation of different wood substrates

Author(s):

Jorge R. Ibarra Caballero
Jessa P. Ata
K. A. Leddy
Travis C. Glenn
Troy J. Kieran
Jane E. Stewart

Year:

2020

Publication type:

Scientific Journal (JRNL)

Primary Station(s):

Rocky Mountain Research Station

Source:

Fungal Biology. 124: 144-154.

Description

Phellinus noxius is a root-decay pathogen with a pan-tropical/subtropical distribution that attacks a wide range of tree hosts. For this study, genomic sequencing was conducted on P. noxius isolate P919-02W.7 from Federated States of Micronesia (Pohnpei), and its gene expression profile was analyzed using different host wood (Acer, Pinus, Prunus, and Salix) substrates. The assembled genome was 33.92 Mbp with 2954 contigs and 9389 predicted genes. Only small differences were observed in size and gene content in comparison with two other P. noxius genome assemblies (isolates OVT-YTM/97 from Hong Kong, China and FFPRI411160 from Japan, respectively). Genome analysis of P. noxius isolate P919-02W.7 revealed 488 genes encoding proteins related to carbohydrate and lignin metabolism, many of these enzymes are associated with degradation of plant cell wall components. Most of the transcripts expressed by P. noxius isolate P919-02W.7 were similar regardless of wood substrates. This study highlights the vast suite of decomposing enzymes produced by P. noxius, which suggests potential for degrading diverse wood substrates, even from temperate host trees. This information contributes to our understanding of pathogen ecology, mechanisms of wood decomposition, and pathogenic/saprophytic lifestyle.

Citation

Caballero, Jorge R. Ibarra; Ata, Jessa P.; Leddy, K. A.; Glenn, Travis C.; Kieran, Troy J.; Klopfenstein, Ned B.; Kim, Mee-Sook; Stewart, Jane E. 2020. Genome comparison and transcriptome analysis of the invasive brown root rot pathogen, Phellinus noxius, from different geographic regions reveals potential enzymes associated with degradation of different wood substrates. Fungal Biology. 124: 144-154.

Cited

Publication Notes

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https://www.fs.usda.gov/treesearch/pubs/59409