Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts

Chan, Chai Ling; Yew, Su Mei; Ngeow, Yun Fong; Na, Shiang Ling; Lee, Kok Wei; Hoh, Chee-Choong; Yee, Wai-Yan; Ng, Kee Peng

doi:10.1186/s12864-015-2200-2

Title: Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts

Journal Article · Wed Nov 18 00:00:00 EST 2015 · BMC Genomics

DOI:https://doi.org/10.1186/s12864-015-2200-2· OSTI ID:1241130

Chan, Chai Ling ^[1]; Yew, Su Mei ^[1]; Ngeow, Yun Fong ^[2]; Na, Shiang Ling ^[1]; Lee, Kok Wei ^[3]; Hoh, Chee-Choong ^[3]; Yee, Wai-Yan ^[3]; Ng, Kee Peng ^[1]

Univ. of Malaya, Kual Lumpur (Malaysia). Department of Medical Microbiology
Univ. Tunku Abdul Rahman, Bandar Sungai Long, Selangor (Malaysia)
Codon Genomics, Jalan Dutamas, Selangor Darul Ehsan (Malaysia)

Background: Daldinia eschscholtzii is a wood-inhabiting fungus that causes wood decay under certain conditions. It has a broad host range and produces a large repertoire of potentially bioactive compounds. However, there is no extensive genome analysis on this fungal species. Results: Two fungal isolates (UM 1400 and UM 1020) from human specimens were identified as Daldinia eschscholtzii by morphological features and ITS-based phylogenetic analysis. Both genomes were similar in size with 10,822 predicted genes in UM 1400 (35.8 Mb) and 11,120 predicted genes in UM 1020 (35.5 Mb). A total of 751 gene families were shared among both UM isolates, including gene families associated with fungus-host interactions. In the CAZyme comparative analysis, both genomes were found to contain arrays of CAZyme related to plant cell wall degradation. Genes encoding secreted peptidases were found in the genomes, which encode for the peptidases involved in the degradation of structural proteins in plant cell wall. In addition, arrays of secondary metabolite backbone genes were identified in both genomes, indicating of their potential to produce bioactive secondary metabolites. Both genomes also contained an abundance of gene encoding signaling components, with three proposed MAPK cascades involved in cell wall integrity, osmoregulation, and mating/filamentation. Besides genomic evidence for degrading capability, both isolates also harbored an array of genes encoding stress response proteins that are potentially significant for adaptation to living in the hostile environments. In conclusion: Our genomic studies provide further information for the biological understanding of the D. eschscholtzii and suggest that these wood-decaying fungi are also equipped for adaptation to adverse environments in the human host.

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Research Organization:: Univ. of Malaya, Kual Lumpur (Malaysia). Department of Medical Microbiology

Sponsoring Organization:: USDOE Office of Science (SC)

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1241130

Journal Information:: BMC Genomics, Vol. 16, Issue 1; ISSN 1471-2164

Publisher:: SpringerCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 14 works

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MoFLP1, encoding a novel fungal fasciclin-like protein, is involved in conidiation and pathogenicity in Magnaporthe oryzae Liu, Tong-bao; Chen, Guo-qing; Min, Hang Journal of Zhejiang University SCIENCE B, Vol. 10, Issue 6 https://doi.org/10.1631/jzus.b0920017	journal	May 2009

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Diversity of biologically active secondary metabolites from endophytic and saprotrophic fungi of the ascomycete order Xylariales Helaly, Soleiman E.; Thongbai, Benjarong; Stadler, Marc Natural Product Reports, Vol. 35, Issue 9 https://doi.org/10.1039/c8np00010g	journal	January 2018
Current insights into fungal species diversity and perspective on naming the environmental DNA sequences of fungi Wu, Bing; Hussain, Muzammil; Zhang, Weiwei Mycology, Vol. 10, Issue 3 https://doi.org/10.1080/21501203.2019.1614106	journal	April 2019
A population genomics approach shows widespread geographical distribution of cryptic genomic forms of the symbiotic fungus Rhizophagus irregularis Savary, Romain; Masclaux, Frédéric G.; Wyss, Tania The ISME Journal, Vol. 12, Issue 1 https://doi.org/10.1038/ismej.2017.153	journal	October 2017

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Figures / Tables (8)

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Genome sequencing
Daldinia eschscholtzii
Wood-inhabiting endophyte
Wood-decaying fungi

Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts [Supplemental Data] Chan, Chai; Yew, Su; Ngeow, Yun https://doi.org/10.6084/m9.figshare.c.3616562 The current record is supplemented by this dataset	dataset	November 2015
Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts [Supplemental Data] Chan, Chai; Yew, Su; Ngeow, Yun https://doi.org/10.6084/m9.figshare.c.3616562.v1 The current record is supplemented by this collection	collection	November 2015
Additional file 1: Table S1. of Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts Chan, Chai; Yew, Su; Ngeow, Yun https://doi.org/10.6084/m9.figshare.c.3616562_d1 The current record is supplemented by this dataset	dataset	January 2015
Additional file 1: Table S1. of Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts Chan, Chai; Yew, Su; Ngeow, Yun https://doi.org/10.6084/m9.figshare.c.3616562_d1.v1 The current record is supplemented by this dataset	dataset	November 2015
Additional file 2: Figure S1. of Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts Chan, Chai; Yew, Su; Ngeow, Yun https://doi.org/10.6084/m9.figshare.c.3616562_d2 The current record is supplemented by this text	text	January 2015
Additional file 2: Figure S1. of Genome analysis of Daldinia eschscholtzii strains UM 1400 and UM 1020, wood-decaying fungi isolated from human hosts Chan, Chai; Yew, Su; Ngeow, Yun https://doi.org/10.6084/m9.figshare.c.3616562_d2.v1 The current record is supplemented by this dataset	dataset	November 2015