Lignin degradation potential and draft genome sequence of Trametes trogii S0301 View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-10-30

AUTHORS

Yuan Liu, Yuanyuan Wu, Yu Zhang, Xulei Yang, En Yang, Huini Xu, Qiliang Yang, Irbis Chagan, Xiuming Cui, Weimin Chen, Jinping Yan

ABSTRACT

BackgroundTrametes trogii is a member of the white-rot fungi family, which has a unique ability to break down recalcitrant lignin polymers to CO2 and water, and they have enormous potential to biodegrade a wide range of toxic environmental pollutants. Because of its industrial potential, the identification of lignin-degrading enzyme systems in Trametes is an important area of research. Development and utilization of industrial value genes are suffering due to deficiency knowledge of genome available for their manipulation.ResultsIn the present study, Homokaryotic strains of T. trogii S0301 were screened and sequencing by PacBio Sequel II platform. The final draft genome is ~ 39.88 Mb, with a contig N50 size of 2.4 Mb, this was the first genome sequencing and assembly of T. trogii species. Further analyses predicted 14,508 protein-coding genes. Results showed that T. trogii S0301 contains 602 genes encoding CAZymes, include 211 glycoside hydrolase and 117 lignin-degrading family genes, nine laccases related genes. Small subunit ribosomal RNA gene (18S rRNA) sequencing confirms its phylogenetic position. Moreover, T. trogii S0301 has the largest number of cytochromes P450 (CYPs) superfamily genes compare to other fungi. All these results are consistent with enzymatic assays and transcriptome analysis results. We also analyzed other genome characteristics in the T. trogii S0301genome.ConclusionHere, we present a nearly complete genome for T. trogii S0301, which will help elucidate the biosynthetic pathways of the lignin-degrading enzyme, advancing the discovery, characterization, and modification of novel enzymes from this genus. This genome sequence will provide a valuable reference for the investigation of lignin degradation in the Trametes genus. More... »

PAGES

256

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/s13068-019-1596-3

DOI

http://dx.doi.org/10.1186/s13068-019-1596-3

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https://app.dimensions.ai/details/publication/pub.1122201608

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/31687044


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65 fungus family
66 gene sequencing
67 genes
68 genome
69 genome characteristics
70 genome sequence
71 genome sequencing
72 genus
73 glycoside hydrolase
74 homokaryotic strains
75 hydrolase
76 identification
77 important area
78 industrial potential
79 investigation
80 knowledge
81 laccases
82 large number
83 lignin degradation
84 lignin polymer
85 lignin-degrading enzyme system
86 lignin-degrading enzymes
87 manipulation
88 members
89 modification
90 novel enzyme
91 number
92 pathway
93 phylogenetic position
94 platform
95 pollutants
96 polymers
97 position
98 potential
99 present study
100 protein-coding genes
101 range
102 recalcitrant lignin polymer
103 reference
104 research
105 results
106 ribosomal RNA gene sequencing
107 sequence
108 sequencing
109 size
110 small subunit ribosomal RNA gene sequencing
111 strains
112 study
113 system
114 toxic environmental pollutants
115 transcriptome analysis results
116 unique ability
117 utilization
118 valuable reference
119 water
120 wide range
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