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Genome and transcriptome analysis of the lignite-degrading Trichoderma cf. simile WF8 strain highlights potential degradation mechanisms

文献类型： 外文期刊

作者： Yao, Jinghua 1 ; Chen, Yajuan 1 ; Zhuo, Deyu 1 ; Chen, Siqiao 2 ; Xu, Baichao 1 ; Yan, Congwei 1 ; Li, Wanrong 1 ; Feng, Hui 2 ; Deng, Sheng 2 ; Cai, Feng M. 5 ; Steindorff, Andrei S. 6 ; Druzhinina, Irina S. 7 ; Xiao, Lei 1 ; Wei, Lihui 2 ; Daly, Paul 2 ;

作者机构： 1.China Univ Min & Technol, Key Lab Coal Proc & Efficient Utilizat, Minist Educ, Xuzhou 221116, Jiangsu, Peoples R China

2.Jiangsu Acad Agr Sci, Inst Plant Protect, Key Lab Food Qual & Safety Jiangsu Prov, State Key Lab Breeding Base, 50 Zhongling St, Nanjing 210014, Jiangsu, Peoples R China

3.Nanjing Agr Univ, Key Lab Organ Based Fertilizers China, Nanjing 210095, Jiangsu, Peoples R China

4.Nanjing Agr Univ, Jiangsu Prov Key Lab Solid Organ Waste Utilizat, Nanjing 210095, Jiangsu, Peoples R China

5.Sun Yat Sen Univ, Sch Ecol, Shenzhen 518107, Peoples R China

6.US DOE, Joint Genome Inst, Berkeley, CA 94720 USA

7.Royal Bot Gardens, Richmond TW9 3AE, Surrey, England

关键词： Lignite biodegradation; Trichoderma; Polyaromatic compounds; Comparative genomics

期刊名称：INTERNATIONAL BIODETERIORATION & BIODEGRADATION （ 影响因子：4.1； 五年影响因子：4.3 ）

ISSN： 0964-8305

年卷期： 2025 年 198 卷

页码：

收录情况： SCI

摘要： The biodegradation of lignite (brown coal) by microorganisms has the potential for bioremediation of contaminated mining sites and to generate alternative ways to valorize lignite, such as by producing humic acids or building block chemicals. Previously, a lignite-degrading strain of Trichoderma was isolated, but the genomic and transcriptomic basis of its lignite-degrading ability remained unknown. Here we report that the sequenced genome of the T. cf. simile WF8 strain encoded for enzymes with roles in the degradation of lignite, and potentially tolerance to lignite-breakdown products. There was only a small number of annotated unique genes in the T. cf. simile WF8 genome compared to other fungi, and likely the expression of gene families shared with other fungi is a key factor in lignite biosolubilization by T. cf. simile. The transcriptomes were analyzed of T. cf. simile cultured at two time-points with the lignite-breakdown model compounds 4-phenoxybenzoic acid (which was growth inhibitory), and phenetole and 9-10-dibutoxyanthracene (neither of which inhibited growth), and showed similar to 20% of genes up-regulated by one or more of these compounds. The analysis highlights candidates for characterization and engineering enzyme over-expressing T. cf. simile strains with potentially improved degradation capacity, e.g., laccases and peroxidases, or tolerance and catabolism of breakdown products, e.g., cytochrome P450s, and ring cleavage dioxygenases.

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