Lignolytic-consortium omics analyses reveal novel genomes and pathways involved in lignin modification and valorization.
Lignolytic-consortium omics analyses reveal novel genomes and pathways involved in lignin modification and valorization.
复制标题
DOI：
10.1186/s13068-018-1073-4
复制
发表时间：
2018
影响因子：
6.3
通讯作者：
Squina FM
中科院分区：
文献类型：
--
作者：
Moraes EC;Alvarez TM;Persinoti GF;Tomazetto G;Brenelli LB;Paixão DAA;Ematsu GC;Aricetti JA;Caldana C;Dixon N;Bugg TDH;Squina FM
木质素是一种多相聚合物，代表了化学工业中芳香族和酚类生物衍生产品的可再生来源。然而，木质素固有的结构复杂性和难降解性使其转化为有价值的化学品成为一个挑战。天然微生物群落产生源自大量微生物的生物催化剂，包括那些被认为不可培养的微生物，其协同作用以进行各种生物转化过程。因此，宏基因组学方法是揭示木质素转化和稳定的新的优化代谢途径的有力工具。木质素降解财团（LigMet）从甘蔗种植园土壤样品中获得。LigMet分类分析（基于16 S rRNA）表明变形菌门，放线菌门和厚壁菌门成员，包括产碱菌科和微球菌科，这是丰富的LigMet相比，甘蔗土壤的患病率。全球DNA测序分析揭示了大约24万个基因模型，预测了65个细菌基因组草案。沿着描述了几种过氧化物酶、染料脱色过氧化物酶、漆酶、碳水化合物酯酶和木质纤维素辅助（氧化还原）活性，确定了与芳香族降解相关的主要途径，包括苯甲酸酯（或甲基苯甲酸酯）降解为邻苯二酚（或甲基邻苯二酚）、邻苯二酚邻位裂解、邻苯二酚间位裂解和邻苯二甲酸酯降解。从LigMet中分离出一种新的Paenarthrobacter菌株，该菌株含有8个与芳香族降解相关的基因簇，并且能够以木质素为主要碳源生长。此外，基于从宏基因组数据集检索的编码阿魏酰-CoA合成酶和烯酰-CoA水合酶/醛缩酶的新基因序列，设计了用于香草醛生产的重组途径。在本研究中描述的富集方案是成功的微生物聚生体建立对木质素和芳香族代谢，提供合成生物工程方法的途径和酶集。这项工作代表了基于宏基因组学的木质素转化和稳定策略的开创性研究，揭示了几种新型木质素转化酶，芳香族降解细菌基因组和一种具有潜在生物技术兴趣的新型细菌菌株。香草醛合成的生物合成途径的验证证实了靶向宏基因组发现方法对于木质素价值稳定策略的适用性。本文的在线版本（10.1186/s13068-018-1073-4）包含补充材料，可供授权用户使用。
Lignin is a heterogeneous polymer representing a renewable source of aromatic and phenolic bio-derived products for the chemical industry. However, the inherent structural complexity and recalcitrance of lignin makes its conversion into valuable chemicals a challenge. Natural microbial communities produce biocatalysts derived from a large number of microorganisms, including those considered unculturable, which operate synergistically to perform a variety of bioconversion processes. Thus, metagenomic approaches are a powerful tool to reveal novel optimized metabolic pathways for lignin conversion and valorization. The lignin-degrading consortium (LigMet) was obtained from a sugarcane plantation soil sample. The LigMet taxonomical analyses (based on 16S rRNA) indicated prevalence of Proteobacteria, Actinobacteria and Firmicutes members, including the Alcaligenaceae and Micrococcaceae families, which were enriched in the LigMet compared to sugarcane soil. Analysis of global DNA sequencing revealed around 240,000 gene models, and 65 draft bacterial genomes were predicted. Along with depicting several peroxidases, dye-decolorizing peroxidases, laccases, carbohydrate esterases, and lignocellulosic auxiliary (redox) activities, the major pathways related to aromatic degradation were identified, including benzoate (or methylbenzoate) degradation to catechol (or methylcatechol), catechol ortho-cleavage, catechol meta-cleavage, and phthalate degradation. A novel Paenarthrobacter strain harboring eight gene clusters related to aromatic degradation was isolated from LigMet and was able to grow on lignin as major carbon source. Furthermore, a recombinant pathway for vanillin production was designed based on novel gene sequences coding for a feruloyl-CoA synthetase and an enoyl-CoA hydratase/aldolase retrieved from the metagenomic data set. The enrichment protocol described in the present study was successful for a microbial consortium establishment towards the lignin and aromatic metabolism, providing pathways and enzyme sets for synthetic biology engineering approaches. This work represents a pioneering study on lignin conversion and valorization strategies based on metagenomics, revealing several novel lignin conversion enzymes, aromatic-degrading bacterial genomes, and a novel bacterial strain of potential biotechnological interest. The validation of a biosynthetic route for vanillin synthesis confirmed the applicability of the targeted metagenome discovery approach for lignin valorization strategies. The online version of this article (10.1186/s13068-018-1073-4) contains supplementary material, which is available to authorized users.
登录
查看更多内容
影响因子：
3.7
作者：
Chattoraj P;Yang Q;Khandai A;Al-Hendy O;Ismail N
通讯作者：
Ismail N
影响因子：
3.2
作者：
BURLINGAME, R;CHAPMAN, PJ
通讯作者：
CHAPMAN, PJ
DOI：
10.1038/ismej.2012.8
发表时间：
2012-08
期刊：
The ISME journal
影响因子：
--
作者：
通讯作者：
--
影响因子：
5.4
作者：
Blanco-Moreno, Rafael;Saez, Lara P.;Moreno-Vivian, Conrado
通讯作者：
Moreno-Vivian, Conrado
影响因子：
14.9
作者：
ASLANIDIS, C;DEJONG, PJ
通讯作者：
DEJONG, PJ