新种，一种产生木薯渣降解酶的新型嗜温厌氧细菌。
sp. nov., a novel mesophilic anaerobic bacterium that produces cassava pulp-degrading enzymes.
作者信息
Cheawchanlertfa Pattsarun, Sutheeworapong Sawannee, Jenjaroenpun Piroon, Wongsurawat Thidathip, Nookaew Intawat, Cheevadhanarak Supapon, Kosugi Akihiko, Pason Patthra, Waeonukul Rattiya, Ratanakhanokchai Khanok, Tachaapaikoon Chakrit
机构信息
School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, Thailand.
Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand.
出版信息
PeerJ. 2020 Nov 16;8:e10343. doi: 10.7717/peerj.10343. eCollection 2020.
BACKGROUND
Cassava pulp is a promising starch-based biomasses, which consists of residual starch granules entrapped in plant cell wall containing non-starch polysaccharides, cellulose and hemicellulose. Strain CT4, a novel mesophilic anaerobic bacterium isolated from soil collected from a cassava pulp landfill, has a strong ability to degrade polysaccharides in cassava pulp. This study explored a rarely described species within the genus that possessed a group of cassava pulp-degrading enzymes.
METHODS
A novel mesophilic anaerobic bacterium, the strain CT4, was identified based on phylogenetic, genomic, phenotypic and chemotaxonomic analysis. The complete genome of the strain CT4 was obtained following whole-genome sequencing, assembly and annotation using both Illumina and Oxford Nanopore Technology (ONT) platforms.
RESULTS
Analysis based on the 16S rRNA gene sequence indicated that strain CT4 is a species of genus . Analysis of the whole-genome average amino acid identity (AAI) of strain CT4 and the other 665 closely related species of the genus revealed a separated strain CT4 from the others. The results revealed that the genome consisted of a 6.3 Mb circular chromosome with 5,664 protein-coding sequences. Genome analysis result of strain CT4 revealed that it contained a set of genes encoding amylolytic-, hemicellulolytic-, cellulolytic- and pectinolytic enzymes. A comparative genomic analysis of strain CT4 with closely related species with available genomic information, SW408, showed that strain CT4 contained more genes encoding cassava pulp-degrading enzymes, which comprised a complex mixture of amylolytic-, hemicellulolytic-, cellulolytic- and pectinolytic enzymes. This work presents the potential for saccharification of strain CT4 in the utilization of cassava pulp. Based on phylogenetic, genomic, phenotypic and chemotaxonomic data, we propose a novel species for which the name sp. nov. is suggested, with the type strain CT4 (= TBRC 11758 = NBRC 114534).
背景
木薯渣是一种很有前景的淀粉基生物质，它由包裹在含有非淀粉多糖、纤维素和半纤维素的植物细胞壁中的残留淀粉颗粒组成。菌株CT4是从木薯渣填埋场采集的土壤中分离出的一种新型嗜温厌氧菌，具有很强的降解木薯渣中多糖的能力。本研究探索了该属内一个鲜为人知的物种，其拥有一组木薯渣降解酶。
方法
基于系统发育、基因组、表型和化学分类分析鉴定了一种新型嗜温厌氧菌，即菌株CT4。使用Illumina和牛津纳米孔技术（ONT）平台进行全基因组测序、组装和注释后，获得了菌株CT4的完整基因组。
结果
基于16S rRNA基因序列的分析表明，菌株CT4是该属的一个物种。对菌株CT4与该属其他665个密切相关物种的全基因组平均氨基酸同一性（AAI）分析表明，菌株CT4与其他物种分离。结果显示，该基因组由一条6.3 Mb的环状染色体组成，含有5664个蛋白质编码序列。菌株CT4的基因组分析结果表明，它含有一组编码淀粉分解酶、半纤维素分解酶、纤维素分解酶和果胶分解酶的基因。对菌株CT4与具有可用基因组信息的密切相关物种SW408进行比较基因组分析表明，菌株CT4含有更多编码木薯渣降解酶的基因，这些酶由淀粉分解酶、半纤维素分解酶、纤维素分解酶和果胶分解酶的复杂混合物组成。这项工作展示了菌株CT4在木薯渣利用中糖化的潜力。基于系统发育、基因组、表型和化学分类数据，我们提出了一个新物种，建议命名为sp. nov.，模式菌株为CT4（=TBRC 11758=NBRC 114534）。
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