Clostridium manihotivorum sp. nov., a novel mesophilic anaerobic bacterium that produces cassava pulp-degrading enzymes

PeerJ

article

Pattsarun Cheawchanlertfa¹  Sawannee Sutheeworapong²  Piroon Jenjaroenpun³  Thidathip Wongsurawat³  Intawat Nookaew⁴  Supapon Cheevadhanarak¹  Akihiko Kosugi⁶  Patthra Pason¹  Rattiya Waeonukul¹  Khanok Ratanakhanokchai¹  Chakrit Tachaapaikoon¹ 

[1] School of Bioresources and Technology, King Mongkut’s University of Technology Thonburi;Pilot Plant Development and Training Institute, King Mongkut’s University of Technology Thonburi;Division of Bioinformatics and Data Management for Research, Department of Research and Development, Faculty of Medicine, Siriraj Hospital, Mahidol University;Department of Biomedical Informatics, College of Medicine, University of Arkansas for Medical Sciences;Department of Physiology and Biophysics, College of Medicine, University of Arkansas for Medical Sciences;Biological Resources and Post-harvest Division, Japan International Research Center for Agricultural Sciences

关键词: Cassava pulp-degrading enzymes;    Clostridium species;    Complete genome sequence;    Illumina;    Mesophilic anaerobic bacterium;    Oxford nanopore technology;   

DOI  :  10.7717/peerj.10343

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

BackgroundCassava 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 CT4T, 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 Clostridium that possessed a group of cassava pulp-degrading enzymes.MethodsA novel mesophilic anaerobic bacterium, the strain CT4T, was identified based on phylogenetic, genomic, phenotypic and chemotaxonomic analysis. The complete genome of the strain CT4T was obtained following whole-genome sequencing, assembly and annotation using both Illumina and Oxford Nanopore Technology (ONT) platforms.ResultsAnalysis based on the 16S rRNA gene sequence indicated that strain CT4T is a species of genus Clostridium. Analysis of the whole-genome average amino acid identity (AAI) of strain CT4T and the other 665 closely related species of the genus Clostridium revealed a separated strain CT4T 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 CT4T revealed that it contained a set of genes encoding amylolytic-, hemicellulolytic-, cellulolytic- and pectinolytic enzymes. A comparative genomic analysis of strain CT4T with closely related species with available genomic information, C. amylolyticum SW408T, showed that strain CT4T 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 CT4T in the utilization of cassava pulp. Based on phylogenetic, genomic, phenotypic and chemotaxonomic data, we propose a novel species for which the name Clostridium manihotivorum sp. nov. is suggested, with the type strain CT4T (= TBRC 11758T = NBRC 114534T).

【 授权许可】

CC BY