Diversity and Evolution of Clostridium beijerinckii and Complete Genome of the Type Strain DSM 791(T)

SEDLAR, Karel, Marketa NYKRYNOVA, Matěj BEZDÍČEK, Barbora BRANSKA, Martina LENGEROVÁ, Petra PATAKOVA and Helena SKUTKOVA. Diversity and Evolution of Clostridium beijerinckii and Complete Genome of the Type Strain DSM 791(T). PROCESSES. Vilnius: MDPI, 2021, vol. 9, No 7, p. 1-16. ISSN 2227-9717. Available from: https://dx.doi.org/10.3390/pr9071196.

Basic information

• Original name: Diversity and Evolution of Clostridium beijerinckii and Complete Genome of the Type Strain DSM 791(T)
• Authors: SEDLAR, Karel (203 Czech Republic, guarantor), Marketa NYKRYNOVA (203 Czech Republic), Matěj BEZDÍČEK (203 Czech Republic, belonging to the institution), Barbora BRANSKA (203 Czech Republic), Martina LENGEROVÁ (203 Czech Republic), Petra PATAKOVA (203 Czech Republic) and Helena SKUTKOVA (203 Czech Republic).
• Edition: PROCESSES, Vilnius, MDPI, 2021, 2227-9717.

Other information

• Original language: English
• Type of outcome: Article in a journal
• Field of Study: 30204 Oncology
• Country of publisher: Switzerland
• Confidentiality degree: is not subject to a state or trade secret
• WWW: URL
• Impact factor: Impact factor: 3.352
• RIV identification code: RIV/00216224:14110/21:00124062
• Organization unit: Faculty of Medicine
• Doi: http://dx.doi.org/10.3390/pr9071196
• UT WoS: 000676954500001
• Keywords in English: butanol; ABE; IBE; core genome; accessory genome; pan genome
• Tags: 14110212, rivok
• Tags: International impact, Reviewed

Abstract

Clostridium beijerinckii is a relatively widely studied, yet non-model, bacterium. While 246 genome assemblies of its various strains are available currently, the diversity of the whole species has not been studied, and it has only been analyzed in part for a missing genome of the type strain. Here, we sequenced and assembled the complete genome of the type strain Clostridium beijerinckii DSM 791(T), composed of a circular chromosome and a circular megaplasmid, and used it for a comparison with other genomes to evaluate diversity and capture the evolution of the whole species. We found that strains WB53 and HUN142 were misidentified and did not belong to the Clostridium beijerinckii species. Additionally, we filtered possibly misassembled genomes, and we used the remaining 237 high-quality genomes to define the pangenome of the whole species. By its functional annotation, we showed that the core genome contains genes responsible for basic metabolism, while the accessory genome has genes affecting final phenotype that may vary among different strains. We used the core genome to reconstruct the phylogeny of the species and showed its great diversity, which complicates the identification of particular strains, yet hides possibilities to reveal hitherto unreported phenotypic features and processes utilizable in biotechnology.