Genomic and phenotypic comparison of polyhydroxyalkanoates producing strains of genus Caldimonas/ Schlegelella

Jana Musilova; Xenie Kourilova; Kristyna Hermankova; Matej Bezdicek; Anastasiia Ieremenko; Pavel Dvorak; Stanislav Obruca; Karel Sedlar

doi:10.1016/j.csbj.2023.10.051

Genomic and phenotypic comparison of polyhydroxyalkanoates producing strains of genus Caldimonas/ Schlegelella

Comput Struct Biotechnol J. 2023 Oct 30:21:5372-5381. doi: 10.1016/j.csbj.2023.10.051. eCollection 2023.

Authors

Jana Musilova¹, Xenie Kourilova², Kristyna Hermankova¹, Matej Bezdicek³, Anastasiia Ieremenko⁴, Pavel Dvorak⁴, Stanislav Obruca², Karel Sedlar^{1

5}

Affiliations

¹ Department of Biomedical Engineering, Faculty of Electrical Engineering and Communication, Brno University of Technology, Brno, Czech Republic.
² Department of Food Chemistry and Biotechnology, Faculty of Chemistry, Brno University of Technology, Brno, Czech Republic.
³ Department of Internal Medicine - Hematology and Oncology, University Hospital Brno, Brno, Czech Republic.
⁴ Department of Experimental Biology (Section of Microbiology, Microbial Bioengineering Laboratory), Faculty of Science, Masaryk University, Brno, Czech Republic.
⁵ Institute of Bioinformatics, Department of Informatics, Ludwig-Maximilians-Universität München, Munich, Germany.

Abstract

Polyhydroxyalkanoates (PHAs) have emerged as an environmentally friendly alternative to conventional polyesters. In this study, we present a comprehensive analysis of the genomic and phenotypic characteristics of three non-model thermophilic bacteria known for their ability to produce PHAs: Schlegelella aquatica LMG 23380^T, Caldimonas thermodepolymerans DSM 15264, and C. thermodepolymerans LMG 21645 and the results were compared with the type strain C. thermodepolymerans DSM 15344^T. We have assembled the first complete genomes of these three bacteria and performed the structural and functional annotation. This analysis has provided valuable insights into the biosynthesis of PHAs and has allowed us to propose a comprehensive scheme of carbohydrate metabolism in the studied bacteria. Through phylogenomic analysis, we have confirmed the synonymity between Caldimonas and Schlegelella genera, and further demonstrated that S. aquatica and S. koreensis, currently classified as orphan species, belong to the Caldimonas genus.

Keywords: Caldimonas; DSM 15264; DSM 15344T; LMG 21645; LMG 23380T; Next-Generation Industrial Biotechnology; PHAs; Schlegelella; de novo assembly.