Mohr, TeresaAliyu, HabibuKuchlin, RaphaelZwick, MichaelaCowan, Don A.Neumann, AnkeDe Maayer, Pieter2019-05-072019-05-072018Mohr, T., Aliyu, H., Küchlin, R. et al. 2018, 'Comparative genomic analysis of Parageobacillus thermoglucosidasius strains with distinct hydrogenogenic capacities', BMC Genomics, vol. 19, art. 880, pp. 1-10.1471-2164 (online)10.1186/s12864-018-5302-9http://hdl.handle.net/2263/69056Additional file 1: Growth curve and gas composition during the cultivation of P. thermoglucosidasius), DSM 2542T (A), DSM 2543 (B) and DSM 6285 (C), DSM 21625 (D). All strains were cultivated in quadruplicate in mLB medium with an initial gas atmosphere consisting of 50% CO and 50% air for 84 h.Additional file 2: Genomic relatedness among the four compared P. thermoglucosidasius strains. Calculation of the digital DNA-DNA hybridization (GGDC) [19] and OrthoANI [20] values for each paired combination of strains. The GGDC are the bottom and the OrthoANI the top values.Additional file 3: Annotations of the protein families shared and unique among the compared P. thermoglucosidasius strains. The protein family datasets which are shared between different combinations of the four compared strains or unique to a particular strain were functionally annotated by RAST [36], comparison against the Conserved Domain Database [37] and classification according to their COG function using EggNOG mapper [36]. The proportions (%) of proteins (unique to strains or shared among different combinations of strains) belonging to each COG are graphically presented.Additional file 4: SNPs occurring in the CODH-NiFe group 4a locus genes of the compared P. thermoglucosidasius strains. The number of SNPs occurring in the individual CODH-NiFe group 4a genes of particular strains are indicated. The number in brackets indicates the number of non-synonymous amino acid substitutions observed in the amino acid sequence alignments for each individual gene.BACKGROUND : The facultatively anaerobic thermophile Parageobacillus thermoglucosidasius produces hydrogen gas (H2) by coupling CO oxidation to proton reduction in the water-gas shift (WGS) reaction via a carbon monoxide dehydrogenase–hydrogenase enzyme complex. Although little is known about the hydrogenogenic capacities of different strains of this species, these organisms offer a potentially viable process for the synthesis of this alternative energy source. RESULTS : The WGS-catalyzed H2 production capacities of four distinct P. thermoglucosidasius strains were determined by cultivation and gas analysis. Three strains (DSM 2542T, DSM 2543 and DSM 6285) were hydrogenogenic, while the fourth strain (DSM 21625) was not. Furthermore, in one strain (DSM 6285) H2 production commenced earlier in the cultivation than the other hydrogenogenic strains. Comparative genomic analysis of the four strains identified extensive differences in the protein complement encoded on the genomes, some of which are postulated to contribute to the different hydrogenogenic capacities of the strains. Furthermore, polymorphisms and deletions in the CODH-NiFe hydrogenase loci may also contribute towards this variable phenotype. CONCLUSIONS : Disparities in the hydrogenogenic capacities of different P. thermoglucosidasius strains were identified, which may be correlated to variability in their global proteomes and genetic differences in their CODH-NiFe hydrogenase loci. The data from this study may contribute towards an improved understanding of WGS-catalysed hydrogenogenesis by P. thermoglucosidasius.en© The Author(s). 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License.Biohydrogen productionParageobacillus thermoglucosidasiusComparative genomicsDSM 6285Water-gas shift (WGS)Article