Genome analyses of the carboxydotrophic sulfate-reducers Desulfotomaculum nigrificans and Desulfotomaculum carboxydivorans and reclassification of Desulfotomaculum caboxydivorans as a later synonym of Desulfotomaculum nigrificans
Michael Visser,Sofiya N. Parshina,Joana I. Alves,Diana Z. Sousa,Diana Z. Sousa,Inês A. C. Pereira,Gerard Muyzer,Jan Kuever,Alexander V. Lebedinsky,Jasper J. Koehorst,Petra Worm,Caroline M. Plugge,Peter J. Schaap,Lynne Goodwin,Lynne Goodwin,Alla Lapidus,Alla Lapidus,Nikos C. Kyrpides,J. C. Detter,Tanja Woyke,Patrick S. G. Chain,Patrick S. G. Chain,Karen W. Davenport,Karen W. Davenport,Stefan Spring,Manfred Rohde,Hans-Peter Klenk,Alfons J. M. Stams,Alfons J. M. Stams +28 more
TLDR
The genomes of both strains were compared to reveal their differences and led to a reclassification of D. carboxydivorans as a later heterotypic synonym ofD.Abstract:
Desulfotomaculum nigrificans and D. carboxydivorans are moderately thermophilic members of the polyphyletic spore-forming genus Desulfotomaculum in the family Peptococcaceae. They are phylogenetically very closely related and belong to ‘subgroup a’ of the Desulfotomaculum cluster 1. D. nigrificans and D. carboxydivorans have a similar growth substrate spectrum; they can grow with glucose and fructose as electron donors in the presence of sulfate. Additionally, both species are able to ferment fructose, although fermentation of glucose is only reported for D. carboxydivorans. D. nigrificans is able to grow with 20% carbon monoxide (CO) coupled to sulfate reduction, while D. carboxydivorans can grow at 100% CO with and without sulfate. Hydrogen is produced during growth with CO by D. carboxydivorans. Here we present a summary of the features of D. nigrificans and D. carboxydivorans together with the description of the complete genome sequencing and annotation of both strains. Moreover, we compared the genomes of both strains to reveal their differences. This comparison led us to propose a reclassification of D. carboxydivorans as a later heterotypic synonym of D. nigrificans.read more
Citations
More filters
Book ChapterDOI
A Post-Genomic View of the Ecophysiology, Catabolism and Biotechnological Relevance of Sulphate-Reducing Prokaryotes
Ralf Rabus,Sofia S. Venceslau,Lars Wöhlbrand,Gerrit Voordouw,Judy D. Wall,Inês A. C. Pereira +5 more
TL;DR: The wealth of publications in this period is a testimony to the large environmental, biogeochemical and technological relevance of these organisms and how much the field has progressed in these years, although many important questions and applications remain to be explored.
Journal ArticleDOI
Review of Desulfotomaculum species and proposal of the genera Desulfallas gen. nov., Desulfofundulus gen. nov., Desulfofarcimen gen. nov. and Desulfohalotomaculum gen. nov.
TL;DR: The results of phylogenetic analysis demonstrated that the genus Desulfotomaculum already has lost the clustering monophyly and was segregated into some distinct groups with low sequence similarity.
Journal ArticleDOI
Notification of changes in taxonomic opinion previously published outside the IJSEM
Aharon Oren,George M. Garrity +1 more
TL;DR: The List of Changes in Taxonomic Opinion must be considered as a service to bacteriology and it has no ‘official character’, other than providing a centralized point for registering/indexing such changes in a way that makes them easily accessible to the scientific community.
Journal ArticleDOI
Genomic Insights Into Energy Metabolism of Carboxydocella thermautotrophica Coupling Hydrogenogenic CO Oxidation With the Reduction of Fe(III) Minerals.
Stepan V. Toshchakov,Stepan V. Toshchakov,Alexander V. Lebedinsky,T. G. Sokolova,D. G. Zavarzina,Alexei A. Korzhenkov,Alina V. Teplyuk,N. I. Chistyakova,Vyacheslav S. Rusakov,Elizaveta A. Bonch-Osmolovskaya,Ilya V. Kublanov,Sergey N. Gavrilov +11 more
TL;DR: The first comprehensive genome analysis of a representative of the deep phylogenetic branch Clostridia Incertae Sedis, family V, provides insights into energy metabolism of C. thermautotrophica with an emphasis on its ecological implications.
Journal ArticleDOI
Engineering of vitamin prototrophy in Clostridium ljungdahlii and Clostridium autoethanogenum.
Florence J. Annan,Bakir Al-Sinawi,Christopher M. Humphreys,Rupert Norman,Klaus Winzer,Michael Köpke,Sean Dennis Simpson,Nigel P. Minton,Anne M. Henstra +8 more
TL;DR: Analysis of the genome sequences revealed that three genes were missing from pantothenate and thiamine biosynthetic pathways, and five genes were absent from the pathway for biotin biosynthesis, raising questions whether alternative steps exist in biotin and thienine biosynthesis pathways in these acetogens.
References
More filters
Journal ArticleDOI
Sulfate-free growth of clostridium nigrificans.
TL;DR: Almost every field examined, it was apparent that the organisms were pleomorphic in this preparation, since both rather long rods and coccobacillary forms were observed.
Book ChapterDOI
Distribution and Mechanism of the Type I CRISPR-Cas Systems
TL;DR: This review includes an analysis of the distribution of CRISPR-Cas systems among the different bacterial and archaeal lineages, and will focus on the mechanistic understanding of the type I-E system of Escherichia coli.
Journal ArticleDOI
Desulfotomaculum defluvii sp. nov., a sulfate-reducing bacterium isolated from the subsurface environment of a landfill.
Srinivasan Krishnamurthi,Stefan Spring,Pinnaka Anil Kumar,Shanmugam Mayilraj,Hans-Peter Klenk,Korpole Suresh +5 more
TL;DR: P phenotypic and genotypic data showed that strain A5LFS102(T) should be recognized as representative of a novel species of the genus Desulfotomaculum, for which the name Desulfotomyaculum defluvii sp.