PMC:4148979 / 3383-5737
Annnotations
{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/4148979","sourcedb":"PMC","sourceid":"4148979","source_url":"http://www.ncbi.nlm.nih.gov/pmc/4148979","text":"Classification and features\nD. gibsoniae is a member of the phylum Firmicutes. Phylogenetic analysis of the 16S rRNA genes of D. gibsoniae shows that it clusters in Desulfotomaculum cluster 1, subgroup b. (Figure 1 [1]). Other species in this subgroup are D. geothermicum, D. arcticum, D. alcoholivorax, D. thermosapovorans, D. sapomandens and the non-Desulfotomaculum species Sporotomaculum hydroxybenzoicum and S. syntrophicum.\nFigure 1 Neighbor joining tree based on 16S rRNA gene sequences showing the phylogenetic affiliations of Desulfotomaculum and related species and highlighted to show the subgroups of Desulfotomaculum cluster 1. D. gibsoniae is printed in bold type. The recently described Desulfotomaculum defluvii (cluster 1a), Desulfotomaculum intricatum (cluster 1f), Desulfotomaculum peckii (cluster 1e), and Desulfotomaculum varum (cluster 1a) and the entire cluster 1g are not included in the tree. A set of Thermotogales species were used as outgroup, but were pruned from the tree. Closed circles represent bootstrap values between 75 and 100%. The scale bar represents 10% sequence difference. D. gibsoniae is a mesophilic sulfate reducer, with an optimum growth temperature between 35-37°C [1,2]. Fermentative and acetogenic growth was shown with pyruvate, crotonate, formate, H2 + CO2, and methoxylated aromatic compounds as substrates. In the presence of an electron acceptor it can completely oxidize substrates to CO2. Suitable electron acceptors are sulfate, thiosulfate and sulfite. The cells of D. gibsoniae are straight or slightly curved rods (1.0-2.5 × 4-7 μm) with pointed ends (Figure 2). Spores of D. gibsoniae are spherical and located in the center of the cells, causing swelling. A summary of the classification and general features of D. gibsoniae is presented in Table 1.\nFigure 2 Scanning electron micrograph of D. gibsoniae strain GrollT.\nTable 1 Classification and general features of D. gibsoniae strain GrollT (DSM 7213) according to the MIGS recommendations [5]. Evidence codes - TAS: Traceable Author Statement (i.e., a direct report exists in the literature); NAS: Non-traceable Author Statement (i.e., not directly observed for the living, isolated sample, but based on a generally accepted property for the species, or anecdotal evidence). Evidence codes are from the Gene Ontology project [17].\n\n","divisions":[{"label":"Title","span":{"begin":0,"end":27}},{"label":"Figure caption","span":{"begin":430,"end":1118}},{"label":"Figure caption","span":{"begin":1816,"end":1887}},{"label":"Table caption","span":{"begin":1886,"end":2353}},{"label":"Title","span":{"begin":1895,"end":2014}}],"tracks":[{"project":"2_test","denotations":[{"id":"25197466-10555363-140444915","span":{"begin":216,"end":217},"obj":"10555363"},{"id":"25197466-10555363-140444916","span":{"begin":1217,"end":1218},"obj":"10555363"},{"id":"25197466-8481092-140444917","span":{"begin":1219,"end":1220},"obj":"8481092"},{"id":"25197466-18464787-140444918","span":{"begin":2011,"end":2012},"obj":"18464787"},{"id":"25197466-10802651-140444953","span":{"begin":2348,"end":2350},"obj":"10802651"}],"attributes":[{"subj":"25197466-10555363-140444915","pred":"source","obj":"2_test"},{"subj":"25197466-10555363-140444916","pred":"source","obj":"2_test"},{"subj":"25197466-8481092-140444917","pred":"source","obj":"2_test"},{"subj":"25197466-18464787-140444918","pred":"source","obj":"2_test"},{"subj":"25197466-10802651-140444953","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#c393ec","default":true}]}]}}