Phylogenetic assessment of culture collection strains of Thiobacillus thioparus, and definitive 16S rRNA gene sequences for T. thioparus, T. denitrificans, and Halothiobacillus neapolitanus

Abstract

The 16S rRNA gene sequences of 12 strains of Thiobacillus thioparus held by diVerent culture collections have been compared. A deWnitive sequence for the reference type strain (Starkey; ATCC 8158T) was obtained. The sequences for four examples of the Starkey type strain were essentially identical, conWrming their sustained identity after passage through diVerent laboratories. One strain (NCIMB 8454) was reassigned as a strain of Halothiobacillus neapolitanus, and a second (NCIMB 8349) was a species of Thermithiobacillus. These two strains have been renamed in their catalog by the National Collection of Industrial and Marine Bacteria. The 16S rRNA gene sequence of the type strain of Halothiobacillus neapolitanus (NCIMB 8539T) was determined and used to conWrm the identity of other culture collection strains of this species. The reference sequences for the type strains of Thiobacillus thioparus and Halothiobacillus neapolitanus have been added to the online List of Prokaryotic Names with Standing in Nomenclature. Comparison of the 16S rRNA gene sequences available for strains of Thiobacillus denitriWcans indicated that the sequence for the type strain (NCIMB 9548T) should always be use

Permanent draft genome of Thiobacillus thioparus DSM 505T, an obligately chemolithoautotrophic member of the Betaproteobacteria

“…Energy sources that support autotrophic growth of DSM 505 T include thiosulfate, trithionate, tetrathionate, pentathionate, hexathionate, thiocyanate and dithionate. Some bone fide strains of T. thioparus (Tk-m and E6) grow autotrophically on carbon disulfide, dimethylsulfide, dimethyldisulfide and Admidate ( O,O -dimethylphosphoramidothioate) [4], but it is not known if the type strain DSM 505 T is capable of this. Autotrophic growth is not supported by Fe(II), Mn(II), Cu(I), U(IV), sulfite, dimethylsulfoxide, dimethylsulfone, pyrite or formate.…”

“…Interestingly, Smith detected fumarase activity; however, this strain of T. thioparus was isolated by the authors themselves and was not DSM 505 T , so there may be further variation of Smith’s horseshoe at strain level. With many species having been erroneously classified as strains of T. thioparus in the past that have subsequently been proven to belong to other genera [4] it is also plausible that Smith’s strain was from another specie, genus or even Class. The E1, E2 and E3 subunit genes for α -ketoglutarate dehydrogenase were identified in the genome of T. denitrificans ATCC 25259 T [32], though enzyme activity was also absent in this strain [29, 33].…”

“…The original isolates were lost, but Thiobacillus thioparus is now the type species of the genus (a member of the Betaproteobacteria ) and the type strain is an isolate from Starkey (1934) (= Culture C T = DSM 505 T = ATCC 8158 T = CIP 104484 T = JCM 3859 T = NBRC 103402 T ) [3, 4]. Originally, the characteristic of utilizing inorganic sulfur compounds as an energy source was thought to be a taxonomic trait unique to Thiobacillus and at its height the genus contained in at least 32 different ‘species’ [4]. With phylogenetic methods however, many of these strains have since been reassigned to different, often new genera with T. thioparus DSM 505 T being one of four species with validly published names left in the genus.…”

Simultaneous removal of perchlorate and nitrate in a combined reactor of sulfur autotrophy and electrochemical hydrogen autotrophy

“…were reported that they could reduce NO 3 À and ClO 4 À under autotrophic conditions [47,48]. The sequence of [49]. These results illustrates that some NO 3 À reducer adapted to utilize ClO 4 À as an electron acceptor.…”

Occurrence of sulphate reducing bacteria (SRB) associated with biocorrosion on metallic surfaces in a hydroelectric power station in Ibirama (SC) - Brazil

“…Purified DNA is representative of all the microorganisms present in a sample; amplification with specific primers for particular DNA sequences allows only the target organisms to be identified among the others (Ben-Dov et al 2007;Boden et al 2012). The use of these methods allows direct access to information about the structure of biofilms communities.…”