Occurrence, phylogeny and evolution of ribulose-1,5-bisphosphate carboxylase/oxygenase genes in obligately chemolithoautotrophic sulfur-oxidizing bacteria of the genera Thiomicrospira and Thioalkalimicrobium

Tourova, T. P.; Spiridonova, Elizaveta M.; Berg, Ivan A.; Кузнецов, Б. Б.; Sorokin, Dimitry Y.

doi:10.1099/mic.0.28699-0

Cited by 34 publications

(27 citation statements)

References 47 publications

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“…Despite the good results previously obtained with these primers for the haloalkaliphilic SOB (Tourova et al, 2006(Tourova et al, , 2007, they gave positive amplification among the halophilic SOB only for representatives of the genera Halothiobacillus, Thiohalomonas, Thiohalophilus and Thiohalobacter. Of the other primer pairs tested (Table 1), the one specific for the 'green-like' form IA (Alfreider et al, 2003) gave the best results, but the amplified cbbL fragment only had a small overlap with the fragments obtained with the RubIgF/RubIgR primers and with most of the cbbL sequences deposited in GenBank.…”

Section: Resultscontrasting

confidence: 68%

“…(English et al, 1992), Halothiobacillus neapolitanus (Baker et al, 1998), Thiomonas intermedia (Stoner & Shively, 1993) and Thiomicrospira sp. (Tourova et al, 2006). However, most of the evidence was obtained for a single strain of a single species.…”

Section: Discussionmentioning

confidence: 99%

“…In our previous work, we characterized the cbb gene in pure cultures of haloalkaliphilic SOB belonging to the Thiomicrospira-Thioalkalimicrobium group (Tourova et al, 2006) and to the family Ectothiorhodospiraceae (Tourova et al, 2007). Recently, we discovered an unexpectedly high culturable diversity of moderately and extremely halophilic obligately chemolithoautotrophic SOB in sediments of various hypersaline habitats with neutral pH, including chloride-sulfate inland lakes in Mongolia, Russia and Ukraine, a sea saltern in Slovenia and deep-sea salt brine from the Mediterranean Sea (Sorokin et al, 2006a).…”

Section: Introductionmentioning

confidence: 99%

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Ribulose-1,5-bisphosphate carboxylase/oxygenase genes as a functional marker for chemolithoautotrophic halophilic sulfur-oxidizing bacteria in hypersaline habitats

et al. 2010

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The presence and diversity of the cbb genes encoding the large subunit of ribulose-1, 5-bisphosphate carboxylase/oxygenase (RuBisCO) (a key enzyme of the Calvin-Benson cycle of autotrophic CO 2 assimilation) were investigated in pure cultures of seven genera of halophilic chemolithoautotrophic sulfur-oxidizing bacteria (SOB) and in sediments from a hypersaline lake in which such bacteria have been recently discovered. All of the halophilic SOB strains (with the exception of Thiohalomonas nitratireducens) possessed the cbbL gene encoding RuBisCO form I, while the cbbM gene encoding RuBisCO form II was detected only in some of the pure cultures. The general topologies of the CbbL/CbbM trees and the 16S rRNA gene tree were different, but both markers showed that the halophilic SOB genera formed independent lineages in the Gammaproteobacteria. In some cases, such as with several strains of the genus Thiohalospira and with Thioalkalibacter halophilus, the cbbL clustering was incongruent with the positions of these strains on the ribosomal tree. In the cbbM tree, the clustering of Thiohalospira and Thiohalorhabdus strains was incongruent with their branching in both cbbL and 16S rRNA gene trees. cbbL and cbbM genes related to those found in the analysed halophilic SOB were also detected in a sediment from a hypersaline lake in Kulunda Steppe (Russia). Most of the cbbL and cbbM genes belonged to members of the genus Thiohalorhabdus. In the cbbL clone library, sequences related to those of Halothiobacillus and Thiohalospira were detected as minor components. Some of the environmental cbbM sequences belonged to as yet unknown phylotypes, representing deep lineages of halophilic autotrophs.

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Section: Resultscontrasting

confidence: 68%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Ribulose-1,5-bisphosphate carboxylase/oxygenase genes as a functional marker for chemolithoautotrophic halophilic sulfur-oxidizing bacteria in hypersaline habitats

et al. 2010

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“…it was shown that strain HL 5 T possessed two different cbbL genes of the 'green-like' form I and a cbbM gene of the form II of this enzyme, similar to the other species in the Thiomicrospira crunogena cluster, such as Hydrogenovibrio marinus (Yoshizawa et al, 2004), Thiomicrospira crunogena and Thiomicrospira kuenenii (Tourova et al, 2006). However, the G+C content in the genome of all three halophilic isolates was 56?1-57?1 mol%, which is 5-15 mol% higher than in the Thiomicrospira crunogena group (39?2-51?7 mol%).…”

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confidence: 75%

Thiomicrospira halophila sp. nov., a moderately halophilic, obligately chemolithoautotrophic, sulfur-oxidizing bacterium from hypersaline lakes

Sorokin

Tourova

Kolganova

et al. 2006

International Journal of Systematic and Evolutionary Microbiology

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Enrichments at 2 M NaCl and pH 7?5-8, with thiosulfate or sulfide as electron donor, inoculated with sediments from hypersaline chloride-sulfate lakes of the Kulunda Steppe (Altai, Russia) resulted in the domination of two different groups of moderately halophilic, chemolithoautotrophic, sulfur-oxidizing bacteria. Under fully aerobic conditions with thiosulfate, bacteria belonging to the genus Halothiobacillus dominated while, under microaerophilic conditions, a highly motile, short vibrio-shaped phenotype outcompeted the halothiobacilli. Three genetically and phenotypically highly similar vibrio-shaped isolates were obtained in pure culture and one of them, strain HL 5 T , was identified as a member of the Thiomicrospira crunogena cluster by 16S rRNA gene sequencing. The new isolates were able to grow with thiosulfate as electron donor within a broad salinity range from 0?5 to 3?5 M NaCl with an optimum at 1?5 M and within a pH range from 6?5 to 8?5 with an optimum at pH 7?5-7?8. Comparative analysis of ribulose-1,5-bisphosphate carboxylase/ oxygenase (RuBisCO) gene sequences demonstrated that strain HL 5 T possessed two genes, cbbL-1 and cbbL-2, of the form I RuBisCO and a cbbM gene of the form II RuBisCO, similar to the other members of the Thiomicrospira crunogena cluster. On the basis of phenotypic and genetic comparison, the new halophilic isolates are proposed to be placed into a novel species, Thiomicrospira halophila sp. nov. (type strain HL 5 T =DSM 15072 T =UNIQEM U 221 T ).

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“…The Calvin-BensonBassham cycle is the most common carbon fixation pathway for chemolithoautotrophic microorganisms. As one of the key enzymes for the Calvin cycle, Rubisco was particularly used for studying chemoautotrophic SOB in different habitats (Tourova, 2006;Tourova et al, 2010). The increased abundance of carbon fixation genes may be due to the thriving of chemoautotrophic SOB, although further phylogenetic studies are needed to support the hypothesis.…”

Section: Discussionmentioning

confidence: 99%

Microbial community functional structure in response to micro-aerobic conditions in sulfate-reducing sulfur-producing bioreactor

Chen

et al. 2014

Journal of Environmental Sciences

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a b s t r a c tLimited oxygen supply to anaerobic wastewater treatment systems had been demonstrated as an effective strategy to improve elemental sulfur (S 0 ) recovery, coupling sulfate reduction and sulfide oxidation. However, little is known about the impact of dissolved oxygen (DO) on the microbial functional structures in these systems. We used a high throughput tool (GeoChip) to evaluate the microbial community structures in a biological desulfurization reactor under micro-aerobic conditions (DO: 0.02-0.33 mg/L). The results indicated that the microbial community functional compositions and structures were dramatically altered with elevated DO levels. The abundances of dsrA/B genes involved in sulfate reduction processes significantly decreased (p < 0.05, LSD test) at relatively high DO concentration (DO: 0.33 mg/L). The abundances of sox and fccA/B genes involved in sulfur/sulfide oxidation processes significantly increased (p < 0.05, LSD test) in low DO concentration conditions (DO: 0.09 mg/L) and then gradually decreased with continuously elevated DO levels. Their abundances coincided with the change of sulfate removal efficiencies and elemental sulfur (S 0 ) conversion efficiencies in the bioreactor. In addition, the abundance of carbon degradation genes increased with the raising of DO levels, showing that the heterotrophic microorganisms (e.g., fermentative microorganisms) were thriving under micro-aerobic condition. This study provides new insights into the impacts of micro-aerobic conditions on the microbial functional structure of sulfatereducing sulfur-producing bioreactors, and revealed the potential linkage between functional microbial communities and reactor performance.

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Occurrence, phylogeny and evolution of ribulose-1,5-bisphosphate carboxylase/oxygenase genes in obligately chemolithoautotrophic sulfur-oxidizing bacteria of the genera Thiomicrospira and Thioalkalimicrobium

Cited by 34 publications

References 47 publications

Ribulose-1,5-bisphosphate carboxylase/oxygenase genes as a functional marker for chemolithoautotrophic halophilic sulfur-oxidizing bacteria in hypersaline habitats

Ribulose-1,5-bisphosphate carboxylase/oxygenase genes as a functional marker for chemolithoautotrophic halophilic sulfur-oxidizing bacteria in hypersaline habitats

Thiomicrospira halophila sp. nov., a moderately halophilic, obligately chemolithoautotrophic, sulfur-oxidizing bacterium from hypersaline lakes

Microbial community functional structure in response to micro-aerobic conditions in sulfate-reducing sulfur-producing bioreactor

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