Effect of Cultivation Conditions on the Growth and Activities of Sulfur Metabolism Enzymes and Carboxylases of Sulfobacillus thermosulfidooxidans subsp. asporogenes Strain 41

Егорова, М.А.; Цаплина, И. А.; Zakharchuk, L. M.; Bogdanova, T. I.; Krasil’nikova, E. N.

doi:10.1023/b:abim.0000033915.97286.0e

Cited by 12 publications

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“…Three 5S, 16S, and 23S partial operons were found. Carbon and sulfur metabolism enzymes described previously have also been identified (1). Differences between arsenic resistances in the arsRB operon were found.…”

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confidence: 53%

Draft Genome Sequence of the Sulfobacillus thermosulfidooxidans Cutipay Strain, an Indigenous Bacterium Isolated from a Naturally Extreme Mining Environment in Northern Chile

Travisany

Génova

Sepúlveda³

et al. 2012

J Bacteriol

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Sulfobacillus thermosulfidooxidans strain Cutipay is a mixotrophic, acidophilic, moderately thermophilic bacterium isolated from mining environments of the north of Chile, making it an interesting subject for studying the bioleaching of copper. We introduce the draft genome sequence and annotation of this strain, which provide insights into its mechanisms for heavy metal resistance. Sulfobacillus thermosulfidooxidans strain Cutipay has been identified as a sulfur-and iron-oxidizing, Gram-positive, sporulating, acidophilic, and moderately thermophilic bacterium. It was microbiologically characterized as having an optimum growth temperature of 45°C and an optimum pH range of 2.0 to 2.5 when growing in the presence of Fe 2ϩ and/or sulfur supplemented with yeast extract. It was originally named Cutipay from the indigenous Mapudungun word meaning "coming from the water," because it was isolated from naturally occurring effluents in the extreme mining environment of the north of Chile. Using phylogenetic analyses, it was identified as a Sulfobacillus thermosulfidooxidans species first described by Golovacheva and Karaviako in 1978 (2).The draft genome sequence of S. thermosulfidooxidans strain Cutipay was determined by whole-genome shotgun sequencing using a mixed technology strategy consisting of a run of the Ion Torrent PGM 316 Chip (8) on an unpaired library and two runs of the Roche 454 -GS Junior pyrosequencing platform (6) on one 3-kb mate pair library and 1 unpaired library generating a 116ϫ coverage. Assembly was performed using wgs-assembler (Celera Assembler) version 7 (7). Identification of coding regions and annotation were performed using protocols described in references 3 and 5.The Sulfobacillus thermosulfidooxidans Cutipay strain draft genome was assembled in 47 contigs. Using mate information, the final assembly has 3,862,012 total bp in 35 scaffolds. The maximum scaffold length is 1,134,202 bp, and the minimum length is 1,007 bp. The scaffold length has a mean of 110,343 bp, a median of 30,355 bp, and an N 50 length of 509,367 bp, while the genome has a GC content of 49.3%, which is similar to that of Sulfobacillus thermosulfidooxidans subspecies thermotolerans (4).According to our analysis, 3,600 putative genes and 54 tRNAs were predicted. Three 5S, 16S, and 23S partial operons were found. Carbon and sulfur metabolism enzymes described previously have also been identified (1). Differences between arsenic resistances in the arsRB operon were found. The arsRB operon includes arsR regulator, arsB arsenite efflux pump, kumamolisin-As precursor, and glycosyl transferase codifying genes previously described in S. thermosulfidooxidans strain VKM B-1269 (9, 10). We have found another open reading frame (ORF) with no homology between the genes for glycosyl transferase and kumamolisin-As precursor present in S. thermosulfidooxidans strain Cutipay and a putative arsC in another region of the genome. The arsC gene codes for an arsenate reductase not previously described in S. thermosulfidooxidans (9, 10), indic...

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confidence: 53%

Draft Genome Sequence of the Sulfobacillus thermosulfidooxidans Cutipay Strain, an Indigenous Bacterium Isolated from a Naturally Extreme Mining Environment in Northern Chile

Travisany

Génova

Sepúlveda³

et al. 2012

J Bacteriol

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“…Tetrathionate can be disproportionated by tetrathionate hydrolase (TTH) into sulfate, thiosulfate, and other sulfur compounds [ 81 – 83 ]. TTH activity has been detected in a strain of S. thermosulfidooxidans [ 84 ], and tetrathionate oxidation is widespread amongst Sulfobacillus isolates [ 85 ]. TTH homologs were found in all but AMDSBA3 of the Sulfobacillus genomes (Figure 3 , Additional file 5 : Table S2).…”

Section: Resultsmentioning

confidence: 99%

Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms

et al. 2014

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BackgroundBacteria of the genus Sulfobacillus are found worldwide as members of microbial communities that accelerate sulfide mineral dissolution in acid mine drainage environments (AMD), acid-rock drainage environments (ARD), as well as in industrial bioleaching operations. Despite their frequent identification in these environments, their role in biogeochemical cycling is poorly understood.ResultsHere we report draft genomes of five species of the Sulfobacillus genus (AMDSBA1-5) reconstructed by cultivation-independent sequencing of biofilms sampled from the Richmond Mine (Iron Mountain, CA). Three of these species (AMDSBA2, AMDSBA3, and AMDSBA4) have no cultured representatives while AMDSBA1 is a strain of S. benefaciens, and AMDSBA5 a strain of S. thermosulfidooxidans. We analyzed the diversity of energy conservation and central carbon metabolisms for these genomes and previously published Sulfobacillus genomes. Pathways of sulfur oxidation vary considerably across the genus, including the number and type of subunits of putative heterodisulfide reductase complexes likely involved in sulfur oxidation. The number and type of nickel-iron hydrogenase proteins varied across the genus, as does the presence of different central carbon pathways. Only the AMDSBA3 genome encodes a dissimilatory nitrate reducatase and only the AMDSBA5 and S. thermosulfidooxidans genomes encode assimilatory nitrate reductases. Within the genus, AMDSBA4 is unusual in that its electron transport chain includes a cytochrome bc type complex, a unique cytochrome c oxidase, and two distinct succinate dehydrogenase complexes.ConclusionsOverall, the results significantly expand our understanding of carbon, sulfur, nitrogen, and hydrogen metabolism within the Sulfobacillus genus.Electronic supplementary materialThe online version of this article (doi:10.1186/1471-2164-15-1107) contains supplementary material, which is available to authorized users.

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“…Besides, some steps occur spontaneously, without enzymatic catalysis in the oxidation of ISCs. Previous studies of S. thermosulfidooxidans detected several enzymatic activities involved in the oxidation of ISCs, but the specific genes related with these activities were not identified [39], [40]. Based on genome analysis, more than 30 genes encoding enzymes and electron transfer proteins predicted to be involved in the oxidation of inorganic sulfur compounds (ISCs) were detected in the genome (Table S4 in File S1).…”

Section: Resultsmentioning

confidence: 99%

Comparative Genome Analysis Reveals Metabolic Versatility and Environmental Adaptations of Sulfobacillus thermosulfidooxidans Strain ST

et al. 2014

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The genus Sulfobacillus is a cohort of mildly thermophilic or thermotolerant acidophiles within the phylum Firmicutes and requires extremely acidic environments and hypersalinity for optimal growth. However, our understanding of them is still preliminary partly because few genome sequences are available. Here, the draft genome of Sulfobacillus thermosulfidooxidans strain ST was deciphered to obtain a comprehensive insight into the genetic content and to understand the cellular mechanisms necessary for its survival. Furthermore, the expressions of key genes related with iron and sulfur oxidation were verified by semi-quantitative RT-PCR analysis. The draft genome sequence of Sulfobacillus thermosulfidooxidans strain ST, which encodes 3225 predicted coding genes on a total length of 3,333,554 bp and a 48.35% G+C, revealed the high degree of heterogeneity with other Sulfobacillus species. The presence of numerous transposases, genomic islands and complete CRISPR/Cas defence systems testifies to its dynamic evolution consistent with the genome heterogeneity. As expected, S. thermosulfidooxidans encodes a suit of conserved enzymes required for the oxidation of inorganic sulfur compounds (ISCs). The model of sulfur oxidation in S. thermosulfidooxidans was proposed, which showed some different characteristics from the sulfur oxidation of Gram-negative A. ferrooxidans. Sulfur oxygenase reductase and heterodisulfide reductase were suggested to play important roles in the sulfur oxidation. Although the iron oxidation ability was observed, some key proteins cannot be identified in S. thermosulfidooxidans. Unexpectedly, a predicted sulfocyanin is proposed to transfer electrons in the iron oxidation. Furthermore, its carbon metabolism is rather flexible, can perform the transformation of pentose through the oxidative and non-oxidative pentose phosphate pathways and has the ability to take up small organic compounds. It encodes a multitude of heavy metal resistance systems to adapt the heavy metal-containing environments.

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Effect of Cultivation Conditions on the Growth and Activities of Sulfur Metabolism Enzymes and Carboxylases of Sulfobacillus thermosulfidooxidans subsp. asporogenes Strain 41

Cited by 12 publications

References 11 publications

Draft Genome Sequence of the Sulfobacillus thermosulfidooxidans Cutipay Strain, an Indigenous Bacterium Isolated from a Naturally Extreme Mining Environment in Northern Chile

Draft Genome Sequence of the Sulfobacillus thermosulfidooxidans Cutipay Strain, an Indigenous Bacterium Isolated from a Naturally Extreme Mining Environment in Northern Chile

Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms

Comparative Genome Analysis Reveals Metabolic Versatility and Environmental Adaptations of Sulfobacillus thermosulfidooxidans Strain ST

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