Draft Genome Sequence of “
            <i>Acidibacillus ferrooxidans</i>
            ” ITV01, a Novel Acidophilic Firmicute Isolated from a Chalcopyrite Mine Drainage Site in Brazil

Dall'Agnol, Hivana; Nancucheo, Iván; Johnson, D. Barrie; Oliveira, Renato R. M.; Leite, Laura Hora Rios; Pylro, Victor Satler; Holanda, Roseanne; Grail, Barry M.; Carvalho, Nelson Mota de; Nunes, Gisele; Tzotzos, George; Fernandes, Gabriel R.; Dutra, Julliane; Cuadros-Orellana, Sara; Oliveira, Guilherme

doi:10.1128/genomea.01748-15

Cited by 9 publications

(6 citation statements)

References 9 publications

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“…Whole-genome sequencing was performed via a combined approach using an Ion Torrent personal genome machine (Life Technologies, Carlsbad, CA), with bp chemistry libraries and 318 semiconductor chip (strain ITV01), and an Illumina MiSeq sequencer with paired-end sequencing kit (strains SLC66 T and Y002 T ). Genome assembly was conducted as described elsewhere [19]. Gene sequences coding for proteins in assimilating carbon dioxide and dinitrogen fixation were obtained from the genomes of different acidophilic bacteria:…”

Section: Genome Analysesmentioning

confidence: 99%

Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations

Holanda

Hedrich

Nancucheo

et al. 2016

Research in Microbiology

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Eight strains of acidophilic bacteria, isolated from mine-impacted and geothermal sites from different parts of the world, were shown to form a distinct clade (proposed genus "Acidibacillus") within the phylum Firmicutes, well separated from the acidophilic genera Sulfobacillus and Alicyclobacillus. Two of the strains (both isolated from sites in Yellowstone National Park, USA) were moderate thermophiles that oxidised both ferrous iron and elemental sulphur, while the other six were mesophiles that also oxidised ferrous iron, but not sulphur. All eight isolates reduced ferric iron to varying degrees. The two groups shared <95% similarity of their 16S rRNA genes and were therefore considered to be distinct species: "Acidibacillus sulfuroxidans" (moderately thermophilic isolates) and "Acidibacillus ferrooxidans" (mesophilic isolates). Both species were obligate heterotrophs; none of the eight strains grew in the absence of organic carbon. "Acidibacillus" spp. were generally highly tolerant of elevated concentrations of cationic transition metals, though "A. sulfuroxidans" strains were more sensitive to some (e.g. nickel and zinc) than those of "A. ferrooxidans". Initial annotation of the genomes of two strains of "A. ferrooxidans" revealed the presence of genes (cbbL) involved in the RuBisCO pathway for CO2 assimilation and iron oxidation (rus), though with relatively low sequence identities.

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Section: Genome Analysesmentioning

confidence: 99%

Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations

Holanda

Hedrich

Nancucheo

et al. 2016

Research in Microbiology

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“…This taxon was affiliated with the class Alicyclobacillia, the order Alicyclobacillales, and the family Acidibacillaceae. This taxon was most closely related to Acidobacillus ferrooxidans, a Fe(II) and sulfide mineral oxidizing species isolated from an AMD environments ( Figure 1) (63). Unlike its closest relative, it does not encode the genes necessary for Fe(II) or sulfide mineral oxidation.…”

Section: Firmicutesmentioning

confidence: 99%

Metagenome assembled genomes of novel taxa from an acid mine drainage environment

Grettenberger

Hamilton

2020

Preprint

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ABSTRACTAcid mine drainage (AMD) is a global problem in which iron sulfide minerals oxidize and generate acidic, metal-rich water. Bioremediation relies on understanding how microbial communities inhabiting an AMD site contribute to biogeochemical cycling. A number of studies have reported community composition in AMD sites from16S rRNA gene amplicons but it remains difficult to link taxa to function, especially in the absence of closely related cultured species or those with published genomes. Unfortunately, there is a paucity of genomes and cultured taxa from AMD environments. Here, we report 29 novel metagenome assembled genomes from Cabin Branch, an AMD site in the Daniel Boone National Forest, KY, USA. The genomes span 11 bacterial phyla and include one Archaea and include taxa that contribute to carbon, nitrogen, sulfur, and iron cycling. These data reveal overlooked taxa that contribute to carbon fixation in AMD sites as well as uncharacterized Fe(II)-oxidizing bacteria. These data provide additional context for 16S rRNA gene studies, add to our understanding of the taxa involved in biogeochemical cycling in AMD environments, and can inform bioremediation strategies.IMPORTANCEBioremediating acid mine drainage requires understanding how microbial communities influence geochemical cycling of iron and sulfur and biologically important elements like carbon and nitrogen. Research in this area has provided an abundance of 16S rRNA gene amplicon data. However, linking these data to metabolisms is difficult because many AMD taxa are uncultured or lack published genomes. Here, we present metagenome assembled genomes from 29 novel AMD taxa and detail their metabolic potential. These data provide information on AMD taxa that could be important for bioremediation strategies including taxa that are involved in cycling iron, sulfur, carbon, and nitrogen.

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“…Known species of Gram-positive acidophilic bacteria are affiliated with two phyla, Firmicutes and Actinobacteria , and include species that are facultative autotrophs and obligate heterotrophs. Here, we report the draft genome sequence of strain SLC66 T , the type strain of the novel species “ Acidibacillus ferrooxidans ” ( 2 , 3 ). This acidophile had been isolated from mine waste regolithic material subjected to accelerated weathering in humidity cells at pH 2.9 and 25°C ( 4 , 5 ).…”

Section: Genome Announcementmentioning

confidence: 99%

Draft Genome Sequence of a Novel Acidophilic Iron-Oxidizing Firmicutes Species, “ Acidibacillus ferrooxidans ” (SLC66 ^T )

Nancucheo

Oliveira²,

Dall'Agnol

et al. 2016

Genome Announc

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Draft Genome Sequence of “ Acidibacillus ferrooxidans ” ITV01, a Novel Acidophilic Firmicute Isolated from a Chalcopyrite Mine Drainage Site in Brazil

Cited by 9 publications

References 9 publications

Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations

Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations

Metagenome assembled genomes of novel taxa from an acid mine drainage environment

Draft Genome Sequence of a Novel Acidophilic Iron-Oxidizing Firmicutes Species, “ Acidibacillus ferrooxidans ” (SLC66 ^T )

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Draft Genome Sequence of “ Acidibacillus ferrooxidans ” ITV01, a Novel Acidophilic Firmicute Isolated from a Chalcopyrite Mine Drainage Site in Brazil

Cited by 9 publications

References 9 publications

Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations

Isolation and characterisation of mineral-oxidising “Acidibacillus” spp. from mine sites and geothermal environments in different global locations

Metagenome assembled genomes of novel taxa from an acid mine drainage environment

Draft Genome Sequence of a Novel Acidophilic Iron-Oxidizing Firmicutes Species, “ Acidibacillus ferrooxidans ” (SLC66 T )

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Draft Genome Sequence of a Novel Acidophilic Iron-Oxidizing Firmicutes Species, “ Acidibacillus ferrooxidans ” (SLC66 ^T )