Draft Genome Sequence of
            <i>Geobacter</i>
            sp. Strain SVR, Isolated from Antimony Mine Soil

Warashina, Tomoro; Harada, Masafumi; Nakajima, Nobuyoshi; Yamamura, Shigeki; Tomita, Masaru; Suzuki, Haruo; Amachi, Seigo

doi:10.1128/mra.00461-20

Cited by 3 publications

(2 citation statements)

References 6 publications

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“…SVR isolated from Sb mine soil in Hyogo Prefecture, Japan. 59,60 Unlike the presence of arrA and anrA in Geobacter-associated bins identified in this study, no arrA was detected in the genome of Geobacter sp. SVR which contains anrA while no anrA was detected in Geobacter OR-1 which contains arrA.…”

Section: ■ Discussioncontrasting

confidence: 78%

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Identification of Antimonate Reducing Bacteria and Their Potential Metabolic Traits by the Combination of Stable Isotope Probing and Metagenomic-Pangenomic Analysis

Sun

Häggblom

et al. 2021

Environ. Sci. Technol.

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Microorganisms play an important role in altering antimony (Sb) speciation, mobility, and bioavailability, but the understanding of the microorganisms responsible for Sb(V) reduction has been limited. In this study, DNA-stable isotope probing (DNA-SIP) and metagenomics analysis were combined to identify potential Sb(V)-reducing bacteria (SbRB) and predict their metabolic pathways for Sb(V) reduction. Soil slurry cultures inoculated with Sb-contaminated paddy soils from two Sb-contaminated sites demonstrated the capability to reduce Sb(V). DNA-SIP identified bacteria belonging to the genera Pseudomonas and Geobacter as putative SbRB in these two Sb-contaminated sites. In addition, bacteria such as Lysinibacillus and Dechloromonas may potentially participate in Sb(V) reduction. Nearly complete draft genomes of putative SbRB (i.e., Pseudomonas and Geobacter) were obtained, and the genes potentially responsible for arsenic (As) and Sb reduction (i.e., respiratory arsenate reductase (arrA) and antimonate reductase (anrA)) were examined. Notably, bins affiliated with Geobacter contained arrA and anrA genes, supporting our hypothesis that they are putative SbRB. Further, pangenomic analysis indicated that various Geobacter-associated genomes obtained from diverse habitats also contained arrA and anrA genes. In contrast, Pseudomonas may use a predicted DMSO reductase closely related to sbrA (Sb(V) reductase gene) clade II to reduce Sb(V), which may need further experiments to verify. This current work represents a demonstration of using DNA-SIP and metagenomic-binning to identify SbRB and their key genes involved in Sb(V) reduction and provides valuable data sets to link bacterial identities with Sb(V) reduction.

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Section: ■ Discussioncontrasting

confidence: 78%

“…22 Recently, Geobacter sp. strain SVR was identified as SbRB isolated from an Sb mining soil located in Japan, 59,60 suggesting their capability in reducing Sb(V).…”

Section: ■ Discussionmentioning

confidence: 99%

Identification of Antimonate Reducing Bacteria and Their Potential Metabolic Traits by the Combination of Stable Isotope Probing and Metagenomic-Pangenomic Analysis

Sun

Häggblom

et al. 2021

Environ. Sci. Technol.

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Production of two morphologically different antimony trioxides by a novel antimonate-reducing bacterium, Geobacter sp. SVR

Yamamura

Iida

Kobayashi

et al. 2021

Journal of Hazardous Materials

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Complete Genome Sequence of Geobacter sp. Strain SVR, an Antimonate-Reducing Bacterium Isolated from Antimony-Rich Mine Soil

Warashina

Yamamura

Suzuki

et al. 2021

Microbiol Resour Announc

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Draft Genome Sequence of Geobacter sp. Strain SVR, Isolated from Antimony Mine Soil

Abstract: We report here the draft genome sequence of Geobacter sp. strain SVR, isolated from antimony mine soil in Hyogo Prefecture, Japan. The genome sequence data in this study will provide useful information for understanding bacterial antimonate reduction.

Cited by 3 publications

References 6 publications

Identification of Antimonate Reducing Bacteria and Their Potential Metabolic Traits by the Combination of Stable Isotope Probing and Metagenomic-Pangenomic Analysis

Identification of Antimonate Reducing Bacteria and Their Potential Metabolic Traits by the Combination of Stable Isotope Probing and Metagenomic-Pangenomic Analysis

Production of two morphologically different antimony trioxides by a novel antimonate-reducing bacterium, Geobacter sp. SVR

Complete Genome Sequence of Geobacter sp. Strain SVR, an Antimonate-Reducing Bacterium Isolated from Antimony-Rich Mine Soil

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