Genome-based classification of acidihalobacter prosperus f5 (=dsm 105917=jcm 32255) as acidihalobacter yilgarnensis sp. nov.

Himel Nahreen Khaleque, Carolina González, D. Barrie Johnson, Anna H. Kaksonen, David S. Holmes, Elizabeth L.J. Watkin

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    The genus Acidihalobacter has three validated species, Acidihalobacter ferrooxydans, Acidihalobacter prosperus and Acidihalo-bacter aeolinanus, all of which were isolated from Vulcano island, Italy. They are obligately chemolithotrophic, aerobic, aci-dophilic and halophilic in nature and use either ferrous iron or reduced sulphur as electron donors. Recently, a novel strain was isolated from an acidic, saline drain in the Yilgarn region of Western Australia. Strain F5T has an absolute requirement for sodium chloride (>5 mM) and is osmophilic, growing in elevated concentrations (>1 M) of magnesium sulphate. A defining feature of its physiology is its ability to catalyse the oxidative dissolution of the most abundant copper mineral, chalcopyrite, suggesting a potential role in biomining. Originally categorized as a strain of A. prosperus, 16S rRNA gene phylogeny and mul-tiprotein phylogenies derived from clusters of orthologous proteins (COGS) of ribosomal protein families and universal protein families unambiguously demonstrate that strain F5T forms a well-supported separate branch as a sister clade to A. prosperus and is clearly distinguishable from A. ferrooxydans DSM 14175T and A. aeolinanus DSM14174T. Results of comparisons between strain F5T and the other Acidihalobacter species, using genome-based average nucleotide identity, average amino acid identity, correlation indices of tetra-nucleotide signatures (Tetra) and genome-to-genome distance (digital DNA–DNA hybridization), support the contention that strain F5T represents a novel species of the genus Acidihalobacter. It is proposed that strain F5T should be formally reclassified as Acidihalobacter yilgarnenesis F5T (=DSM 105917T=JCM 32255T).

    Original languageEnglish
    Article number004519
    Pages (from-to)6226-6234
    Number of pages9
    JournalInternational Journal of Systematic and Evolutionary Microbiology
    Issue number12
    Publication statusPublished - 28 Oct 2020

    Bibliographical note

    This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License.


    H.N.K. was the recipient of an Australian Government Research Training Program Scholarship and a CSIRO Mineral Resources Postgraduate Scholarship. D.H. was supported by Fondecyt 1 140 617 and the Programa de Apoyo a Centros con Financiamiento Basal AFB 17004 to the Fundación Ciencia and Vida. C.G. was supported by a post-doctoral fellowship FONDECYT 3190792.


    • Acidihalobacter
    • Acidophile
    • Average amino acid identity (AAI)
    • Chalcopyrite bioleaching
    • Genome-based average nucleotide identity (ANI)
    • Genome-to-genome distance (digital DNA-DNA hybridization (dDDH)
    • Halotolerant
    • Iron and sulfur oxidising
    • Yilgarn Craton

    ASJC Scopus subject areas

    • Microbiology
    • Ecology, Evolution, Behavior and Systematics


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