Abstract
The tenacious association between strains of the heterotrophic alphaproteobacterial genus Acidiphilium and chemolithotrophic iron oxidizing bacteria has long been known. In this context the genome of the heterotroph Acidiphilium sp. JA12-A1, an isolate from an iron oxidizing mixed culture derived from a pilot plant for bioremediation of acid mine drainage, was determined with the aim to reveal metabolic properties that are fundamental for the syntrophic interaction between Acidiphilium sp. JA12-A1 and the co-occurring chemolithoautotrophic iron oxidizer. The genome sequence consists of 4.18 Mbp on 297 contigs and harbors 4015 protein-coding genes and 50 RNA genes. Additionally, the molecular and functional organization of the Acidiphilium sp. JA12-A1 draft genome was compared to those of the close relatives Acidiphilium cryptum JF-5, Acidiphilium multivorum AIU301 and Acidiphilium sp. PM DSM 24941. The comparative genome analysis underlines the close relationship between these strains and the highly similar metabolic potential supports the idea that other Acidiphilium strains play a similar role in various acid mine drainage communities. Nevertheless, in contrast to other closely related strains Acidiphilium sp. JA12-A1 may be able to take up phosphonates as an additional source of phosphor.Electronic supplementary materialThe online version of this article (doi:10.1186/s40793-015-0040-y) contains supplementary material, which is available to authorized users.
Highlights
Strains of the alphaproteobacterial genus Acidiphilium have first been isolated from supposed pure cultures of iron oxidizing bacteria such as Acidithiobacillus ferrooxidans [1]
Several attempts have been undertaken to investigate the interaction between the iron oxidizing bacterium Acidithiobacillus ferrooxidans and Acidiphilium spp
Extended insights there are four genome sequences of species belonging to the genus Acidiphilium to compare the genome of strain JA12-A1 with, we focused our comparative genomics approach on Acidiphilium cryptum JF-5, Acidiphilium multivorum AUI301, Acidiphilium sp
Summary
Strains of the alphaproteobacterial genus Acidiphilium have first been isolated from supposed pure cultures of iron oxidizing bacteria such as Acidithiobacillus ferrooxidans [1]. A stable isotope probe based proteome analysis of an Acidithiobacillus ferrooxidans/Acidiphilium cryptum mixed culture has revealed carbon dioxide transfer from the heterotroph to the iron oxidizing bacterium [9]. We sequenced and analyzed the genome of Acidiphilium sp. The complete 16S rRNA gene sequence of Acidiphilium sp.
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