Genome Sequence of Geothermobacter sp. Strain HR-1, an Iron Reducer from the Lō‘ihi Seamount, Hawai’i

Abstract

Geothermobacter sp. strain HR-1 was isolated from the Lō‘ihi Seamount vent system in the Pacific Ocean at a depth of 1,000 m. Reported here is its 3.84-Mb genome sequence.

Alpha-Carbonic Anhydrases from Hydrothermal Vent Sources as Potential Carbon Dioxide Sequestration Agents: In Silico Sequence, Structure and Dynamics Analyses

“…For example, the genus Vibrio is widespread in marine environments [64,65]. Although Geothermobacter iron reducers are predominantly confined to hydrothermal systems [66][67][68][69], they have also previously been identified in paddy soils [70]. Bacteria from the families Hydrogenimonaceae, Nautiliaceae, and Nitratiruptoraceae are known to be found entirely in vent systems [71].…”

Geothermobacter hydrogeniphilus sp. nov., a mesophilic, iron(III)-reducing bacterium from seafloor/subseafloor environments in the Pacific Ocean, and emended description of the genus Geothermobacter

“…The genomes of strains EPR-M T and HR-1 have previously been reported to code for the utilization of H 2 and various organic substrates (i.e., formate and acetate) as primary electron donors for catabolism [29,33]. Both genomes also encode for protein genes involved in NO 3 reduction (at least nine genes in EPR-M T and 10 in HR-1), AsO 4 3reduction (at least four genes in EPR-M T and six in HR-1), SO 4 2reduction (at least 11 genes in EPR-M T and nine in HR-1), N 2 fixation (at least 19 genes in EPR-M T and 17 in HR-1), O 2 detoxification (at least five genes in EPR-M T and eight in HR-1), and rodshape morphology (at least nine genes in EPR-M T and six in HR-1)-all of which have been documented experimentally (Tables S3 and S4).…”

“…Sequencing of strain EPR-M T resulted in a 3.73 Mbp genome with an N50 value of 140 284 bp and a depth coverage of >1000× for 149 contigs [29]. Sequencing of strain HR-1 resulted in a 3.84 Mbp genome with an N50 value of 74 356 bp and a depth coverage of ~190× for 73 contigs [33]. The full 1548 bp 16S rRNA gene from strain EPR-M T (NCBI accession number MK135800), obtained directly from the sequenced genome, was compared against the 16S rRNA gene sequence of strain HR-1 (NCBI accession number GQ183899) as well as all other relevant 16S rRNA gene sequences retrieved from GenBank.…”

“…Genomes for both strains EPR-M T (DDBJ/ENA/GenBank accession number NAAD00000000) and HR-1 (DDBJ/ENA/ GenBank accession number PPFX00000000) were sequenced using an Illumina HiSeq platform [29,33]. Sequencing of strain EPR-M T resulted in a 3.73 Mbp genome with an N50 value of 140 284 bp and a depth coverage of >1000× for 149 contigs [29].…”

“…Both strains also encode for yet unconfirmed capabilities associated with mercury resistance (at least 13 genes in EPR-M T and 15 in HR-1) and phage-related immunity (at least 20 genes in EPR-M T and 23 in HR-1). Other routinely observed traits, such as the capabilities of strains EPR-M T and HR-1 to grow as autotrophic Fe(III) reducers, could not be identified through the presence of Fe(III) reduction genes (such as mtrABC) or key genes necessary to complete known carbon fixation cycles/pathways [29,33]. That said, these genomes possess cytochromes with unassigned functions [29], as well as a variety of hypothetical proteins.…”