Complete Genome Sequence of “
            <i>Candidatus</i>
            Thioglobus sp.” Strain NP1, an Open-Ocean Isolate from the SUP05 Clade of Marine
            <i>Gammaproteobacteria</i>

Spietz, Rachel L.; Marshall, Katharine T.; Zhao, Xiaowei; Morris, Robert M.

doi:10.1128/mra.00097-19

Cited by 5 publications

(7 citation statements)

References 15 publications

(17 reference statements)

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“…The isolate Candidatus Thioglobus singularis PS1 (member of the SUP05 clade) has the potential to use organic substrates and also to perform DIC fixation and sulfur oxidation (Spietz et al ., 2019b). However, Candidatus Thioglobus NP1 isolated from the open ocean lacks the RuBisCO encoding gene in its genome, suggesting that DIC fixation is not performed by all SUP05 (Spietz et al ., 2019a), in agreement with the high apr A/ cbb M ratios (Fig. 2).…”

Section: Discussionsupporting

confidence: 86%

Microbes mediating the sulfur cycle in the Atlantic Ocean and their link to chemolithoautotrophy

Corte

Muck

Tiroch

et al. 2021

Environmental Microbiology

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Summary Only about 10%–30% of the organic matter produced in the epipelagic layers reaches the dark ocean. Under these limiting conditions, reduced inorganic substrates might be used as an energy source to fuel prokaryotic chemoautotrophic and/or mixotrophic activity. The aprA gene encodes the alpha subunit of the adenosine‐5′‐phosphosulfate (APS) reductase, present in sulfate‐reducing (SRP) and sulfur‐oxidizing prokaryotes (SOP). The sulfur‐oxidizing pathway can be coupled to inorganic carbon fixation via the Calvin–Benson–Bassham cycle. The abundances of aprA and cbbM, encoding RuBisCO form II (the key CO2 fixing enzyme), were determined over the entire water column along a latitudinal transect in the Atlantic from 64°N to 50°S covering six oceanic provinces. The abundance of aprA and cbbM genes significantly increased with depth reaching the highest abundances in meso‐ and upper bathypelagic layers. The contribution of cells containing these genes also increased from mesotrophic towards oligotrophic provinces, suggesting that under nutrient limiting conditions alternative energy sources are advantageous. However, the aprA/cbbM ratios indicated that only a fraction of the SOP is associated with inorganic carbon fixation. The aprA harbouring prokaryotic community was dominated by Pelagibacterales in surface and mesopelagic waters, while Candidatus Thioglobus, Chromatiales and the Deltaproteobacterium_SCGC dominated the bathypelagic realm. Noticeably, the contribution of the SRP to the prokaryotic community harbouring aprA gene was low, suggesting a major utilization of inorganic sulfur compounds either as an energy source (occasionally coupled with inorganic carbon fixation) or in biosynthesis pathways.

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Section: Discussionsupporting

confidence: 86%

Microbes mediating the sulfur cycle in the Atlantic Ocean and their link to chemolithoautotrophy

Corte

Muck

Tiroch

et al. 2021

Environmental Microbiology

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“…The taxonomic assemblage of the water column metabolic guild actively expressing dsr , rDsr , and apr genes was in the majority composed of Alpha -, Gamma -, and Deltaproteobacteria , with few Nitrospirae and Chloroflexi ( Fig. 4B ); the predominance of gammaproteobacterial “ Thioglobus ” taxa ( 75 ) from the SUP05 clade ( 19 , 44 ) and deltaproteobacterial SAR324 ( 45 ) clades evidence their important role in sulfur oxidation processes ( Fig. 1C and 6 ).…”

Section: Discussionmentioning

confidence: 99%

Microbial Activities and Selection from Surface Ocean to Subseafloor on the Namibian Continental Shelf

Vuillemin

Coskun

Orsi

2022

Appl Environ Microbiol

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“…Ca . Thioglobus strains, open ocean isolates from the SUP05 clade of marine Gammaproteobacteria, have been recently reported for their complete genome sequences 52 , 53 . Mixotrophic members of this clade have the potential to oxidize sulphur and fix carbon in marine biogeochemical cycles 52 .…”

Section: Discussionmentioning

confidence: 99%

Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics

Kobiyama

Rashid

Reza

et al. 2021

Sci Rep

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Five years of datasets from 2015 to 2019 of whole genome shotgun sequencing for cells trapped on 0.2-µm filters of seawater collected monthly from Ofunato Bay, an enclosed bay in Japan, were analysed, which included the 2015 data that we had reported previously. Nucleotide sequences were determined for extracted DNA from three locations for both the upper (1 m) and deeper (8 or 10 m) depths. The biotic communities analysed at the domain level comprised bacteria, eukaryotes, archaea and viruses. The relative abundance of bacteria was over 60% in most months for the five years. The relative abundance of the SAR86 cluster was highest in the bacterial group, followed by Candidatus Pelagibacter and Planktomarina. The relative abundance of Ca. Pelagibacter showed no relationship with environmental factors, and those of SAR86 and Planktomarina showed positive correlations with salinity and dissolved oxygen, respectively. The bacterial community diversity showed seasonal changes, with high diversity around September and low diversity around January for all five years. Nonmetric multidimensional scaling analysis also revealed that the bacterial communities in the bay were grouped in a season-dependent manner and linked with environmental variables such as seawater temperature, salinity and dissolved oxygen.

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Complete Genome Sequence of “ Candidatus Thioglobus sp.” Strain NP1, an Open-Ocean Isolate from the SUP05 Clade of Marine Gammaproteobacteria

Cited by 5 publications

References 15 publications

Microbes mediating the sulfur cycle in the Atlantic Ocean and their link to chemolithoautotrophy

Microbes mediating the sulfur cycle in the Atlantic Ocean and their link to chemolithoautotrophy

Microbial Activities and Selection from Surface Ocean to Subseafloor on the Namibian Continental Shelf

Seasonal and annual changes in the microbial communities of Ofunato Bay, Japan, based on metagenomics

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