Evidence map›Paper›PMID 31060509›Full record

ArticleBMC genomics2019

Horizontal acquisition of hydrogen conversion ability and other habitat adaptations in the Hydrogenovibrio strains SP-41 and XCL-2.

Giorgio Gonnella, Nicole Adam, Mirjam Perner

Open access · goldAbstract read
In one paragraph

Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.3field-weighted citation impact, top 41% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

4 citing papers in PubMed, 9 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors at 2 institutions in 1 country.

Giorgio GonnellaUniversität Hamburg, MIN-Fakultät, ZBH - Center for Bioinformatics, Bundesstraße 43, Hamburg, 20146, Germany. gonnella@zbh.uni-hamburg.de.
Nicole AdamGEOMAR Helmholtz Center for Ocean Research Kiel, Geomicrobiology, Wischhofstr. 1-3, Kiel, 24148, Germany.
Mirjam PernerGEOMAR Helmholtz Center for Ocean Research Kiel, Geomicrobiology, Wischhofstr. 1-3, Kiel, 24148, Germany. mperner@geomar.de.
Universität Hamburg · DEGEOMAR Helmholtz Centre for Ocean Research Kiel · DE

Funding

Deutsche Forschungsgemeinschaft PE1549-6/3
6 · The paper itself

Abstract

backgroundObligate sulfur oxidizing chemolithoauthotrophic strains of Hydrogenovibrio crunogenus have been isolated from multiple hydrothermal vent associated habitats. However, a hydrogenase gene cluster (encoding the hydrogen converting enzyme and its maturation/assembly machinery) detected on the first sequenced H. crunogenus strain (XCL-2) suggested that hydrogen conversion may also play a role in this organism. Yet, numerous experiments have underlined XCL-2's inability to consume hydrogen under the tested conditions. A recent study showed that the closely related strain SP-41 contains a homolog of the XCL-2 hydrogenase (a group 1b [NiFe]-hydrogenase), but that it can indeed use hydrogen. Hence, the question remained unresolved, why SP-41 is capable of using hydrogen, while XCL-2 is not.

resultsHere, we present the genome sequence of the SP-41 strain and compare it to that of the XCL-2 strain. We show that the chromosome of SP-41 codes for a further hydrogenase gene cluster, including two additional hydrogenases: the first appears to be a group 1d periplasmic membrane-anchored hydrogenase, and the second a group 2b sensory hydrogenase. The region where these genes are located was likely acquired horizontally and exhibits similarity to other Hydrogenovibrio species (H. thermophilus MA2-6 and H. marinus MH-110

conclusionsOur results suggest that horizontal gene transfer plays an important role in shaping the genomes of these strains, as a likely mechanism for habitat adaptation, including, but not limited to the transfer of the hydrogen conversion ability.

Indexed as

AcclimatizationEcosystemBacterial ProteinsGenome, BacterialHydrogenHydrogenaseMolecular Sequence AnnotationPiscirickettsiaceaeBacterial ProteinsHydrogenHydrogenaseBacterial genomeGenome comparisonHabitat adaptationHorizontal gene transferHydrogenaseHydrogenovibrioHydrothermal vents

Identifiers

PMID31060509
PMCPMC6501319
OpenAlexW2947470074

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.