Evidence map›Paper›PMID 18065616›Full record

ArticleApplied and environmental microbiology2008

Genome of the epsilonproteobacterial chemolithoautotroph Sulfurimonas denitrificans.

Stefan M Sievert, Kathleen M Scott, Martin G Klotz, Patrick S G Chain, Loren J Hauser, James Hemp, Michael Hügler, Miriam Land, Alla Lapidus, Frank W Larimer and 7 more

Open access · greenAbstract readComparative Study
In one paragraph

Article in Applied and environmental microbiology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 104 papers.

0numbers the graph read from it
0cells of the map it votes in
104citing papers in PubMed
8.7field-weighted citation impact, top 2% 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

104 citing papers in PubMed, 253 citations in OpenAlex.

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44 more citing papers are in PubMed but not listed here.

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

17 authors at 9 institutions in 2 countries.

Stefan M SievertBiology Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, USA. ssievert@whoi.edu
Kathleen M Scott
Martin G Klotz
Patrick S G Chain
Loren J Hauser
James Hemp
Michael Hügler
Miriam Land
Alla Lapidus
Frank W Larimer
Susan Lucas
Stephanie A Malfatti
Folker Meyer
Ian T Paulsen
Qinghu Ren
Jörg Simon
USF Genomics Class
Joint Genome Institute · USOak Ridge National Laboratory · USWoods Hole Oceanographic Institution · USArgonne National Laboratory · USGoethe University Frankfurt · DELawrence Livermore National Laboratory · USUniversity of Illinois Urbana-Champaign · USUniversity of Louisville · USUniversity of South Florida · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Sulfur-oxidizing epsilonproteobacteria are common in a variety of sulfidogenic environments. These autotrophic and mixotrophic sulfur-oxidizing bacteria are believed to contribute substantially to the oxidative portion of the global sulfur cycle. In order to better understand the ecology and roles of sulfur-oxidizing epsilonproteobacteria, in particular those of the widespread genus Sulfurimonas, in biogeochemical cycles, the genome of Sulfurimonas denitrificans DSM1251 was sequenced. This genome has many features, including a larger size (2.2 Mbp), that suggest a greater degree of metabolic versatility or responsiveness to the environment than seen for most of the other sequenced epsilonproteobacteria. A branched electron transport chain is apparent, with genes encoding complexes for the oxidation of hydrogen, reduced sulfur compounds, and formate and the reduction of nitrate and oxygen. Genes are present for a complete, autotrophic reductive citric acid cycle. Many genes are present that could facilitate growth in the spatially and temporally heterogeneous sediment habitat from where Sulfurimonas denitrificans was originally isolated. Many resistance-nodulation-development family transporter genes (10 total) are present; of these, several are predicted to encode heavy metal efflux transporters. An elaborate arsenal of sensory and regulatory protein-encoding genes is in place, as are genes necessary to prevent and respond to oxidative stress.

Indexed as

Genome, BacterialPhylogenyBase SequenceCarbonCarboxy-LyasesChemoautotrophic GrowthChemotaxisChromosome MappingComputational BiologyElectron TransportEpsilonproteobacteriaModels, BiologicalMolecular Sequence DataNitrogenOxidative StressSequence Analysis, DNACarbonCarboxy-LyasesNitrogen

Identifiers

PMID18065616
PMCPMC2258580
OpenAlexW2121381921

What OpenQuestion holds

Textmetadata
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.