Evidence map›Paper›PMID 24501645›Full record

ArticleStandards in genomic sciences2013

Genome sequence of the moderately thermophilic sulfur-reducing bacterium Thermanaerovibrio velox type strain (Z-9701(T)) and emended description of the genus Thermanaerovibrio.

Krishna Palaniappan, Jan P Meier-Kolthoff, Hazuki Teshima, Matt Nolan, Alla Lapidus, Hope Tice, Tijana Glavina Del Rio, Jan-Fang Cheng, Cliff Han, Roxanne Tapia and 21 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Standards in genomic sciences, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
0.7field-weighted citation impact, top 28% 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

0 citing papers in PubMed, 5 citations in OpenAlex.

No citing paper in PubMed yet.

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

31 authors at 8 institutions in 5 countries.

Krishna PalaniappanDOE Joint Genome Institute, Walnut Creek, California, USA.
Jan P Meier-KolthoffLeibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
Hazuki TeshimaDOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
Matt NolanDOE Joint Genome Institute, Walnut Creek, California, USA.
Alla LapidusT. Dobzhansky Center for Genome Bionformatics, St. Petersburg State University, St. Petersburg, Russia ; Algorithmic Biology Lab, St. Petersburg Academic University, St. Petersburg, Russia.
Hope TiceDOE Joint Genome Institute, Walnut Creek, California, USA.
Tijana Glavina Del RioDOE Joint Genome Institute, Walnut Creek, California, USA.
Jan-Fang ChengDOE Joint Genome Institute, Walnut Creek, California, USA.
Cliff HanDOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
Roxanne TapiaDOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
Lynne A GoodwinDOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
Sam PitluckDOE Joint Genome Institute, Walnut Creek, California, USA.
Konstantinos LioliosDOE Joint Genome Institute, Walnut Creek, California, USA.
Konstantinos MavromatisDOE Joint Genome Institute, Walnut Creek, California, USA.
Ioanna PaganiDOE Joint Genome Institute, Walnut Creek, California, USA.
Natalia IvanovaDOE Joint Genome Institute, Walnut Creek, California, USA.
Natalia MikhailovaDOE Joint Genome Institute, Walnut Creek, California, USA.
Amrita PatiDOE Joint Genome Institute, Walnut Creek, California, USA.
Amy ChenBiological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
Manfred RohdeHZI - Helmholtz Centre for Infection Research, Braunschweig, Germany.
Shanmugam MayilrajMTCC - Microbial Type Culture Collection & Gene Bank, CSIR-Institute of Microbial Technology, Chandigarh, India.
Stefan SpringLeibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
John C DetterDOE Joint Genome Institute, Walnut Creek, California, USA ; Los Alamos National Laboratory, Bioscience Division, Los Alamos, New Mexico, USA.
Markus GökerLeibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
James BristowDOE Joint Genome Institute, Walnut Creek, California, USA.
Jonathan A EisenDOE Joint Genome Institute, Walnut Creek, California, USA ; University of California Davis Genome Center, Davis, California, USA.
Victor MarkowitzBiological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, California, USA.
Philip HugenholtzDOE Joint Genome Institute, Walnut Creek, California, USA ; Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Australia.
Nikos C KyrpidesDOE Joint Genome Institute, Walnut Creek, California, USA.
Hans-Peter KlenkLeibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany.
Tanja WoykeDOE Joint Genome Institute, Walnut Creek, California, USA.
Joint Genome Institute · USLeibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures · DELos Alamos National Laboratory · USLawrence Berkeley National Laboratory · USHelmholtz Centre for Infection Research · DEInstitute of Microbial Technology · INSt Petersburg University · RUUniversity of Queensland · AU

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Thermanaerovibrio velox Zavarzina et al. 2000 is a member of the Synergistaceae, a family in the phylum Synergistetes that is already well-characterized at the genome level. Members of this phylum were described as Gram-negative staining anaerobic bacteria with a rod/vibrioid cell shape and possessing an atypical outer cell envelope. They inhabit a large variety of anaerobic environments including soil, oil wells, wastewater treatment plants and animal gastrointestinal tracts. They are also found to be linked to sites of human diseases such as cysts, abscesses, and areas of periodontal disease. The moderately thermophilic and organotrophic T. velox shares most of its morphologic and physiologic features with the closely related species, T. acidaminovorans. In addition to Su883(T), the type strain of T. acidaminovorans, stain Z-9701(T) is the second type strain in the genus Thermanaerovibrio to have its genome sequence published. Here we describe the features of this organism, together with the non-contiguous genome sequence and annotation. The 1,880,838 bp long chromosome (non-contiguous finished sequence) with its 1,751 protein-coding and 59 RNA genes is a part of the G enomic E ncyclopedia of Bacteria and Archaea project.

Indexed as

curved rodscyanobacterial matGEBAmotileobligate anaerobicorganotrophicS0-reductionSynergistaceaeSynergistetes

Identifiers

PMID24501645
PMCPMC3910556
OpenAlexW2122751686

What OpenQuestion holds

Textmetadata
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.