Evidence map›Paper›PMID 26478786›Full record

ArticleStandards in genomic sciences2015

High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6.

Sofie E De Meyer, Matthew Parker, Peter Van Berkum, Rui Tian, Rekha Seshadri, T B K Reddy, Victor Markowitz, Natalia Ivanova, Amrita Pati, Tanja Woyke and 3 more

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

Article in Standards in genomic sciences, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact, top 96% 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

1 citing paper in PubMed, 7 citations in OpenAlex.

  1. Article
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

13 authors at 3 institutions in 2 countries.

Sofie E De MeyerCentre for Rhizobium Studies, Murdoch University, Murdoch, Western Australia.
Matthew ParkerBinghamton University, State University of New York, New York, USA.
Peter Van BerkumSoybean Genomics and improvement laboratory Bldg 006, BARC-West USDA ARS 10300 Baltimore Blvd, Beltsville, MD 20705 USA.
Rui TianCentre for Rhizobium Studies, Murdoch University, Murdoch, Western Australia.
Rekha SeshadriDOE Joint Genome Institute, Walnut Creek, CA USA.
T B K ReddyDOE Joint Genome Institute, Walnut Creek, CA USA.
Victor MarkowitzBiological Data Management and Technology Center, Lawrence Berkeley National Laboratory, Berkeley, CA USA.
Natalia IvanovaDOE Joint Genome Institute, Walnut Creek, CA USA.
Amrita PatiDOE Joint Genome Institute, Walnut Creek, CA USA.
Tanja WoykeDOE Joint Genome Institute, Walnut Creek, CA USA.
Nikos KyrpidesDOE Joint Genome Institute, Walnut Creek, CA USA.
John HowiesonCentre for Rhizobium Studies, Murdoch University, Murdoch, Western Australia.
Wayne ReeveCentre for Rhizobium Studies, Murdoch University, Murdoch, Western Australia.
Joint Genome Institute · USMurdoch University · AUBinghamton University · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Cupriavidus sp. strain AMP6 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from a root nodule of Mimosa asperata collected in Santa Ana National Wildlife Refuge, Texas, in 2005. Mimosa asperata is the only legume described so far to exclusively associates with Cupriavidus symbionts. Moreover, strain AMP6 represents an early-diverging lineage within the symbiotic Cupriavidus group and has the capacity to develop an effective nitrogen-fixing symbiosis with three other species of Mimosa. Therefore, the genome of Cupriavidus sp. strain AMP6 enables comparative analyses of symbiotic trait evolution in this genus and here we describe the general features, together with sequence and annotation. The 7,579,563 bp high-quality permanent draft genome is arranged in 260 scaffolds of 262 contigs, contains 7,033 protein-coding genes and 97 RNA-only encoding genes, and is part of the GEBA-RNB project proposal.

Indexed as

BetaproteobacteriaGEBA-RNBMimosa asperataNitrogen fixationRoot-nodule bacteriaTexas

Identifiers

PMID26478786
PMCPMC4609095
OpenAlexW2162420135

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.