Evidence map›Paper›PMID 28892487›Full record

ArticlePloS one2017

Transcriptome sequencing and delimitation of sympatric Oscarella species (O. carmela and O. pearsei sp. nov) from California, USA.

Alexander V Ereskovsky, Daniel J Richter, Dennis V Lavrov, Klaske J Schippers, Scott A Nichols

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
1.9field-weighted citation impact, top 13% 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

8 citing papers in PubMed, 40 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Conservative and Atypical Ferritins of Sponges.International journal of molecular sciences · 2021
    Article
  5. Review
  6. Article
  7. Spatial Cell Disparity in the Colonial ChoanoflagellateFrontiers in cell and developmental biology · 2019
    Article
  8. 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

5 authors at 3 institutions in 3 countries.

Alexander V EreskovskyInstitut Méditerranéen de Biodiversité et d'Ecologie Marine et Continentale (IMBE), CNRS, IRD, Aix Marseille Université, Avignon Université, Station Marine d'Endoume, Marseille, France.
Daniel J RichterDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, United States of America.
Dennis V LavrovDepartment of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, IA, United States of America.
Klaske J SchippersDepartment of Biological Sciences, SGM 203, University of Denver, Denver, CO, United States of America.
Scott A NicholsDepartment of Biological Sciences, SGM 203, University of Denver, Denver, CO, United States of America.ORCID http://orcid.org/0000-0002-4765-754X
Centre National de la Recherche Scientifique · FRUniversity of Denver · USIowa State University · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The homoscleromorph sponge Oscarella carmela, first described from central California, USA is shown to represent two superficially similar but both morphologically and phylogenetically distinct species that are co-distributed. We here describe a new species as Oscarella pearsei, sp. nov. and re-describe Oscarella carmela; the original description was based upon material from both species. Further, we correct the identification of published genomic/transcriptomic resources that were originally attributed to O. carmela, and present new Illumina-sequenced transcriptome assemblies for each of these species, and the mitochondrial genome sequence for O. pearsei sp. nov. Using SSU and LSU ribosomal DNA and the mitochondrial genome, we report the phylogenetic relationships of these species relative to other Oscarella species, and find strong support for the placement of O. pearsei sp. nov. in a distinct clade within genus Oscarella defined by the presence of spherulous cells that contain paracrystalline inclusions; O. carmela lacks this cell type. Oscarella pearsei sp. nov and O. carmela can be tentatively distinguished based upon gross morphological differences such as color, surface texture and extent of mucus production, but can be more reliably identified using mitochondrial and nuclear barcode sequencing, ultrastructural characteristics of cells in the mesohyl, and the morphology of the follicle epithelium which surrounds the developing embryo in reproductively active individuals.

Indexed as

High-Throughput Nucleotide SequencingTranscriptomeAnimalsCaliforniaComputational BiologyDNA Barcoding, TaxonomicGene Expression ProfilingGenome, MitochondrialPhylogenyPoriferaSympatry

Identifiers

PMID28892487
PMCPMC5593202
OpenAlexW2952769393

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.