Evidence map›Paper›PMID 29426939›Full record

ArticleScientific reports2018

SeagrassDB: An open-source transcriptomics landscape for phylogenetically profiled seagrasses and aquatic plants.

Gaurav Sablok, Regan J Hayward, Peter A Davey, Rosiane P Santos, Martin Schliep, Anthony Larkum, Mathieu Pernice, Rudy Dolferus, Peter J Ralph

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
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

5 citing papers in PubMed.

  1. LMTFrontiers in plant science · 2023
    Article
  2. Article
  3. Review
  4. Article
  5. 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

9 authors.

Gaurav SablokClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia. sablokg@gmail.com.
Regan J HaywardClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia.
Peter A DaveyClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia.
Rosiane P SantosLaboratório de Recursos Genéticos, Universidade Federal de São João Del-Rei, Campus CTAN, São João Del Rei, Minas Gerais, 36307-352, Brazil.ORCID 0000-0003-3233-6863
Martin SchliepClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia.
Anthony LarkumClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia.
Mathieu PerniceClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia.ORCID 0000-0002-3431-2104
Rudy DolferusCSIRO Agriculture and Food, GPO Box 1700, Canberra, ACT 2601, Australia.
Peter J RalphClimate Change Cluster (C3), University of Technology Sydney, PO Box 123 Broadway, NSW 2007, Australia. Peter.Ralph@uts.edu.au.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Seagrasses and aquatic plants are important clades of higher plants, significant for carbon sequestration and marine ecological restoration. They are valuable in the sense that they allow us to understand how plants have developed traits to adapt to high salinity and photosynthetically challenged environments. Here, we present a large-scale phylogenetically profiled transcriptomics repository covering seagrasses and aquatic plants. SeagrassDB encompasses a total of 1,052,262 unigenes with a minimum and maximum contig length of 8,831 bp and 16,705 bp respectively. SeagrassDB provides access to 34,455 transcription factors, 470,568 PFAM domains, 382,528 prosite models and 482,121 InterPro domains across 9 species. SeagrassDB allows for the comparative gene mining using BLAST-based approaches and subsequent unigenes sequence retrieval with associated features such as expression (FPKM values), gene ontologies, functional assignments, family level classification, Interpro domains, KEGG orthology (KO), transcription factors and prosite information. SeagrassDB is available to the scientific community for exploring the functional genic landscape of seagrass and aquatic plants at: http://115.146.91.129/index.php .

Indexed as

Databases, GeneticAquatic OrganismsMarine BiologyPhylogenyPlantsTranscriptome

Identifiers

PMID29426939
PMCPMC5807536

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.