Evidence map›Paper›PMID 38281308›Full record

ArticleMolecular biology reports2024

Genomic resources for the Yellowfin tuna Thunnus albacares.

Pavel V Dimens, Kenneth L Jones, Daniel Margulies, Vernon Scholey, Susana Cusatti, Brooke McPeak, Tami E Hildahl, Eric A E Saillant

Abstract read
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In one paragraph

Article in Molecular biology reports, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.5field-weighted citation impact, top 39% 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

2 citing papers in PubMed, 2 citations in OpenAlex.

  1. Circular Valorization of Yellowfin Tuna (Molecules (Basel, Switzerland) · 2026
    Article
  2. 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

8 authors at 2 institutions in 1 country.

Pavel V DimensSchool of Ocean Science and Engineering, The University of Southern Mississippi, Ocean Springs, MS, 39564, USA.
Kenneth L JonesBioinformatic Solutions LLC, Sheridan, WY, 82801, USA.
Daniel MarguliesInter-American Tropical Tuna Commission, 8901 La Jolla Shores Drive, La Jolla, CA, 92037, USA.
Vernon ScholeyInter-American Tropical Tuna Commission, 8901 La Jolla Shores Drive, La Jolla, CA, 92037, USA.
Susana CusattiInter-American Tropical Tuna Commission, 8901 La Jolla Shores Drive, La Jolla, CA, 92037, USA.
Brooke McPeakSchool of Ocean Science and Engineering, The University of Southern Mississippi, Ocean Springs, MS, 39564, USA.
Tami E HildahlSchool of Ocean Science and Engineering, The University of Southern Mississippi, Ocean Springs, MS, 39564, USA.
Eric A E SaillantSchool of Ocean Science and Engineering, The University of Southern Mississippi, Ocean Springs, MS, 39564, USA. eric.saillant@usm.edu.ORCID http://orcid.org/0000-0002-1480-4515
University of Southern Mississippi · USInter-American Tropical Tuna Commission · US

Funding

National Marine Fisheries Service NA16NMF4270223
6 · The paper itself

Abstract

backgroundThe Yellowfin tuna (Thunnus albacares) is a large tuna exploited by major fisheries in tropical and subtropical waters of all oceans except the Mediterranean Sea. Genomic studies of population structure, adaptive variation or of the genetic basis of phenotypic traits are needed to inform fisheries management but are currently limited by the lack of a reference genome for this species. Here we report a draft genome assembly and a linkage map for use in genomic studies of T. albacares. METHODS AND

resultsIllumina and PacBio SMRT sequencing were used in combination to generate a hybrid assembly that comprises 743,073,847 base pairs contained in 2,661 scaffolds. The assembly has a N50 of 351,587 and complete and partial BUSCO scores of 86.47% and 3.63%, respectively. Double-digest restriction associated DNA (ddRAD) was used to genotype the 2 parents and 164 of their F1 offspring resulting from a controlled breeding cross, retaining 19,469 biallelic single nucleotide polymorphism (SNP) loci. The SNP loci were used to construct a linkage map that features 24 linkage groups that represent the 24 chromosomes of yellowfin tuna. The male and female maps span 1,243.8 cM and 1,222.9 cM, respectively. The map was used to anchor the assembly in 24 super-scaffolds that contain 79% of the yellowfin tuna genome. Gene prediction identified 46,992 putative genes 20,203 of which could be annotated via gene ontology.

conclusionsThe draft reference will be valuable to interpret studies of genome wide variation in T. albacares and other Scombroid species.

Indexed as

GenomicsTunaAnimalsDNAFemaleGenotypeMaleSequence Analysis, DNADNADouble-digest RAD sequencingGenome assemblyGenome sequencingGenome syntenyLinkage mapThunnus albacaresYellowfin tuna

Identifiers

PMID38281308
OpenAlexW4391298025

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.