Evidence map›Paper›PMID 39278996›Full record

ArticleHeredity2024

The genome sequence of the Violet Carpenter Bee, Xylocopa violacea (Linnaeus, 1785): a hymenopteran species undergoing range expansion.

Will J Nash, Angela Man, Seanna McTaggart, Kendall Baker, Tom Barker, Leah Catchpole, Alex Durrant, Karim Gharbi, Naomi Irish, Gemy Kaithakottil and 12 more

Abstract read
In one paragraph

Article in Heredity, 2024. 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
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.

  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

22 authors.

Will J Nash *The Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK. will.nash@earlham.ac.uk.ORCID 0000-0002-6790-1167
Angela ManThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0000-0002-9596-0068
Seanna McTaggartThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0000-0003-0977-4785
Kendall BakerThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0009-0002-9437-8057
Tom BarkerThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
Leah CatchpoleThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
Alex DurrantThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
Karim GharbiThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0000-0003-1092-4488
Naomi IrishThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
Gemy KaithakottilThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
Debby KuThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0000-0001-9174-3296
Aaliyah ProvidenceThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0000-0002-4348-7387
Felix ShawThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
David SwarbreckThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.ORCID 0000-0002-5453-1013
Chris WatkinsThe Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK.
Ann M McCartneyGenomics Institute, University of California, Santa Cruz, CA, 95060, USA.
Giulio FormentiThe Vertebrate Genome Laboratory, The Rockefeller University, 1240 York Ave, New York, NY, 10065, USA.
Alice MoutonDepartment of Biology, University of Florence, Sesto Fiorentino, Italy.ORCID 0000-0002-0598-8789
Noel VellaConservation Biology Research Group, Biology Department, University of Malta, Msida, MSD 2080, Malta.
Björn M von ReumontLOEWE Center for Translational Biodiversity Genomics (LOEWE-TBG), Senckenberganlage 25, 60325, Frankfurt, Germany.
Adriana Vella *Conservation Biology Research Group, Biology Department, University of Malta, Msida, MSD 2080, Malta. adriana.vella@um.edu.mt.
Wilfried Haerty *The Earlham Institute, Norwich Research Park, Colney Lane, Norwich, NR4 7UZ, UK. wilfried.haerty@earlham.ac.uk.

Funding

BBSRC BB/CCG1720/1BBSRC BBS/E/T/000PR9811BBSRC BBS/E/T/000PR9819Deutsche Forschungsgemeinschaft (German Research Foundation) RE3454/6-1Innovate UK 10055933RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BB/CCG2220/1RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/230001ARCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/230001BRCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/230001CRCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/230002ARCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/230002BRCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/230003CRCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/T/000PR9814RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/T/000PR9816RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/T/000PR9818Wellcome Trust
6 · The paper itself

Abstract

We present a reference genome assembly from an individual male Violet Carpenter Bee (Xylocopa violacea, Linnaeus 1758). The assembly is 1.02 gigabases in span. 48% of the assembly is scaffolded into 17 pseudo-chromosomal units. The mitochondrial genome has also been assembled and is 21.8 kilobases in length. The genome is highly repetitive, likely representing a highly heterochromatic architecture expected of bees from the genus Xylocopa. We also use an evidence-based methodology to annotate 10,152 high confidence coding genes. This genome was sequenced as part of the pilot project of the European Reference Genome Atlas (ERGA) and represents an important addition to the genomic resources available for Hymenoptera.

Indexed as

Genome, MitochondrialAnimalsBeesGenome, InsectMaleMolecular Sequence AnnotationSequence Analysis, DNA

Identifiers

PMID39278996
PMCPMC11589580

What OpenQuestion holds

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Registered trials

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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.