Evidence map›Paper›PMID 39695199›Full record

ArticleScientific data2024

Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis.

Jonathan Wright, Kendall Baker, Tom Barker, Leah Catchpole, Alex Durrant, Fiona Fraser, Karim Gharbi, Christian Harrison, Suzanne Henderson, Naomi Irish and 13 more

Abstract read
In one paragraph

Article in Scientific data, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. 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

23 authors.

Jonathan WrightEarlham Institute, Norwich Research Park, Norwich, UK.ORCID 0000-0001-6471-8749
Kendall BakerEarlham Institute, Norwich Research Park, Norwich, UK.
Tom BarkerEarlham Institute, Norwich Research Park, Norwich, UK.
Leah CatchpoleEarlham Institute, Norwich Research Park, Norwich, UK.
Alex DurrantEarlham Institute, Norwich Research Park, Norwich, UK.
Fiona FraserEarlham Institute, Norwich Research Park, Norwich, UK.
Karim GharbiEarlham Institute, Norwich Research Park, Norwich, UK.
Christian HarrisonRothamsted Research, Protecting Crops and the Environment, Harpenden, UK.
Suzanne HendersonEarlham Institute, Norwich Research Park, Norwich, UK.
Naomi IrishEarlham Institute, Norwich Research Park, Norwich, UK.
Gemy KaithakottilEarlham Institute, Norwich Research Park, Norwich, UK.
Ilia J LeitchRoyal Botanic Gardens, Kew, Richmond, Surrey, UK.ORCID 0000-0002-3837-8186
Jun LiCollege of Plant Protection, Nanjing Agricultural University, Nanjing, China.
Sacha LucchiniEarlham Institute, Norwich Research Park, Norwich, UK.
Paul NeveRothamsted Research, Protecting Crops and the Environment, Harpenden, UK.
Robyn PowellRoyal Botanic Gardens, Kew, Richmond, Surrey, UK.
Hannah ReesEarlham Institute, Norwich Research Park, Norwich, UK.
David SwarbreckEarlham Institute, Norwich Research Park, Norwich, UK.
Chris WatkinsEarlham Institute, Norwich Research Park, Norwich, UK.
Jonathan WoodWellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.ORCID 0000-0002-7545-2162
Seanna McTaggartEarlham Institute, Norwich Research Park, Norwich, UK.
Anthony HallEarlham Institute, Norwich Research Park, Norwich, UK.ORCID 0000-0002-1806-020X
Dana MacGregorRothamsted Research, Protecting Crops and the Environment, Harpenden, UK. dana.macgregor@rothamsted.ac.uk.ORCID 0000-0003-0543-0408

Funding

RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/ER/23NB0006RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/E/T/000PR9816RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBS/OS/CP/000001RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BB/X010953/1; BBS/E/RH/230003ARCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBX011089/1;BB/CCG2220/1RCUK | Biotechnology and Biological Sciences Research Council (BBSRC) BBX011089/1; BBS/E/ER/230002BWellcome TrustWellcome Trust 218328
6 · The paper itself

Abstract

Alopecurus aequalis is a winter annual or short-lived perennial bunchgrass which has in recent years emerged as the dominant agricultural weed of barley and wheat in certain regions of China and Japan, causing significant yield losses. Its robust tillering capacity and high fecundity, combined with the development of both target and non-target-site resistance to herbicides means it is a formidable challenge to food security. Here we report on a chromosome-scale assembly of A. aequalis with a genome size of 2.83 Gb. The genome contained 33,758 high-confidence protein-coding genes with functional annotation. Comparative genomics revealed that the genome structure of A. aequalis is more similar to Hordeum vulgare rather than the more closely related Alopecurus myosuroides.

Indexed as

Genome, PlantPoaceaeChromosomes, PlantHordeumMolecular Sequence Annotation

Identifiers

PMID39695199
PMCPMC11655881

What Socratic 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 Socratic graph.