Evidence map›Paper›PMID 30560928›Full record

ArticleScientific reports2018

Primula vulgaris (primrose) genome assembly, annotation and gene expression, with comparative genomics on the heterostyly supergene.

Jonathan M Cocker, Jonathan Wright, Jinhong Li, David Swarbreck, Sarah Dyer, Mario Caccamo, Philip M Gilmartin

Open access · goldAbstract read
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 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed
1.4field-weighted citation impact, top 18% 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

23 citing papers in PubMed, 66 citations in OpenAlex.

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  8. Genomic analyses elucidateEcology and evolution · 2024
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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

7 authors at 3 institutions in 1 country.

Jonathan M CockerSchool of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, United Kingdom.ORCID http://orcid.org/0000-0003-1850-5480
Jonathan WrightEarlham Institute, Norwich Research Park, Norwich, NR4 7UZ, United Kingdom.ORCID http://orcid.org/0000-0001-6471-8749
Jinhong LiSchool of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, United Kingdom.
David SwarbreckEarlham Institute, Norwich Research Park, Norwich, NR4 7UZ, United Kingdom.
Sarah DyerNational Institute for Agricultural Botany, Huntingdon Road, Cambridge, CB3 0LE, United Kingdom.
Mario CaccamoNational Institute for Agricultural Botany, Huntingdon Road, Cambridge, CB3 0LE, United Kingdom.
Philip M GilmartinSchool of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, United Kingdom. p.gilmartin@uea.ac.uk.
University of East Anglia · GBNational Institute of Agricultural Botany · GBNorwich Research Park · GB

Funding

Biotechnology and Biological Sciences Research Council BB/H019278/1Biotechnology and Biological Sciences Research Council (BBSRC) BB/H019278/2
6 · The paper itself

Abstract

Primula vulgaris (primrose) exhibits heterostyly: plants produce self-incompatible pin- or thrum-form flowers, with anthers and stigma at reciprocal heights. Darwin concluded that this arrangement promotes insect-mediated cross-pollination; later studies revealed control by a cluster of genes, or supergene, known as the S (Style length) locus. The P. vulgaris S locus is absent from pin plants and hemizygous in thrum plants (thrum-specific); mutation of S locus genes produces self-fertile homostyle flowers with anthers and stigma at equal heights. Here, we present a 411 Mb P. vulgaris genome assembly of a homozygous inbred long homostyle, representing ~87% of the genome. We annotate over 24,000 P. vulgaris genes, and reveal more genes up-regulated in thrum than pin flowers. We show reduced genomic read coverage across the S locus in other Primula species, including P. veris, where we define the conserved structure and expression of the S locus genes in thrum. Further analysis reveals the S locus has elevated repeat content (64%) compared to the wider genome (37%). Our studies suggest conservation of S locus genetic architecture in Primula, and provide a platform for identification and evolutionary analysis of the S locus and downstream targets that regulate heterostyly in diverse heterostylous species.

Indexed as

Computational BiologyGene Expression Regulation, PlantGenome, PlantGenomicsChromosome MappingGenetic LociPhenotypePhylogenyPrimulaRepetitive Sequences, Nucleic Acid

Identifiers

PMID30560928
PMCPMC6299000
OpenAlexW2905183702

What OpenQuestion holds

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LicenceCC BY
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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.