Evidence map›Paper›PMID 40492452›Full record

ArticleThe Journal of heredity2026

A near chromosome-level assembly of the serpentine endemic columbine, Aquilegia eximia.

Jason Johns, Merly Escalona, Courtney Miller, Noravit Chumchim, Oanh Nguyen, Mohan P A Marimuthu, Samuel Sacco, Colin Fairbairn, Eric Beraut, Erin Toffelmier and 2 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in The Journal of heredity, 2026. 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. The genome sequence ofWellcome open research · 2026
    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

12 authors.

Jason JohnsDepartment of Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, Santa Barbara, CA, United States.ORCID 0009-0008-2381-8653
Merly EscalonaDepartment of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0003-0213-4777
Courtney MillerUCLA La Kretz Center for California Conservation Science, Institute of the Environment and Sustainability, University of California, Los Angeles, Los Angeles, CA, United States.
Noravit ChumchimDNA Technologies and Expression Analysis Core Laboratory, University of California Davis, Davis, CA, United States.
Oanh NguyenDNA Technologies and Expression Analysis Core Laboratory, University of California Davis, Davis, CA, United States.ORCID 0000-0003-1492-2084
Mohan P A MarimuthuDNA Technologies and Expression Analysis Core Laboratory, University of California Davis, Davis, CA, United States.ORCID 0000-0001-6121-3286
Samuel SaccoDepartment of Ecology and Evolutionary Biology, University of California, Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0003-1227-8934
Colin FairbairnDepartment of Ecology and Evolutionary Biology, University of California, Santa Cruz, Santa Cruz, CA, United States.ORCID 0009-0007-8129-0095
Eric BerautDepartment of Ecology and Evolutionary Biology, University of California, Santa Cruz, Santa Cruz, CA, United States.ORCID 0000-0002-4443-6282
Erin ToffelmierUCLA La Kretz Center for California Conservation Science, Institute of the Environment and Sustainability, University of California, Los Angeles, Los Angeles, CA, United States.ORCID 0000-0001-6028-8497
H Bradley ShafferUCLA La Kretz Center for California Conservation Science, Institute of the Environment and Sustainability, University of California, Los Angeles, Los Angeles, CA, United States.ORCID 0000-0002-5795-9242
Scott HodgesDepartment of Ecology, Evolution, and Marine Biology, University of California, Santa Barbara, Santa Barbara, CA, United States.ORCID 0000-0002-0401-6072

Funding

Pacific Biosciences PacBio RS Single Molecule Real Time SequencerS10OD018174 · OD · UNIVERSITY OF CALIFORNIA BERKELEY · PI ROKHSAR, DANIEL SOLEYMAN · 2014 to 2014
$600k
Acquisition of Covaris E220 and Sciclone G3 systems for high throughput sequencinS10OD010786 · OD · UNIVERSITY OF CALIFORNIA AT DAVIS · PI COMAI, LUCA · 2012 to 2012
$311k
NIH HHS S10 OD010786NIH HHS S10 OD018174University of California by the State of California RSI-19-690224
6 · The paper itself

Abstract

The flowering plant genus Aquilegia (columbine) is an important contributor to biodiversity and an example of both biotic and abiotic niche adaptation across much of the Northern Hemisphere, especially in California. Here we report a near-chromosome level draft genome assembly for A. eximia, a California endemic species. A. eximia is a serpentine-soil specialist and is very closely related to 2 columbine species also being studied for the California Conservation Genomics Project (CCGP), A. formosa (widespread) and A. pubescens (high alpine). Utilizing high throughput, long reads (PacBio) and chromatin capture (Omni-C), the A. eximia genome makes marked contiguity improvements compared to the existing reference genome for another North American columbine, A. coerulea "Goldsmith." The A. eximia genome will also be more useful for aligning whole genome resequencing data from California columbines than the genomes for more distantly related columbine species, the Asian A. oxysepala var. kansuensis and the European A. vulgaris. Notably, we found evidence that A. eximia, A. coerulea "Goldsmith," and A. vulgaris all share the same overall genome structure and differ from A. oxysepala var. kansuensis by the same reciprocal translocation. The A. eximia reference genome will be a valuable tool for identifying patterns of plant biodiversity across California for the CCGP, as well as for future population genomic and trait mapping studies.

Indexed as

AquilegiaEcosystemGenome, PlantSoilAsbestos, SerpentineCaliforniaChromosomes, PlantConservation of Natural ResourcesSpecies SpecificityAsbestos, SerpentineSoilCalifornia Conservation Genomics ProjectCCGPplantreciprocal translocationreference genomeultramafic

Identifiers

PMID40492452
PMCPMC12767194

What OpenQuestion holds

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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.