Evidence map›Paper›PMID 42287125›Full record

ArticleThe plant genome2026

A public mid-density genotyping platform for pecan [Carya illinoinensis (Wangenh.) K. Koch].

Shufen Chen, Meng Lin, Dongyan Zhao, Warren Chatwin, Xinwang Wang, Angelyn Hilton, John T Lovell, Jennifer Randall, Kasia Heller-Uszynska, Cristiane H Taniguti and 2 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in The plant genome, 2026. 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
–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

2 citing papers in PubMed.

  1. Standardized microhaplotype databases and frameworks for assessing and mining crop genetic diversity.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 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

12 authors.

Shufen ChenBreeding Insight, Cornell University, Ithaca, New York, USA.ORCID https://orcid.org/0000-0003-0577-2598
Meng LinBreeding Insight, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida, USA.ORCID https://orcid.org/0000-0001-5216-6430
Dongyan ZhaoBreeding Insight, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida, USA.ORCID https://orcid.org/0000-0002-2080-8416
Warren ChatwinUSDA-ARS Crop Germplasm Research Unit, College Station, Texas, USA.ORCID https://orcid.org/0000-0003-1769-7417
Xinwang WangUSDA-ARS Crop Germplasm Research Unit, College Station, Texas, USA.ORCID https://orcid.org/0000-0002-5679-0764
Angelyn HiltonUSDA-ARS Crop Germplasm Research Unit, College Station, Texas, USA.ORCID https://orcid.org/0000-0002-9084-5052
John T LovellGenome Sequencing Center, HudsonAlpha Institute for Biotechnology, Huntsville, Alabama, USA.
Jennifer RandallDepartment of Entomology, Plant Pathology and Weed Science, New Mexico State University, Las Cruces, New Mexico, USA.
Kasia Heller-UszynskaDiversity Arrays Technology, Canberra, Australian Capital Territory, Australia.ORCID https://orcid.org/0009-0009-5536-8949
Cristiane H TanigutiBreeding Insight, Cornell University, Ithaca, New York, USA.ORCID https://orcid.org/0000-0002-2021-6883
Craig T BeilBreeding Insight, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida, USA.ORCID https://orcid.org/0000-0002-1756-9987
Moira J SheehanBreeding Insight, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida, USA.ORCID https://orcid.org/0000-0002-3400-2165

Funding

Agricultural Research Service 3091-21000-046-000-DAgricultural Research Service 8062-21000-043-004-AAgricultural Research Service 8062-21000-052-002-AAgricultural Research Service 8062-21000-052-003-AAgricultural Research Service 8062-21000-052-020-ANational Institute of Food and Agriculture 2016-51181-25408National Institute of Food and Agriculture 2022-51181-38332
6 · The paper itself

Abstract

Pecan [Carya illinoinensis (Wangenh.) K. Koch] is the fifth-largest tree nut in global cultivation, with 80% of production occurring in the southern states of the United States. Despite the economic and health benefits of pecans, there is a lack of genomic tools available to breeders for crop improvement. The pecan breeding community is small, and most breeding programs have many barriers to adopting technology, particularly in the cost and know-how needed to create and use genetic marker panels for genomic-based decisions in selection. Here, we report the creation of a DArTag (Diversity Array Technology [DArT]) panel of 3100 loci distributed across the diploid pecan genome for use in molecular breeding and genomic prediction. Here, we show the panel's ability to distinguish key parents and founders of cultivated pecan from other Carya species that may be used in pre-breeding. We also demonstrate that the resultant data can create a linkage map in a biparental population. The creation of this marker panel brings cost-effective and rapid genotyping capabilities to pecan breeding programs, making routine genotyping a reality for any pecan breeder. Furthermore, the open access provided by this platform enables the comparison and integration of genetic datasets generated on the marker panel across projects, institutions, and countries.

Indexed as

CaryaGenotyping TechniquesChromosome MappingGenetic MarkersGenome, PlantGenotypePlant BreedingGenetic Markers

Identifiers

PMID42287125
PMCPMC13263899

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.