ArticleG3 (Bethesda, Md.)2015
SNP Assay Development for Linkage Map Construction, Anchoring Whole-Genome Sequence, and Other Genetic and Genomic Applications in Common Bean.
Article in G3 (Bethesda, Md.), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 82 papers, 2 of them syntheses that pooled 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.
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.
Who cites it
82 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Combination of meta-analysis of QTL and GWAS to uncover the genetic architecture of seed yield and seed yield components in common bean.The plant genome · 2023Pooled it
- Genome-wide meta-QTL analyses provide novel insight into disease resistance repertoires in common bean.BMC genomics · 2022Pooled it
- Integrative genomic analyses reveal candidate genes for the Ur-3 and Ur-7 rust resistance loci in common bean.The plant genome · 2026Article
- Regional heritability mapping reveals genomic regions and candidate defense genes for multi-race anthracnose resistance in Phaseolus vulgaris.Scientific reports · 2026Article
- Fine Mapping of thePlants (Basel, Switzerland) · 2026Article
- Advancing anthracnose resistance in dry beans through the transition from traditional to computational breeding efforts.Frontiers in plant science · 2026Review
- Fine mapping of the Co-Bf gene conferring broad-spectrum resistance to the anthracnose pathogen of common bean (Phaseolus vulgaris L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Characterization and mapping of a rust resistance locus in the common bean landrace G19833.G3 (Bethesda, Md.) · 2025Article
- Fine mapping of the unique Ur-11 gene conferring broad resistance to the rust pathogen of common bean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Mapping resistance to Sclerotinia white mold in two pinto bean recombinant inbred line populations.The plant genome · 2025Article
- Integration of QTL mapping and GWAS reveals the complicated genetic architecture of chemical composition traits in tobacco leaves.Frontiers in plant science · 2025Article
- Horticultural performance and QTL mapping of snap bean (Frontiers in plant science · 2025Article
- Genome-Wide Association for Morphological and Agronomic Traits inPlants (Basel, Switzerland) · 2024Article
- The Kirkhouse Trust: Successes and Challenges in Twenty Years of Supporting Independent, Contemporary Grain Legume Breeding Projects in India and African Countries.Plants (Basel, Switzerland) · 2024Review
- A Past Genetic Bottleneck from Argentine Beans and a Selective Sweep Led to the Race Chile of the Common Bean (International journal of molecular sciences · 2024Article
- Revolutionizing nematode management to achieve global food security goals - An overview.Heliyon · 2024Review
- Genome-Wide Association Study and Genomic Prediction of Fusarium Wilt Resistance in Common Bean Core Collection.International journal of molecular sciences · 2023Article
- Biofortification of common bean (Food and energy security · 2023Review
- A robust SNP-haplotype assay forFrontiers in plant science · 2023Article
- Genome-wide association analysis reveals the optimal genomic regions for pod size in bean.Frontiers in plant science · 2023Article
22 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A total of 992,682 single-nucleotide polymorphisms (SNPs) was identified as ideal for Illumina Infinium II BeadChip design after sequencing a diverse set of 17 common bean (Phaseolus vulgaris L) varieties with the aid of next-generation sequencing technology. From these, two BeadChips each with >5000 SNPs were designed. The BARCBean6K_1 BeadChip was selected for the purpose of optimizing polymorphism among market classes and, when possible, SNPs were targeted to sequence scaffolds in the Phaseolus vulgaris 14× genome assembly with sequence lengths >10 kb. The BARCBean6K_2 BeadChip was designed with the objective of anchoring additional scaffolds and to facilitate orientation of large scaffolds. Analysis of 267 F2 plants from a cross of varieties Stampede × Red Hawk with the two BeadChips resulted in linkage maps with a total of 7040 markers including 7015 SNPs. With the linkage map, a total of 432.3 Mb of sequence from 2766 scaffolds was anchored to create the Phaseolus vulgaris v1.0 assembly, which accounted for approximately 89% of the 487 Mb of available sequence scaffolds of the Phaseolus vulgaris v0.9 assembly. A core set of 6000 SNPs (BARCBean6K_3 BeadChip) with high genotyping quality and polymorphism was selected based on the genotyping of 365 dry bean and 134 snap bean accessions with the BARCBean6K_1 and BARCBean6K_2 BeadChips. The BARCBean6K_3 BeadChip is a useful tool for genetics and genomics research and it is widely used by breeders and geneticists in the United States and abroad.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.