ArticleFrontiers in plant science2014
Developing market class specific InDel markers from next generation sequence data in Phaseolus vulgaris L.
Article in Frontiers in plant science, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Genetic Analysis and Fingerprint Construction for Thick-Skinned Melon (Plants (Basel, Switzerland) · 2025Article
- Genetic Variation Study of Several Romanian Pepper (International journal of molecular sciences · 2024Article
- Identification of Insertion and Deletion (InDel) Markers for Chickpea (Plants (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
- Mapping of adult plant recessive resistance to anthracnose in Indian common bean landrace Baspa/KRC 8.Molecular biology reports · 2024Article
- Molecular Characterization and Genetic Diversity of Ginkgo (Plants (Basel, Switzerland) · 2023Article
- A target cultivar-specific identification system based on the chromatographic printed array strip method for eight prominent Japanese citrus cultivars.Breeding science · 2023Article
- Development of Omni InDel and supporting database for maize.Frontiers in plant science · 2023Article
- New genomic regions associated with white mold resistance in dry bean using a MAGIC population.The plant genome · 2022Article
- A Core Set of Snap Bean Genotypes Established by Phenotyping a Large Panel Collected in Europe.Plants (Basel, Switzerland) · 2022Article
- Comparative genomic analysis and phylogeny of NAC25 gene from cultivated and wildFrontiers in plant science · 2022Article
- The Common BeanFrontiers in plant science · 2022Article
- Transcriptomic analysis of salt tolerance-associated genes and diversity analysis using indel markers in yardlong bean (Vigna unguiculata ssp. sesquipedialis).BMC genomic data · 2021Article
- Agarose-resolvable InDel markers based on whole genome re-sequencing in cucumber.Scientific reports · 2021Article
- Development of 50 InDel-based barcode system for genetic identification of tartary buckwheat resources.PloS one · 2021Article
- Development of Whole-Genome Agarose-Resolvable LInDel Markers in Rice.Rice (New York, N.Y.) · 2020Article
- InDel Marker Based Estimation of Multi-Gene Allele Contribution and Genetic Variations for Grain Size and Weight in Rice (International journal of molecular sciences · 2019Article
- Article
- Integrating genetic and physical positions of the anthracnose resistance genes described in bean chromosomes Pv01 and Pv04.PloS one · 2019Article
- Comparative Chloroplast Genomes ofBioMed research international · 2019Article
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Next generation sequence data provides valuable information and tools for genetic and genomic research and offers new insights useful for marker development. This data is useful for the design of accurate and user-friendly molecular tools. Common bean (Phaseolus vulgaris L.) is a diverse crop in which separate domestication events happened in each gene pool followed by race and market class diversification that has resulted in different morphological characteristics in each commercial market class. This has led to essentially independent breeding programs within each market class which in turn has resulted in limited within market class sequence variation. Sequence data from selected genotypes of five bean market classes (pinto, black, navy, and light and dark red kidney) were used to develop InDel-based markers specific to each market class. Design of the InDel markers was conducted through a combination of assembly, alignment and primer design software using 1.6× to 5.1× coverage of Illumina GAII sequence data for each of the selected genotypes. The procedure we developed for primer design is fast, accurate, less error prone, and higher throughput than when they are designed manually. All InDel markers are easy to run and score with no need for PCR optimization. A total of 2687 InDel markers distributed across the genome were developed. To highlight their usefulness, they were employed to construct a phylogenetic tree and a genetic map, showing that InDel markers are reliable, simple, and accurate.
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