ArticlePlant methods2019
Comparative Subsequence Sets Analysis (CoSSA) is a robust approach to identify haplotype specific SNPs; mapping and pedigree analysis of a potato wart disease resistance gene
Article in Plant methods, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 29 citations in OpenAlex.
- Genetic architecture and major genes for tuber skin texture in potato.Horticulture research · 2026Article
- Leveraging unmanned aerial vehicle derived multispectral data for improved genomic prediction in potato (Solanum tuberosum).The plant genome · 2025Article
- Targeted genotyping-by-sequencing of potato and data analysis with R/polyBreedR.The plant genome · 2024Article
- Mapping of a novel locus Ra conferring extreme resistance against potato virus A in cultivated potato (Solanum tuberosum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- KASP: a high-throughput genotyping system and its applications in major crop plants for biotic and abiotic stress tolerance.Molecular biology reports · 2024Review
- Synchytrium endobioticum, the potato wart disease pathogen.Molecular plant pathology · 2022Review
- Polyploid QTL-seq towards rapid development of tightly linked DNA markers for potato and sweetpotato breeding through whole-genome resequencing.Plant biotechnology journal · 2021Article
- Resisting Potato Cyst Nematodes With Resistance.Frontiers in plant science · 2021Review
- A Hitchhiker's guide to the potato wart disease resistance galaxy.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- The origin and widespread occurrence of Sli-based self-compatibility in potato.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Distribution of P1(D1) wart disease resistance in potato germplasm and GWAS identification of haplotype-specific SNP markers.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundStandard strategies to identify genomic regions involved in a specific trait variation are often limited by time and resource consuming genotyping methods. Other limiting pre-requisites are the phenotyping of large segregating populations or of diversity panels and the availability and quality of a closely related reference genome. To overcome these limitations, we designed efficient Comparative Subsequence Sets Analysis (CoSSA) workflows to identify haplotype specific SNPs linked to a trait of interest from Whole Genome Sequencing data.
resultsAs a model, we used the resistance to
conclusionsCoSSA is an efficient, robust and versatile set of workflows for the genetic analysis of a trait of interest using WGS data. Because the WGS data are used without intermediate reads mapping, CoSSA does not require the use of a reference genome. This approach allowed the identification of
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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.