ArticleMolecular genetics and genomics : MGG2010
Genome-wide discovery of DNA polymorphism in Brassica rapa.
Article in Molecular genetics and genomics : MGG, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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
31 citing papers in PubMed, 65 citations in OpenAlex.
- The Bra1K array: an efficient and versatile 1K liquid-phase SNP chip for genetics and breeding in Chinese cabbage.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Genetic diversity and population structure in Ethiopian mustard (Brassica carinata A. Braun) revealed by high-density DArTSeq SNP genotyping.BMC genomics · 2025Article
- Genetic Diversity and Population Structure of a Large USDA Sesame Collection.Plants (Basel, Switzerland) · 2024Article
- The Construction of lncRNA/circRNA-miRNA-mRNA Networks Reveals Functional Genes Related to Growth Traits inInternational journal of molecular sciences · 2024Article
- Whole-genome sequencing and variant discovery of Citrus reticulata "Kinnow" from Pakistan.Functional & integrative genomics · 2023Article
- Development of GBTS and KASP Panels for Genetic Diversity, Population Structure, and Fingerprinting of a Large Collection of Broccoli (Frontiers in plant science · 2021Article
- Portuguese wild grapevine genome re-sequencing (Vitis vinifera sylvestris).Scientific reports · 2020Article
- Detecting selection with a genetic cross.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Article
- Identification of genome-wide single-nucleotide polymorphisms among geographically diverse radish accessions.DNA research : an international journal for rapid publication of reports on genes and genomes · 2020Article
- Genome-wide DNA polymorphisms in four Actinidia arguta genotypes based on whole-genome re-sequencing.PloS one · 2020Article
- An extended KASP-SNP resource for molecular breeding in Chinese cabbage(Brassica rapa L. ssp. pekinensis).PloS one · 2020Article
- Genetic Diversity and Population Structure of aFrontiers in plant science · 2019Article
- Genome re-sequencing, SNP analysis, and genetic mapping of the parental lines of a commercial FBreeding science · 2018Article
- Exploring the phylogeography of a hexaploid freshwater fish by RAD sequencing.Ecology and evolution · 2018Article
- IntroMap: a signal analysis based method for the detection of genomic introgressions.BMC genetics · 2017Article
- A genome-wide SNP-based genetic map and QTL mapping for agronomic traits in Chinese cabbage.Scientific reports · 2017Article
- Identification of candidate domestication regions in the radish genome based on high-depth resequencing analysis of 17 genotypes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2016Article
- Construction of a reference genetic map of Raphanus sativus based on genotyping by whole-genome resequencing.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2015Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single nucleotide polymorphisms (SNPs) and/or insertion/deletions (InDels) are frequent sequence variations in the plant genome, which can be developed as molecular markers for genetic studies on crop improvement. The ongoing Brassica rapa genome sequencing project has generated vast amounts of sequence data useful in genetic research. Here, we report a genome-wide survey of DNA polymorphisms in the B. rapa genome based on the 557 bacterial artificial clone sequences of B. rapa ssp. pekinensis cv. Chiifu. We identified and characterized 21,311 SNPs and 6,753 InDels in the gene space of the B. rapa genome by re-sequencing 1,398 sequence-tagged sites (STSs) in eight genotypes. Comparison of our findings with a B. rapa genetic linkage map confirmed that STS loci were distributed randomly over the B. rapa whole genome. In the 1.4 Mb of aligned sequences, mean nucleotide polymorphism and diversity were theta = 0.00890 and pi = 0.00917, respectively. Additionally, the nucleotide diversity in introns was almost three times greater than that in exons, and the frequency of observed InDel was almost 17 times higher in introns than in exons. Information regarding SNPs/InDels obtained here will provide an important resource for genetic studies and breeding programs of B. rapa.
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.