ArticleBMC genomics2011
A sequence-based genetic linkage map as a reference for Brassica rapa pseudochromosome assembly.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Chromosome-Level Assembly Reveals a Fifteen-Chromosome Aneuploid Genome and Environmental Adaptation Strategy of Chinese Traditional Medical FungusInternational journal of molecular sciences · 2024Article
- Soybean Variety Saedanbaek Confers a New Resistance Allele toPlants (Basel, Switzerland) · 2023Article
- A high-density genetic map construction and sex-related loci identification in Chinese Giant salamander.BMC genomics · 2021Article
- Genetic Analysis and Fine Mapping of a Spontaneously Mutated Male Sterility Gene inG3 (Bethesda, Md.) · 2020Article
- Construction of a High-Density Genetic Map and Identification of Quantitative Trait Loci for Nitrite Tolerance in the Pacific White Shrimp (Frontiers in genetics · 2020Article
- Genome-wide characterization of ALDH Superfamily in Brassica rapa and enhancement of stress tolerance in heterologous hosts by BrALDH7B2 expression.Scientific reports · 2019Article
- Article
- A genome-wide SNP-based genetic map and QTL mapping for agronomic traits in Chinese cabbage.Scientific reports · 2017Article
- Fine mapping and candidate gene analysis of an anthocyanin-rich gene, BnaA.PL1, conferring purple leaves in Brassica napus L.Molecular genetics and genomics : MGG · 2016Article
- Article
- A High-Density Genetic Linkage Map for Cucumber (Cucumis sativus L.): Based on Specific Length Amplified Fragment (SLAF) Sequencing and QTL Analysis of Fruit Traits in Cucumber.Frontiers in plant science · 2016Article
- Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei.Scientific reports · 2015Article
- Genome-wide DNA polymorphisms in two cultivars of mei (Prunus mume sieb. et zucc.).BMC genetics · 2013Article
- Construction of a high-density genetic map for sesame based on large scale marker development by specific length amplified fragment (SLAF) sequencing.BMC plant biology · 2013Article
- RNA-seq based SNPs in some agronomically important oleiferous lines of Brassica rapa and their use for genome-wide linkage mapping and specific-region fine mapping.BMC genomics · 2013Article
- Development of InDel markers for Brassica rapa based on whole-genome re-sequencing.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Article
- QTL mapping of leafy heads by genome resequencing in the RIL population of Brassica rapa.PloS one · 2013Article
- Mapping and candidate-gene screening of the novel Turnip mosaic virus resistance gene retr02 in Chinese cabbage (Brassica rapa L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Article
- A reference linkage map for Eucalyptus.BMC genomics · 2012Article
- Genetic analysis of morphological traits in a new, versatile, rapid-cycling Brassica rapa recombinant inbred line population.Frontiers in plant science · 2012Article
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundBrassica rapa is an economically important crop and a model plant for studies concerning polyploidization and the evolution of extreme morphology. The multinational B. rapa Genome Sequencing Project (BrGSP) was launched in 2003. In 2008, next generation sequencing technology was used to sequence the B. rapa genome. Several maps concerning B. rapa pseudochromosome assembly have been published but their coverage of the genome is incomplete, anchoring approximately 73.6% of the scaffolds on to chromosomes. Therefore, a new genetic map to aid pseudochromosome assembly is required.
resultsThis study concerns the construction of a reference genetic linkage map for Brassica rapa, forming the backbone for anchoring sequence scaffolds of the B. rapa genome resulting from recent sequencing efforts. One hundred and nineteen doubled haploid (DH) lines derived from microspore cultures of an F1 cross between a Chinese cabbage (B. rapa ssp. pekinensis) DH line (Z16) and a rapid cycling inbred line (L144) were used to construct the linkage map. PCR-based insertion/deletion (InDel) markers were developed by re-sequencing the two parental lines. The map comprises a total of 507 markers including 415 InDels and 92 SSRs. Alignment and orientation using SSR markers in common with existing B. rapa linkage maps allowed ten linkage groups to be identified, designated A01-A10. The total length of the linkage map was 1234.2 cM, with an average distance of 2.43 cM between adjacent marker loci. The lengths of linkage groups ranged from 71.5 cM to 188.5 cM for A08 and A09, respectively. Using the developed linkage map, 152 scaffolds were anchored on to the chromosomes, encompassing more than 82.9% of the B. rapa genome. Taken together with the previously available linkage maps, 183 scaffolds were anchored on to the chromosomes and the total coverage of the genome was 88.9%.
conclusionsThe development of this linkage map is vital for the integration of genome sequences and genetic information, and provides a useful resource for the international Brassica research community.
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