ArticleBMC genomics2014
A comprehensive genetic map of sugarcane that provides enhanced map coverage and integrates high-throughput Diversity Array Technology (DArT) markers.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 86 citations in OpenAlex.
- From family trials to genomic mate allocation: statistical and genomic strategies to accelerate sugarcane genetic improvement.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Phytoplasma DNA Enrichment from Sugarcane White Leaves for Shotgun Sequencing Improvement.Plants (Basel, Switzerland) · 2024Article
- A chromosomal-scale genome assembly of modern cultivated hybrid sugarcane provides insights into origination and evolution.Nature communications · 2024Article
- QTL mapping and identification of candidate genes linked to red rot resistance in sugarcane.3 Biotech · 2023Article
- Genome-wide association study as a powerful tool for dissecting competitive traits in legumes.Frontiers in plant science · 2023Review
- A draft chromosome-scale genome assembly of a commercial sugarcane.Scientific reports · 2022Article
- A linkage disequilibrium-based approach to position unmapped SNPs in crop species.BMC genomics · 2021Article
- Review
- Detection of a major QTL related to smut disease resistance inherited from a Japanese wild sugarcane using GRAS-Di technology.Breeding science · 2021Article
- Strategies and considerations for implementing genomic selection to improve traits with additive and non-additive genetic architectures in sugarcane breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- An Overview of the Genetics and Genomics of theFrontiers in plant science · 2021Review
- Flow cytometric characterisation of the complex polyploid genome of Saccharum officinarum and modern sugarcane cultivars.Scientific reports · 2019Article
- Development of an Axiom Sugarcane100K SNP array for genetic map construction and QTL identification.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Article
- Analysis of the diversity and tissue specificity of sucrose synthase genes in the long read transcriptome of sugarcane.BMC plant biology · 2019Article
- Recent polyploidization events in three Saccharum founding species.Plant biotechnology journal · 2019Article
- A mosaic monoploid reference sequence for the highly complex genome of sugarcane.Nature communications · 2018Article
- High density SNP and DArT-based genetic linkage maps of two closely related oil palm populations.Journal of applied genetics · 2018Article
- The Endophytic StrainFrontiers in microbiology · 2018Article
- Identification of Genomic Regions Controlling Leaf Scald Resistance in Sugarcane Using a Bi-parental Mapping Population and Selective Genotyping by Sequencing.Frontiers in plant science · 2018Article
- The Challenge of Analyzing the Sugarcane Genome.Frontiers in plant science · 2018Review
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Authors and funding
8 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSugarcane genetic mapping has lagged behind other crops due to its complex autopolyploid genome structure. Modern sugarcane cultivars have from 110-120 chromosomes and are in general interspecific hybrids between two species with different basic chromosome numbers: Saccharum officinarum (2n = 80) with a basic chromosome number of 10 and S. spontaneum (2n = 40-128) with a basic chromosome number of 8. The first maps that were constructed utilised the single dose (SD) markers generated using RFLP, more recent maps generated using AFLP and SSRs provided at most 60% genome coverage. Diversity Array Technology (DArT) markers are high throughput allowing greater numbers of markers to be generated.
resultsProgeny from a cross between a sugarcane variety Q165 and a S. officinarum accession IJ76-514 were used to generate 2467 SD markers. A genetic map of Q165 was generated containing 2267 markers, These markers formed 160 linkage groups (LGs) of which 147 could be placed using allelic information into the eight basic homology groups (HGs) of sugarcane. The HGs contained from 13 to 23 LGs and from 204 to 475 markers with a total map length of 9774.4 cM and an average density of one marker every 4.3 cM. Each homology group contained on average 280 markers of which 43% were DArT markers 31% AFLP, 16% SSRs and 6% SNP markers. The multi-allelic SSR and SNP markers were used to place the LGs into HGs.
conclusionsThe DArT array has allowed us to generate and map a larger number of markers than ever before and consequently to map a larger portion of the sugarcane genome. This larger number of markers has enabled 92% of the LGs to be placed into the 8 HGs that represent the basic chromosome number of the ancestral species, S. spontaneum. There were two HGs (HG2 and 8) that contained larger numbers of LGs verifying the alignment of two sets of S. officinarum chromosomes with one set of S. spontaneum chromosomes and explaining the difference in basic chromosome number between the two ancestral species. There was also evidence of more complex structural differences between the two ancestral species.
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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.