ArticleBMC genomics2012
Toward allotetraploid cotton genome assembly: integration of a high-density molecular genetic linkage map with DNA sequence information.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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50 citing papers in PubMed.
- Marker-Assisted Hybridization and Selection for Fiber Quality Improvement in Naturally Colored Cotton (Plants (Basel, Switzerland) · 2025Article
- GHCU, a Molecular Chaperone, Regulates Leaf Curling by Modulating the Distribution of KNGH1 in Cotton.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Genomic and Cytogenetic Analysis of Synthetic Polyploids between Diploid and Tetraploid Cotton (Plants (Basel, Switzerland) · 2023Article
- Article
- Development of Superior Fibre Quality Upland Cotton Cultivar Series 'Ravnaq' Using Marker-Assisted Selection.Frontiers in plant science · 2022Article
- Inheritance, QTLs, and Candidate Genes of Lint Percentage in Upland Cotton.Frontiers in genetics · 2022Review
- A consensus and saturated genetic map provides insight into genome anchoring, synteny of Solanaceae and leaf- and fruit-related QTLs in wolfberry (Lycium Linn.).BMC plant biology · 2021Article
- A Molecular Cytogenetic Map of Scallop (Patinopecten yessoensis).Marine biotechnology (New York, N.Y.) · 2019Article
- Genome-wide analysis of cotton C2H2-zinc finger transcription factor family and their expression analysis during fiber development.BMC plant biology · 2019Article
- QTL analysis for yield and fibre quality traits using three sets of introgression lines developed from three Gossypium hirsutum race stocks.Molecular genetics and genomics : MGG · 2019Article
- Genomewide identification of PPR gene family and prediction analysis on restorer gene inJournal of genetics · 2018Article
- High-density genetic map construction and mapping of the homologous transformation sterility gene (hts) in wheat using GBS markers.BMC plant biology · 2018Article
- Detection of favorable alleles for yield and yield components by association mapping in upland cotton.Genes & genomics · 2018Article
- Association mapping and favourable QTL alleles for fibre quality traits in Upland cotton (Gossypium hirsutum L.).Journal of genetics · 2018Article
- Article
- CRISPR/Cas9 Application for Gene Copy Fate Survey of Polyploid Vertebrates.Frontiers in genetics · 2018Review
- Identification of Introgressed Alleles Conferring High Fiber Quality Derived FromFrontiers in plant science · 2018Article
- Quantitative Trait Locus Mapping and Candidate Gene Analysis forFrontiers in plant science · 2018Article
- Rapid mapping and cloning of the virescent-1 gene in cotton by bulked segregant analysis-next generation sequencing and virus-induced gene silencing strategies.Journal of experimental botany · 2017Article
- Identification of genes related to salt stress tolerance using intron-length polymorphic markers, association mapping and virus-induced gene silencing in cotton.Scientific reports · 2017Article
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9 authors.
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Abstract
backgroundCotton is the world's most important natural textile fiber and a significant oilseed crop. Decoding cotton genomes will provide the ultimate reference and resource for research and utilization of the species. Integration of high-density genetic maps with genomic sequence information will largely accelerate the process of whole-genome assembly in cotton.
resultsIn this paper, we update a high-density interspecific genetic linkage map of allotetraploid cultivated cotton. An additional 1,167 marker loci have been added to our previously published map of 2,247 loci. Three new marker types, InDel (insertion-deletion) and SNP (single nucleotide polymorphism) developed from gene information, and REMAP (retrotransposon-microsatellite amplified polymorphism), were used to increase map density. The updated map consists of 3,414 loci in 26 linkage groups covering 3,667.62 cM with an average inter-locus distance of 1.08 cM. Furthermore, genome-wide sequence analysis was finished using 3,324 informative sequence-based markers and publicly-available Gossypium DNA sequence information. A total of 413,113 EST and 195 BAC sequences were physically anchored and clustered by 3,324 sequence-based markers. Of these, 14,243 ESTs and 188 BACs from different species of Gossypium were clustered and specifically anchored to the high-density genetic map. A total of 2,748 candidate unigenes from 2,111 ESTs clusters and 63 BACs were mined for functional annotation and classification. The 337 ESTs/genes related to fiber quality traits were integrated with 132 previously reported cotton fiber quality quantitative trait loci, which demonstrated the important roles in fiber quality of these genes. Higher-level sequence conservation between different cotton species and between the A- and D-subgenomes in tetraploid cotton was found, indicating a common evolutionary origin for orthologous and paralogous loci in Gossypium.
conclusionThis study will serve as a valuable genomic resource for tetraploid cotton genome assembly, for cloning genes related to superior agronomic traits, and for further comparative genomic analyses in Gossypium.
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