ArticleDNA research : an international journal for rapid publication of reports on genes and genomes2011
Transcriptome sequencing of Hevea brasiliensis for development of microsatellite markers and construction of a genetic linkage map.
Article in DNA research : an international journal for rapid publication of reports on genes and genomes, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
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Who cites it
51 citing papers in PubMed.
- Heterozygosity analysis of spontaneous 2n female gametes and centromere mapping of the diploid Hevea brasiliensis based on full-sib triploid populations.Plant reproduction · 2024Article
- Analysis of Genetic Diversity and Resistance to Foliar Pathogens Based on Genotyping-by-Sequencing of a Para Rubber Diversity Panel and Progeny of an Interspecific Cross.Plants (Basel, Switzerland) · 2022Article
- Raw transcriptomics data to gene specific SSRs: a validated free bioinformatics workflow for biologists.Scientific reports · 2020Article
- Whole genome survey analysis and microsatellite motif identification of Sebastiscus marmoratus.Bioscience reports · 2020Article
- Construction of a High-Density Linkage Map and QTL Fine Mapping for Growth- and Sex-Related Traits in Channel Catfish (Frontiers in genetics · 2019Article
- Biosynthesis of Natural Rubber: Current State and Perspectives.International journal of molecular sciences · 2018Review
- De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis.Scientific reports · 2018Article
- Mining and Development of Novel SSR Markers Using Next Generation Sequencing (NGS) Data in Plants.Molecules (Basel, Switzerland) · 2018Review
- Construction of Pará rubber tree genome and multi-transcriptome database accelerates rubber researches.BMC genomics · 2018Article
- High-Resolution Genetic Map and QTL Analysis of Growth-Related Traits ofFrontiers in plant science · 2018Article
- Linkage Disequilibrium and Population Structure in Wild and Cultivated Populations of Rubber Tree (Frontiers in plant science · 2018Article
- Article
- Large-scale collection of full-length cDNA and transcriptome analysis in Hevea brasiliensis.DNA research : an international journal for rapid publication of reports on genes and genomes · 2017Article
- De novo hybrid assembly of the rubber tree genome reveals evidence of paleotetraploidy in Hevea species.Scientific reports · 2017Article
- Article
- Survey of the rubber tree genome reveals a high number of cysteine protease-encoding genes homologous to Arabidopsis SAG12.PloS one · 2017Article
- Transcriptome Analysis of the Signalling Networks in Coronatine-Induced Secondary Laticifer Differentiation from Vascular Cambia in Rubber Trees.Scientific reports · 2016Article
- De novo sequencing of Eucommia ulmoides flower bud transcriptomes for identification of genes related to floral development.Genomics data · 2016Article
- The rubber tree genome shows expansion of gene family associated with rubber biosynthesis.Scientific reports · 2016Article
- A new resource for the development of SSR markers: Millions of loci from a thousand plant transcriptomes.Applications in plant sciences · 2016Article
Corrections and comments
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To obtain more information on the Hevea brasiliensis genome, we sequenced the transcriptome from the vegetative shoot apex yielding 2 311 497 reads. Clustering and assembly of the reads produced a total of 113 313 unique sequences, comprising 28 387 isotigs and 84 926 singletons. Also, 17 819 expressed sequence tag (EST)-simple sequence repeats (SSRs) were identified from the data set. To demonstrate the use of this EST resource for marker development, primers were designed for 430 of the EST-SSRs. Three hundred and twenty-three primer pairs were amplifiable in H. brasiliensis clones. Polymorphic information content values of selected 47 SSRs among 20 H. brasiliensis clones ranged from 0.13 to 0.71, with an average of 0.51. A dendrogram of genetic similarities between the 20 H. brasiliensis clones using these 47 EST-SSRs suggested two distinct groups that correlated well with clone pedigree. These novel EST-SSRs together with the published SSRs were used for the construction of an integrated parental linkage map of H. brasiliensis based on 81 lines of an F1 mapping population. The map consisted of 97 loci, consisting of 37 novel EST-SSRs and 60 published SSRs, distributed on 23 linkage groups and covered 842.9 cM with a mean interval of 11.9 cM and ∼4 loci per linkage group. Although the numbers of linkage groups exceed the haploid number (18), but with several common markers between homologous linkage groups with the previous map indicated that the F1 map in this study is appropriate for further study in marker-assisted selection.
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