ArticlePlant molecular biology2011
RNA-Seq analysis and de novo transcriptome assembly of Hevea brasiliensis.
Article in Plant molecular biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers.
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84 citing papers in PubMed.
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- Combining independent de novo assemblies to optimize leaf transcriptome of Persian walnut.PloS one · 2020Article
- Transcriptome analysis and codominant markers development in caper, a drought tolerant orphan crop with medicinal value.Scientific reports · 2019Article
- De novo assembly and transcriptome of Pfaffia glomerata uncovers the role of photoautotrophy and the P450 family genes in 20-hydroxyecdysone production.Protoplasma · 2019Article
- De novo assembly of transcriptomes, mining, and development of novel EST-SSR markers in Curcuma alismatifolia (Zingiberaceae family) through Illumina sequencing.Scientific reports · 2019Article
- Transcriptomic Evidence of Adaptive Evolution of the Epiphytic FernInternational journal of genomics · 2019Article
- Transcriptome sequencing of Pinus kesiya var. langbianensis and comparative analysis in the Pinus phylogeny.BMC genomics · 2018Article
- A comprehensive analysis of the Korean fir (Abies koreana) genes expressed under heat stress using transcriptome analysis.Scientific reports · 2018Article
- Identification of JAZ-interacting MYC transcription factors involved in latex drainage in Hevea brasiliensis.Scientific reports · 2018Article
- Effect of fluoride treatment on gene expression in tea plant (Camellia sinensis).Scientific reports · 2017Article
- Multiple facets of laticifer cells.Plant signaling & behavior · 2017Review
- Transcriptome profiling of litchi leaves in response to low temperature reveals candidate regulatory genes and key metabolic events during floral induction.BMC genomics · 2017Article
- Integration of omics approaches to understand oil/protein content during seed development in oilseed crops.Plant cell reports · 2017Review
24 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors.
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Abstract
Hevea brasiliensis, being the only source of commercial natural rubber, is an extremely economically important crop. In an effort to facilitate biological, biochemical and molecular research in rubber biosynthesis, here we report the use of next-generation massively parallel sequencing technologies and de novo transcriptome assembly to gain a comprehensive overview of the H. brasiliensis transcriptome. The sequencing output generated more than 12 million reads with an average length of 90 nt. In total 48,768 unigenes (mean size = 436 bp, median size = 328 bp) were assembled through de novo transcriptome assembly. Out of 13,807 H. brasiliensis cDNA sequences deposited in Genbank of the National Center for Biotechnology Information (NCBI) (as of Feb 2011), 11,746 sequences (84.5%) could be matched with the assembled unigenes through nucleotide BLAST. The assembled sequences were annotated with gene descriptions, Gene Ontology (GO) and Clusters of Orthologous Group (COG) terms. In all, 37,432 unigenes were successfully annotated, of which 24,545 (65.5%) aligned to Ricinus communis proteins. Furthermore, the annotated uingenes were functionally classified according to the GO, COG and Kyoto Encyclopedia of Genes and Genomes databases. Our data provides the most comprehensive sequence resource available for the study of rubber trees as well as demonstrates effective use of Illumina sequencing and de novo transcriptome assembly in a species lacking genomic information.
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