ArticlePloS one2012
De novo assembly, characterization and functional annotation of pineapple fruit transcriptome through massively parallel sequencing.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Cysteine Peptidases ofCurrent protein & peptide science · 2025Review
- Genome and Transcriptome Analyses of Genes Involved in Ascorbate Biosynthesis in Pepper Indicate Key Genes Related to Fruit Development, Stresses, and Phytohormone Exposures.Plants (Basel, Switzerland) · 2023Article
- Transcriptome analysis of acerola fruit ripening: insights into ascorbate, ethylene, respiration, and softening metabolisms.Plant molecular biology · 2019Article
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- Physiological Characterization and Comparative Transcriptome Analysis of White and Green Leaves of Ananas comosus var. bracteatus.PloS one · 2017Article
- The draft genome of MD-2 pineapple using hybrid error correction of long reads.DNA research : an international journal for rapid publication of reports on genes and genomes · 2016Article
- Current status of tropical fruit breeding and genetics for three tropical fruit species cultivated in Japan: pineapple, mango, and papaya.Breeding science · 2016Review
- De novo Transcriptome Assembly of Floral Buds of Pineapple and Identification of Differentially Expressed Genes in Response to Ethephon Induction.Frontiers in plant science · 2016Article
- De novo assembly and functional annotation of Myrciaria dubia fruit transcriptome reveals multiple metabolic pathways for L-ascorbic acid biosynthesis.BMC genomics · 2015Article
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- Article
- Developing single nucleotide polymorphism markers for the identification of pineapple (Ananas comosus) germplasm.Horticulture research · 2015Article
- De novo transcriptome sequence assembly from coconut leaves and seeds with a focus on factors involved in RNA-directed DNA methylation.G3 (Bethesda, Md.) · 2014Article
- Towards an improved apple reference transcriptome using RNA-seq.Molecular genetics and genomics : MGG · 2014Article
- Engineering crassulacean acid metabolism to improve water-use efficiency.Trends in plant science · 2014Review
- Comparative transcriptomic analysis of the response to cold acclimation in Eucalyptus dunnii.PloS one · 2014Article
- De novo assembly and characterization of Sophora japonica transcriptome using RNA-seq.BioMed research international · 2014Article
- RNA-seq analysis reveals extensive transcriptional plasticity to temperature stress in a freshwater fish species.BMC genomics · 2013Article
- Sequencing and de novo assembly of the Asian clam (Corbicula fluminea) transcriptome using the Illumina GAIIx method.PloS one · 2013Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPineapple (Ananas comosus var. comosus), is an important tropical non-climacteric fruit with high commercial potential. Understanding the mechanism and processes underlying fruit ripening would enable scientists to enhance the improvement of quality traits such as, flavor, texture, appearance and fruit sweetness. Although, the pineapple is an important fruit, there is insufficient transcriptomic or genomic information that is available in public databases. Application of high throughput transcriptome sequencing to profile the pineapple fruit transcripts is therefore needed. METHODOLOGY/PRINCIPAL
findingsTo facilitate this, we have performed transcriptome sequencing of ripe yellow pineapple fruit flesh using Illumina technology. About 4.7 millions Illumina paired-end reads were generated and assembled using the Velvet de novo assembler. The assembly produced 28,728 unique transcripts with a mean length of approximately 200 bp. Sequence similarity search against non-redundant NCBI database identified a total of 16,932 unique transcripts (58.93%) with significant hits. Out of these, 15,507 unique transcripts were assigned to gene ontology terms. Functional annotation against Kyoto Encyclopedia of Genes and Genomes pathway database identified 13,598 unique transcripts (47.33%) which were mapped to 126 pathways. The assembly revealed many transcripts that were previously unknown.
conclusionsThe unique transcripts derived from this work have rapidly increased of the number of the pineapple fruit mRNA transcripts as it is now available in public databases. This information can be further utilized in gene expression, genomics and other functional genomics studies in pineapple.
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