De novo transcriptome assembly of mangosteen (Garcinia mangostana L.) fruit.
Garcinia mangostana L. (Mangosteen), of the family Clusiaceae, is one of the economically important tropical fruits in Indonesia. In the present study, we performed de novo transcriptomic analysis of Garcinia mangostana L. through RNA-Seq technology. We obtained the raw data from 12 libraries through Ion Proton System. Clean reads of 191,735,809 were obtained from 307,634,890 raw reads. The raw data obtained in this study can be accessible in DDBJ database with accession number of DRA005014 with bioproject accession number of PRJDB5091. We obtained 268,851 transcripts as well as 155,850 unigenes, having N50 value of 555 and 433 bp, respectively. Transcript/unigene length ranged from 201 to 5916 bp. The unigenes were annotated with two main databases from NCBI and UniProtKB, respectively having annotated-sequences of 73,287 and 73,107, respectively. These transcriptomic data will be beneficial for studying transcriptome of Garcinia mangostana L.
United Graduate School of Agricultural Sciences, Tokyo University of Agriculture and Technology, Saiwai, Fuchu, Tokyo 183-8509, Japan; Department of Agronomy and Horticulture, Faculty of Agriculture, Bogor Agricultural University, IPB Dramaga Campus, Bogor, West Java 16680, Indonesia; College of Agriculture, Ibaraki University, 3-21-1 Chuo, Ami, Inashiki, Ibaraki 300-0393, Japan.
Deden Derajat
DD
Matra
Department of Applied Biological Science, Faculty of Agriculture, University of Agriculture and Technology, Saiwai, Fuchu, Tokyo 183-8509, Japan.
Toshinori
T
Kozaki
Department of Applied Biological Science, Faculty of Agriculture, University of Agriculture and Technology, Saiwai, Fuchu, Tokyo 183-8509, Japan.
Kazuo
K
Ishii
Department of Agronomy and Horticulture, Faculty of Agriculture, Bogor Agricultural University, IPB Dramaga Campus, Bogor, West Java 16680, Indonesia.
Roedhy
R
Poerwanto
United Graduate School of Agricultural Sciences, Tokyo University of Agriculture and Technology, Saiwai, Fuchu, Tokyo 183-8509, Japan; College of Agriculture, Ibaraki University, 3-21-1 Chuo, Ami, Inashiki, Ibaraki 300-0393, Japan.
Eiichi
E
Inoue
Fruit; Ion Proton; Mangosteen; RNA-Seq; Transcriptome
Nucleic Acids Res. 2012 Jan;40(Database issue):D290-301
22127870
J Mol Biol. 2001 Jan 19;305(3):567-80
11152613
Bioinformatics. 2012 Dec 15;28(24):3211-7
23071270
Anal Biochem. 1994 Nov 15;223(1):7-12
7535022
Phytother Res. 2009 Aug;23(8):1047-65
19172667
Nat Methods. 2011 Sep 29;8(10):785-6
21959131
Nat Protoc. 2013 Aug;8(8):1494-512
23845962
Nat Biotechnol. 2011 May 15;29(7):644-52
21572440
Bioinformatics. 2011 Mar 15;27(6):863-4
21278185
BMC Bioinformatics. 2009 Dec 15;10:421
20003500