U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

SRX278020: Theobroma cacao pistil transcriptome 3
1 ILLUMINA (Illumina Genome Analyzer IIx) run: 10.6M spots, 2.2G bases, 1.4Gb downloads

Design: Total RNA was isolated from pooled pistil tissues. Illumina RNA-seq was performed according to the manufacturer at the Indiana University Center for Genomics and Bioinformatics.
Submitted by: Indiana University
Study: Theobroma cacao Matina 1-6 genome sequencing project
show Abstracthide Abstract
The cacao tree (Theobroma cacao L.) is a neotropical species native to Amazonian lowland rainforests (1). The Matina variety belongs to the Amelonado genetic group and represents the most common type of cacao in cultivation (3-5). Cacao is grown throughout the humid tropics in more than 50 countries for its beans, used for the production of chocolate and cosmetics. Cacao cultivation supports community livelihoods associated with more than five million smallholder farms (2). The genome of the highly homozygous Matina 1-6 clone was sequenced and annotated to develop cacao genomics tools and accelerate genetic improvement. <br> <br> (1) Motamayor JC, Lachenaud P, da Silva e Mota JW, Loor R, Kuhn DN, Brown JS, Schnell RJ: Geographic and Genetic Population Differentiation of the Amazonian Chocolate Tree Theobroma cacao L. PLoS ONE 2008, 3:e3311. <br> (2) http://www.worldcocoafoundation.org/about-cocoa/ <br> (3) Motamayor JC, Risterucci AM, Heath M, Lanaud C: Cacao domestication II: progenitor germplasm of the Trinitario cacao cultivar. Heredity 2003, 91:322-330. <br> (4) Efombagn I, Motamayor J, Sounigo O, Eskes A, Nyassé S, Cilas C, Schnell R, Manzanares-Dauleux M, Kolesnikova-Allen M: Genetic diversity and structure of farm and GenBank accessions of cacao (Theobroma cacao L.) in Cameroon revealed by microsatellite markers. Tree Genetics & Genomes 2008, 4:821-831. <br> (5) Aikpokpodion P, Motamayor J, Adetimirin V, Adu-Ampomah Y, Ingelbrecht I, Eskes A, Schnell R, Kolesnikova-Allen M: Genetic diversity assessment of sub-samples of cacao, Theobroma cacao L. collections in West Africa using simple sequence repeats marker. Tree Genetics & Genomes 2009, 5:699-711.
Sample: General Sample for Theobroma cacao
SAMN01881291 • SRS420906 • All experiments • All runs
Organism: Theobroma cacao
Library:
Name: ca1
Instrument: Illumina Genome Analyzer IIx
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: RANDOM PCR
Layout: PAIRED
Spot descriptor:
forward113  reverse

Runs: 1 run, 10.6M spots, 2.2G bases, 1.4Gb
Run# of Spots# of BasesSizePublished
SRR85188810,576,2132.2G1.4Gb2015-07-22

ID:
394930

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...