Transcriptome of female and male Xiphophorus maculatus Jp 163 A - SRA

SRX031569: Transcriptome of female and male Xiphophorus maculatus Jp 163 A
2 LS454 (454 GS FLX) runs: 777,070 spots, 214.5M bases, 433.2Mb downloads

Design: cDNA synthesis was performed using SMART cDNA amplification technique with some modifications. The first-strand cDNA was generated by utilizing the 5’Smart Oligo, 5'-AAGCAGTGGTAACAACGCATCCGACGCGGG-3' and 3'Oligo dT SmartIIA, 5'-AAGCAGTGGTAACAACGCATCCGACTTTTTTTTTTTTTTTTTTTTTT-3'. The reaction was carried out in a 20 µl system containing 2 µg of total RNA. 20 µl of the first-strand cDNA synthesis product was used as template for the 1st run of long-distance-PCR (LD-PCR) with optimized cycle number to amplify cDNA for normalization. SmartIIA 5'-AAGCAGTGGTAACAACGCATCCGAC-3' was used as primer in LD-PCR. The volume of each reaction was 100 µl. The products of the 1st run of LD-PCR were purified using QIAquick PCR Purification Kit. Equal amount of the purified LD-PCR products from each RNA sample was mixed for normalization. TRIMMER cDNA Normalization Kit (Innovative Biotechnology Company, Moscow, Russia) that uses duplex-specific nuclease (DSN) treatment was used for normalization reaction. The normalized cDNA was used as template for the 2nd run of LD-PCR. The SMART II was used as the primer for LD-PCR. The products were purified using QIAquick PCR Purification Kit for sequencing.

Submitted by: TEXAS STATE UNIVERSITY

Study: Xiphophorus maculatus

PRJNA62121 • SRP004487 • All experiments • All runs

show Abstracthide Abstract

Large-scale transcriptome study desigend to gain a global view of the molecular mechanisms whereby gene expression may influence sexual dimorphism in Xiphophorus and to develop a database for future studies. The 454-FLX massively parallel DNA sequencing platform was employed to obtain 742,771 and 721,543 reads from 2 normalized cDNA libraries generated from whole adult female and male X. maculatus Jp 163 A, respectively. The reads were assembled into contigs.

Sample: Transcriptome analysis of female and male Xiphophorus maculatus Jp 163 A

SAMN00138243 • SRS139144 • All experiments • All runs

Organism: Xiphophorus maculatus

Library:

Name: Platyfish_Male_run_1

Instrument: 454 GS FLX

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Spot descriptor:

5 forward

Runs: 2 runs, 777,070 spots, 214.5M bases, 433.2Mb

Run	# of Spots	# of Bases	Size	Published
SRR073429	399,772	109.9M	220.4Mb	2011-11-17
SRR073430	377,298	104.6M	212.8Mb	2011-11-17

ID:: 38472

SRA

Sequence Read Archive

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