2012KELA244 - SRA

SRX1165425: 2012KELA244
1 ILLUMINA (Illumina HiSeq 2500) run: 5.5M spots, 1G bases, 516.2Mb downloads

Design: Illumina Nextera with a truseq adapter. We performed whole-genome sequencing on 12 Bamako, 12 Mopti and 11 Savanna form mosquitoes collected from Kela, Mali. DNA concentration was quantified by a fluorescent assay for double-stranded DNA using a Qubit 2.0 fluorometer (Life Technologies). DNA was cleaned and concentrated with the DNA Clean and Concentrator kit (Zymo Research Corporation). Genomic DNA libraries were constructed from 25-50 ng of input DNA using the Nextera DNA Sample Preparation Kit (Illumina) with TruSeq dual indexing barcodes (Illumina) following the manufacturer’s protocol. Libraries were size-selected with Agencourt AMPure XP beads (Beckman Coulter), according to manufacturer’s instructions for Illumina Hi-Seq libraries. Final library preps were quantified and checked for insert size using a QIAxcel instrument (Qiagen, Valencia, CA) and Bioanalyzer 2100 (Agilent). Barcoded libraries were sequenced by the QB3 Vincent J Coates Genomics Sequencing Laboratory at UC Berkeley on the Illumina HiSeq2500 platform with paired-end 100 bp reads. We assessed the quality of our genome sequencing reads using the FastQC software (http://www.bioinformatics.babraham.ac.uk/projects/fastqc/). Adaptor sequences and poor quality sequence was trimmed from the Illumina fastq files using the Trimmomatic software, using default options. Reads were aligned to the A. gambiae reference genome (AgamP3 ) using the BWA-MEM aligner.

Submitted by: UC Davis

Study: population divergence among Anopheles gambiae chromosomal forms

PRJNA293992 • SRP062875 • All experiments • All runs

show Abstracthide Abstract

Study of population divergence among chromosomal forms of African malaria vectors Anopheles gambiae and A. coluzzii

Sample: Mosquito sample 2012KELA244-Ab of Anopheles gambiae complex

SAMN04012939 • SRS1045949 • All experiments • All runs

Organism: Anopheles gambiae

Library:

Instrument: Illumina HiSeq 2500

Strategy: WGS

Source: GENOMIC

Selection: unspecified

Layout: PAIRED

Spot descriptor:

1 forward101 reverse

Runs: 1 run, 5.5M spots, 1G bases, 516.2Mb

Run	# of Spots	# of Bases	Size	Published
SRR2185420	5,517,607	1G	516.2Mb	2017-04-22

ID:: 1695545

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