RRBS of F2 Parus major - SRA

SRX3209918: RRBS of F2 Parus major
1 ILLUMINA (Illumina HiSeq 2500) run: 328.2M spots, 19.3G bases, 7.6Gb downloads

Design: High-quality genomic DNA (1 _g) was sent to the Carver High-Throughput DNA Sequencing and Genotyping Unit (University of Illinois, Urbana, IL, USA) for generation of reduced representation bisulfite sequencing (RRBS) libraries following standard protocols. The final libraries were quantified using Qubit (Life Technologies, Carlsbad, CA, USA) and the average size was determined on an Agilent bioanalyzer DNA7500 DNA chip (Agilent Technologies, Wilmington, DE, USA) and diluted to 10 nM. The 10 nM dilution was further quantitated by qPCR on an ABI 1900 to ensure high accuracy quantification for consistent pooling of barcoded libraries and maximization of the number of clusters in the Illumina flowcell. RRBS Illumina sequencing was performed on multiplexed libraries and loaded onto 8-lane flowcells for cluster formation and sequenced on an Illumina HiSeq2500. The libraries were sequenced to a total read length of 100 bp from one end (single-end sequencing) of the molecules. Fastq files were generated and demultiplexed with with the bcl2fastq v2.17.1.14 Conversion Software (Illumina, San Diego, CA, USA).

Submitted by: University of Helsinki

Study: Parus major Genome sequencing and assembly

PRJNA208335 • SRP055861 • All experiments • All runs

show Abstracthide Abstract

Seasonal timing is a key life-history trait with major fitness consequences. The small songbird Parus major (great tit) for decades has been a model to study fitness traits like e.g. avian timing of reproduction. The research is closely linked to the impact of global climate change on timing and its consequences. Linking quantitative genetic variation in life-history traits with polymorphisms in specific genes is essential for better understanding the causes and consequences of the diversity in these traits. Genetic variation in life-history traits in wild songbirds has been demonstrated in many, often long-term, studies throughout the world. Linking this variation to genomic information requires the development of the necessary genomics tools specifically aimed at these non-model species. The assembly and annotation of the genome of the great tit will greatly enhance the further use of the great tit as a model species in this research field.

Sample: Parus major timing RRBS F2

SAMN07692587 • SRS2534901 • All experiments • All runs

Organism: Parus major

Library:

Name: PmF2ep_1

Instrument: Illumina HiSeq 2500

Strategy: Bisulfite-Seq

Source: GENOMIC

Selection: Reduced Representation

Layout: SINGLE

Runs: 1 run, 328.2M spots, 19.3G bases, 7.6Gb

Run	# of Spots	# of Bases	Size	Published
SRR6067627	328,203,274	19.3G	7.6Gb	2018-11-30

ID:: 4518477

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