Whole genome BSseq December 2015

Progress of high-throughput sequencing, and analysis, of Olympia oyster (Ostrea lurida) bisulfite-treated DNA from Fidalgo Bay broodstock offspring, grown out at two locations:

• Fidalgo Bay (1NF)
• Oyster Bay (2NF)

Notebook(s):

• Sam's Notebook

Discussions:

• Sample Selection

Sample collection date(s), sample tissue(s), storage method, storage location, personnel:

• 20131218, whole body, ,, Jake Heare

• 20131219, whole body, ,, Jake Heare

Sample(s):

• NF2_6 (Lotterhos project - described elsewhere)
• NF_18 (Lotterhos project - described elsewhere)
• 1NF11
• 1NF15
• 1NF16
• 1NF17
• 2NF5
• 2NF6
• 2NF7
• 2NF8

Sample name explanations:

1NF#

1 = Fidalgo Bay outplants

NF = Fidalgo Bay broodstock origination

# = Sample number

2NF#

Same as above, but:

2 = Oyster Bay outplants

DNA extraction date(s), tissue(s), method(s), and personnel:

• 20151023, adductor muscle, Katherine Refers to Lotterhos samples?
• 20151216, whole body, DNAzol, Sam
• 20151218, bisulfite conversion, EZ DNA Methylation-Gold Kit, Sam

Library construction date(s) and personnel:

• 20151221, Illumina library construction/multiplexing, TruSeq DNA Methylation Library Kit, Sam

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Sequencing Details

Sequencing: GENEWIZ, Inc.

• HiSeq2500
• Single lane
• 50bp SE, single-index

Sample submission date(s):

• 20151222 - Bisulfite-treated, multiplexed library

QC Report(s) and brief summaries:

• 20160108_Project_BS1512183_White_Wasington_GENEWIZ-NGS-Data-Report.pdf

Data receipt date(s), format(s), description, and storage location:

Received: 20160108

Format: FASTQ

Location: http://owl.fish.washington.edu/nightingales/O_lurida/

Files:

FILENAME	READS	SAMPLE
11_GGCTAC_L001_R1_001.fastq.gz	10933121	NF2_6
12_CTTGTA_L001_R1_001.fastq.gz	10816647	NF_18
1_ATCACG_L001_R1_001.fastq.gz	9402890	1NF11
2_CGATGT_L001_R1_001.fastq.gz	11954873	1NF15
3_TTAGGC_L001_R1_001.fastq.gz	11817358	1NF16
4_TGACCA_L001_R1_001.fastq.gz	11606618	1NF17
5_ACAGTG_L001_R1_001.fastq.gz	12589609	2NF5
6_GCCAAT_L001_R1_001.fastq.gz	12489766	2NF6
7_CAGATC_L001_R1_001.fastq.gz	10295293	2NF7
8_ACTTGA_L001_R1_001.fastq.gz	14374642	2NF8