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| Status |
Public on Jul 14, 2017 |
| Title |
MethylC-seq on 4 pooled D. novaeangliae adult females |
| Sample type |
SRA |
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| Source name |
genomic DNA
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| Organism |
Dufourea novaeangliae |
| Characteristics |
collection method: caught as adult near Lake Ontario
tissue: 4 pooled whole-bodies
age: adult
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| Treatment protocol |
N/A
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from individual whole bodies of these three species using a standard phenol-chloroform protocol, then pooled for bisulfite conversion and sequencing of a single library per species.
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| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
MethylC–seq
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| Data processing |
Data were mapped to the Dufourea novaeangliae v1.1 genome, the Lasioglossum albipes OGSv5.42 genome, and the Neodiprion lecontei v1.0 genome respectively
MethylC-seq analysis were performed as described in Glastad et al. (In submission) : Variation in DNA methylation is not consistently reflected by CpG depletion or sociality in Hymenoptera
Genome_build: Dufourea novaeangliae v1.1 genome (http://hymenopteragenome.org/beebase/sites/hymenopteragenome.org.beebase/files/data/consortium_data/Dufourea_novaeangliae.fa.gz), the Lasioglossum albipes OGSv5.42 genome (http://hymenopteragenome.org/beebase/sites/hymenopteragenome.org.beebase/files/data/consortium_data/Lalb_v2.fa.gz), and the Neodiprion lecontei v1.0 genome (Nlec1.0)
Supplementary_files_format_and_content: tab delimited text file, <scaffold> <position> <fraction methylated reads> <number of methylated reads> <number of unmethylated reads> <Benjamini-Hochberg corrected binomial test result>
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| Submission date |
Jan 20, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Brendan G. Hunt |
| E-mail(s) |
huntbg@uga.edu
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| Phone |
(770) 412-4093
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| Organization name |
University of Georgia
|
| Department |
Entomology
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| Lab |
Brendan G. Hunt Lab
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| Street address |
125 Redding Building, Griffin Campus, 1109 Experiment Street
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| City |
Griffin |
| State/province |
GA |
| ZIP/Postal code |
30223 |
| Country |
USA |
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| Platform ID |
GPL22968 |
| Series (1) |
| GSE93893 |
Variation in DNA methylation is not consistently reflected by sociality in Hymenoptera |
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| Relations |
| BioSample |
SAMN06246773 |
| SRA |
SRX2508580 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2464561_DNOVA.BH_meth.mergedCG.txt.gz |
65.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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