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| Status |
Public on Aug 09, 2012 |
| Title |
CF virginQueen replicate 2 (HiSeq) |
| Sample type |
SRA |
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| Source name |
whole individuals
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| Organism |
Camponotus floridanus |
| Characteristics |
colony: CF virginQueen
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| Treatment protocol |
The bisulfite conversion of sample DNA was carried out using a modified NH4SO4-based protocol.
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Up to 20 µg of total genomic DNA were isolated from embryos, larvae, males, virgin queens and queens for both species, as well as major and minor workers for C. floridanus, and workers and gamergates for H. saltator. DNA was fragmented by sonication with a Covaris S2 system (Covaris, MA) to a mean size of approximately 150 bp, followed by end-repair, 3'-end addition of dA, and adapter ligation. Methylated adapters were used according to the manufacturer's instructions (Illumina). The bisulfite conversion of sample DNA was carried out using a modified NH4SO4-based protocol and amplified by 9 cycles of PCR. Pair-end sequencing was carried out using Illumina Genome Analyzers.
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| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
Sequenced reads were generated from whole individuals of Camponotus floridanus virgin queens after removal of gut and poison glands.
CF_VQ.v3.5.Cdepth
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| Data processing |
BS-Seq reads were aligned onto the corresponding v3.5 reference genomes using SOAP2 allowing two mismatches for 44 or 49 bp paired-end reads and four mismatches for 75 bp paired-end reads.
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| Submission date |
Aug 22, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Hong zhi Cao |
| E-mail(s) |
caohongzhi@genomics.cn
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| Phone |
8675525274032
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| Organization name |
BGI-SHENZHEN
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| Department |
Bioinformatics
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| Street address |
F5, Main Building, Beishan Industrial Zone, Beishan Road, Yantian District
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| City |
Shenzhen |
| State/province |
Guangdong |
| ZIP/Postal code |
518083 |
| Country |
China |
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| Platform ID |
GPL14137 |
| Series (2) |
| GSE31576 |
Single base resolution methylome of two ants: Camponotus floridanus and Harpegnathos saltator |
| GSE31577 |
Genome-wide analysis of global and caste-specific DNA methylation in two ant species: Camponotus floridanus and Harpegnathos saltator |
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| Relations |
| SRA |
SRX093278 |
| BioSample |
SAMN00714205 |
| Supplementary data files not provided |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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