|
| Status |
Public on Dec 06, 2012 |
| Title |
haploid_male_1d_Sb_colony_Q1_346 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Reference RNA batch 2006
|
| Organism |
Solenopsis invicta |
| Characteristics |
tissue: whole organism
batch: year 2006
sample type: Amplified total RNA isolated en masse from hundreds of adult workers collected from the foraging area of 30 colonies (eight and seven of each social form from Georgia and Louisiana, respectively)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Qiagen RNeasy Kit following manufacturer's instructions. For adult males, we extracted RNA using standard Trizol protocol.
|
| Label |
Cy5
|
| Label protocol |
Total RNA was amplified using the Ambion Message Amp II kit. Amplified RNA plus Alien spike control RNAs (Stratagene) were labeled using the indirect aa-dUTP labeling method. Reverse transcription primers: random 9mers.
|
| |
|
| Channel 2 |
| Source name |
1-day-old haploid male homozygote Sb
|
| Organism |
Solenopsis invicta |
| Characteristics |
caste: haploid male
genotype: Sb
age: 1-day-old
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Qiagen RNeasy Kit following manufacturer's instructions. For adult males, we extracted RNA using standard Trizol protocol.
|
| Label |
Cy3
|
| Label protocol |
Total RNA was amplified using the Ambion Message Amp II kit. Amplified RNA plus Alien spike control RNAs (Stratagene) were labeled using the indirect aa-dUTP labeling method. Reverse transcription primers: random 9mers.
|
| |
|
| |
| Hybridization protocol |
Hybridization buffer (3x SSC, 0.18% SDS, 200 ng/μl yeast tRNA, 200 ng/µl polyA DNA; final concentration) was added to samples; samples were denatured, applied to microarrays, and hybridized overnight at 64°C. After hybridization, slides were washed sequential.
|
| Scan protocol |
Scanner: Agilent Technologies microarray scanner. Image quantification GenePix 5.1
|
| Description |
RNA from the whole body of an individual ant of specific genotype and age
|
| Data processing |
printTipLoess normalization and between-array normalization with limma (Bioconductor)
|
| |
|
| Submission date |
Dec 06, 2012 |
| Last update date |
Dec 06, 2012 |
| Contact name |
Mingkwan Nipitwattanaphon |
| E-mail(s) |
mingkwann@gmail.com
|
| Organization name |
University of Lausanne
|
| Department |
Department of Ecology and Evolution
|
| Lab |
Keller
|
| Street address |
Biophore Building, UNIL-Sorge
|
| City |
Lausanne |
| ZIP/Postal code |
CH-1015 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL6930 |
| Series (2) |
| GSE42779 |
Effects of ploidy and sex-locus genotype on gene expression patterns in the fire ant Solenopsis invicta [1d] |
| GSE42786 |
Effects of ploidy and sex-locus genotype on gene expression patterns in the fire ant Solenopsis invicta |
|
