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| Status |
Public on Jul 16, 2015 |
| Title |
FW10-Worker Conspecific Nest Swap Trained to Faces |
| Sample type |
SRA |
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| Source name |
worker brain
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| Organism |
Polistes fuscatus |
| Characteristics |
tissue: brain
age: adult
Sex: female
collection_date: Jul-2012
geo_loc_name: USA:Michigan:Ann Arbor
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| Treatment protocol |
The foundresses samples were collected from P. fuscatus nests in Ann Arbor, MI in early spring 2012. We used a negative reinforced T-maze (previously described in Sheehan and Tibbetts (2011) Science) to train foundresses to two different sets of stimuli: simple patterns and P. fuscatus faces. To investigate social environment, we reared adult workers on non-natal nests (half conspecific, other half allospecific - P. metricus). After at least one week, these workers were tested on the T-maze using P. fuscatus faces as stimuli. Each wasp was trained in 40 sequential trials.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Thirty minutes after the 40th test, wasps were freeze-killed in liquid nitrogen and stored at -80C until RNA extraction. We extracted total RNA from individual brains using an RNeasy Kit (Qiagen). Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
Before transcriptome assembly, we removed extraneous adapter sequences and filtered for quality using Trimmomatic (v. 0.32; ILLUMINACLIP:TruSeq2-SE.fa:2:40:15 LEADING:3 TRAILING: 3 SLIDINGWINDOW:5:20 MINLEN:40).
We assembled the groomed transcriptomic short reads de novo using Trinity (default parameters, Version r20140717).
The final Trinity-produced Transcriptome Shotgun Assembly (TSA) was annotated with the mRNAmarkup protocol (Volker Brendel, unpublished; code available from http://brendelgroup.org/bioinformatics2go/mRNAmarkup.php). mRNAmarkup: parameter option –F 5 5 10 10 90 60; MuSeqBox option –A 45 10 75
We aligned the raw paired-end reads to the TSA using Bowtie2 (default options, Version 2.2.4) and quantified the abundances of the transcripts for each library with eXpress (default options, Version 1.5.1)
Genome_build: TSA: Polistes fuscatus, transcriptome shotgun assembly GDFS00000000.1 (GI:856617606)
Supplementary_files_format_and_content: tab-delimited text files include raw count values for each Sample
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| Submission date |
Jul 15, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Ali Berens |
| E-mail(s) |
ajberens@iastate.edu
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| Organization name |
Iowa State University
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| Department |
Ecology, Evolution, and Organismal Biology
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| Lab |
Amy Toth Lab
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| Street address |
251 Bessey Hall
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| City |
Ames |
| State/province |
IA |
| ZIP/Postal code |
50011 |
| Country |
USA |
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| Platform ID |
GPL20698 |
| Series (1) |
| GSE70964 |
Brain gene expression associated with facial recognition in Polistes fuscatus paper wasps |
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| Relations |
| BioSample |
SAMN03776859 |
| SRA |
SRX1060197 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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