|
| Status |
Public on Dec 10, 2021 |
| Title |
S_60IM |
| Sample type |
SRA |
| |
|
| Source name |
wing tissue
|
| Organism |
Heliconius melpomene rosina |
| Characteristics |
tissue: Forewing + posterior Hindwing
Sex: Male
%development: 70
individual id: 13
|
| Treatment protocol |
NA
|
| Growth protocol |
captive populations of butterflies maintained at 25◦C, fed Passiflora biflora
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAgen RNeasy
TruSeq Stranded mRNA-seq kit (H. melpomene)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Quality control: Low quality reads (PHRED <33) removed + Illumina adapters clipped (Trimmomatic v. 0.38)
Read Alignment: Trimmed reads aligned to Heliconius reference genomes (HISAT2 v. 2.1.0)
BAM file generation: Output aligned files sorted and converted to BAM (samtools v. 1.9)
transcript assembly + read quantification: Transcript assembly and read quantification (StringTie version 1.3.5)
Creation of gene count matrix: Gene count matrix designed for EdgeR were created using the python script ‘prepDE.py’ (provided by StringTie)
Genome_build: Heliconius_melpomene_melpomene_Hmel2.5
Supplementary_files_format_and_content: Raw counts of reads for all genes and all individuals provided as a matrix
|
| |
|
| Submission date |
Dec 07, 2021 |
| Last update date |
Dec 10, 2021 |
| Contact name |
Nicola J Nadeau |
| E-mail(s) |
n.nadeau@sheffield.ac.uk
|
| Organization name |
The University of Sheffield
|
| Department |
Ecology and Evolutionary Biology
|
| Street address |
Western Bank
|
| City |
Sheffield |
| ZIP/Postal code |
S10 2TN |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL31038 |
| Series (2) |
| GSE190379 |
The genetic basis of structural colour variation in mimetic Heliconius butterflies [melpomene] |
| GSE190380 |
The genetic basis of structural colour variation in mimetic Heliconius butterflies |
|
| Relations |
| BioSample |
SAMN23733373 |
| SRA |
SRX13340998 |
