|
| Status |
Public on Feb 01, 2022 |
| Title |
D20-2 |
| Sample type |
SRA |
| |
|
| Source name |
A.mellifera ligustica brain
|
| Organism |
Apis mellifera ligustica |
| Characteristics |
tissue: brain
timepoint: 20 days after fluvalinate exposure
|
| Treatment protocol |
A.mellifera ligustica with similar group potential and randomly divided them into two sets (3 replicates in each group). One set as control groups, and the other set as test groups. The test groups were exposed to fluvalinate at a normal dosage for administration to honeybees (according to the instructions for use of the medicine, mite treatment was added every 7 days). The sequencing is performed by the Illumina HiSeq TM 2500.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The royal jelly glands and pigments were removed from the brain, and the brain tissue was immediately stored in RNA preservation solution.Total RNA of each sample were extracted with Trizol.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Paired-end RNA-seq sequencing library was sequenced with the Illumina Hiseq 4000.
The raw paired-end reads were trimmed and quality controlled by fastp (version 0.18.0)
Clean reads were separately aligned to the Apis mellifera genome Amel_HAv3.1 with orientation mode using HISAT2 (version 2.1.0) software. The mapped reads of each sample were assembled by StringTie (https://ccb.jhu.edu/software/stringtie/index.shtml?t=example) in a reference-based approach.
The expression level of each genes was calculated according to fragments per kilobases per million reads (FPKM) method.
Genome_build: Amel_HAv3.1
Supplementary_files_format_and_content: Tab-delimited text files include gene FPKM values for each Sample
|
| |
|
| Submission date |
Jan 29, 2022 |
| Last update date |
Feb 01, 2022 |
| Contact name |
Chao Tianle |
| E-mail(s) |
chaotianle@sdau.edu.cn
|
| Phone |
15153876133
|
| Organization name |
6/5000 Shandong Agricultural University
|
| Street address |
Daizong street, no. 61, 6/5000 Shandong Agricultural University
|
| City |
Tai’an |
| State/province |
Shandong |
| ZIP/Postal code |
538 |
| Country |
China |
| |
|
| Platform ID |
GPL31289 |
| Series (1) |
| GSE195697 |
mRNA expression profile in the fluvalinate exposed Apis mellifera ligustica brain tissue |
|
| Relations |
| BioSample |
SAMN25407959 |
| SRA |
SRX13980420 |
