|
| Status |
Public on Nov 05, 2022 |
| Title |
oocysts/oocyst sporozoites_RNA-seq_experiment-2 |
| Sample type |
SRA |
| |
|
| Source name |
oocysts/oocyst sporozoites
|
| Organism |
Plasmodium berghei |
| Characteristics |
developmental stage: oocysts/oocyst sporozoites
strain: ANKA
genotype: wild type
|
| Growth protocol |
Balb/c mice were infected with wild-type parasitesi or mutant parasites with binding sites of AP2-Sp muteted in the upstream of the AP2-Sp gene (AP2-Sp_cicmut). Infected mice were subjected to mosquito bites. Fully engorged mosquitoes were maintainedat 20 ℃. Midguts were disected 14 days after infective blood meal (oocysts/oosyst sporozoites). Salivary glands were disected 24 days after infective blood meal (salivary gland sporozoites).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Dissected midguts were soaked in RNA Later solution until finishing the dissection. RNA extraction was performed using Isogen 2 (Nippon gene) according to the manufacturer’s protocol. Dissected midguts were lysed in lysis solution in the kit using Tissuelyser system (Quiagen). Total RNA was extracted using the ISOGEN II (NIPPON GENE, Japan) according to the manufacturer’s protocols.
Libraries were constructed from total RNA using KAPA mRNA Hyperprep kit (KAPA Biosystems), and sequencing was performed with Illumina NEXTseq sequence (Single read - illumina NextSeq 500),
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
transcriptome of oocysts/oocyst sporozoites
|
| Data processing |
Reads were mapped on the P. berghei genome by HISAT2. Parameters of HISAT2 were set to default except for the option “--max-intron” set to 1000. Mapping data were analyzed by Feature counts software.
Assembly: PlasmoDB, version 3
Supplementary files format and content: read counts
|
| |
|
| Submission date |
Sep 06, 2022 |
| Last update date |
Nov 05, 2022 |
| Contact name |
masao yuda |
| E-mail(s) |
m-yuda@doc.medic.mie-u.ac.jp
|
| Organization name |
mie university
|
| Street address |
edobashi 2-174
|
| City |
tsu |
| State/province |
mie |
| ZIP/Postal code |
514-0001 |
| Country |
Japan |
| |
|
| Platform ID |
GPL23133 |
| Series (2) |
| GSE212753 |
Genome-wide investigation of transcriptional regulation in malaria sporozoite [RNA-Seq] |
| GSE212754 |
Genome-wide investigation of transcriptional regulation in malaria sporozoite |
|
| Relations |
| BioSample |
SAMN30685717 |
| SRA |
SRX17444015 |
