|
| Status |
Public on Apr 06, 2016 |
| Title |
24h infection |
| Sample type |
SRA |
| |
|
| Source name |
Infected larvae
|
| Organism |
Plutella xylostella |
| Characteristics |
agent: Beauveria bassiana
time point: 24h
|
| Treatment protocol |
Third instar P. xylostella larvae were collected into Petri dishes as described above. At first, the sample of 48 hptI and its control were sprayed with 1 ml conidial suspension and 0.02% Tween 80, respectively. After 12 hours, the sample of 36 hptI and its control were sprayed with 1 ml conidial suspension and 0.02% Tween 80. In the same way the sample of 24 hptI and its control was handled. After 48 h of the first spray, approximately 200 living P. xylostella larvae were collected from each of the 6 treatments, respectively. All P. xylostella larvae were collected at the same time can eliminate the effect of host development on gene expression
|
| Growth protocol |
P. xylostella culture was maintained on cabbage plants in climate chambers at 25 ± 1 °C, 14 h of light and 10 h of darkness and 75 ± 10% relative humidity; The fungal strain B. bassiana ARSEF2860 from the RW Holley Center for Agriculture and Health (Ithaca, NY, USA) was preserved at 4°C on slants of Sabouraud dextrose agar (Qiu et al., 2014). Conidia harvested from cultures grown for 7 days at 25°C and 90% relative humidity were suspended in 0.02% Tween 80 (109 conidia/ml)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the P. xylostella using the RNAiso-Plus Reagent (TaKaRa). The cDNA libraries were prepared according to the manufacturer’s instructions (Illumina, San Diego, CA, USA)
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina HiSeqTM 2000 software used for basecalling.
Through quality test we remove low quality sequences, tag with N ratio>5%, empty reads and adaptor sequences then we got clean reads. Map the clean reads to the genome database of P. xylostella and B. bassiana by SOAPaligner/SOAP2
The data was normalized by reads per kilobase transcriptome per million mapped reads (RPKM)
genome build: Plutella xylostella: DBM_FJ_V1.1 and Beauveria bassiana: ASM28067v1.
We generating the RPKM data by RPKM = 10^6C divided by NL/10^3
C means the number of reads perfect match the gene
N means the total of reads
L means the base number of the gene
Supplementary_files_format_and_content: Table S1-S6 List of detected P. xylostella genes .xlsx
Supplementary_files_format_and_content: Table S10-S14. List of DEGs of P. xylostella genes.xlsx
Supplementary_files_format_and_content: Table S15-S16 List of different expressed genes of B. bassiana genes.xlsx
Supplementary_files_format_and_content: Table S7-S9 List of dected B.bassiana genes.xlsx
|
| |
|
| Submission date |
Aug 26, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Chu ZhenJian |
| E-mail(s) |
11407006@zju.edu.cn
|
| Phone |
15057131676
|
| Organization name |
Zhejiang University
|
| Department |
College of Life Science
|
| Lab |
Institute of Microbiology
|
| Street address |
Yuhangtang Road 388
|
| City |
Hangzhou |
| State/province |
Zhejiang |
| ZIP/Postal code |
310058 |
| Country |
China |
| |
|
| Platform ID |
GPL17076 |
| Series (1) |
| GSE72383 |
New insight into a host-pathogen interaction unveiled by transcriptomics response of the global insect pest Plutella xylostella to a fungal pathogen |
|
| Relations |
| BioSample |
SAMN04013706 |
| SRA |
SRX1165825 |
