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| Status |
Public on May 20, 2019 |
| Title |
Total RNA from Δdcl2 |
| Sample type |
SRA |
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| Source name |
Δdcl2
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| Organism |
Metarhizium robertsii ARSEF 23 |
| Characteristics |
strain: ARSEF 23
developmental stage: asexual developmental stage
age: 2.5-day
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| Growth protocol |
Conidia of WT and Δdcl2 were inoculated into SDAY medium at 1×107 conidia/ml at 25°C. Fungal samples were collected after 2.5 days, respectively.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Metarhizium robertsii wild type and Δdcl2 were ground into powder in liquid nitrogen,powder was used to isolate total RNAs using Trizol (Invitrogen, USA).
The total RNA samples are first treated with DNase I to degrade any possible DNA contamination. Then the mRNA is enriched by using the oligo(dT) magnetic beads. Mixed with the fragmentation buffer, the mRNA is fragmented into short fragments. Then the first strand of cDNA is synthesized by using random hexamer-primer. Buffer, dNTPs, RNase H and DNA polymerase I are added to synthesize the second strand. The double strand cDNA is purified with magnetic beads. End reparation and 3’-end single nucleotide A (adenine) addition is then performed. Finally, sequencing adaptors are ligated to the fragments. The fragments are enriched by PCR amplification. During the QC step, Agilent 2100 Bioanaylzer and ABI StepOnePlus Real-Time PCR System are used to qualify and quantify of the sample library. The library products are ready for sequencing via Illumina HiSeqTM 2000.
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| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
quality control on clean data through drawing base composition chart and quality distribution chart.
clean data (clean reads) were obtained by removing reads containing adapter, reads containing ploy-N and low quality reads from raw data. At the same time, Q20, Q30, sequence duplication and GC-content level of the clean data were calculated. Subsequently, the clean reads were mapped to the original Metarhizium robertsii genome sequences using the SOAP.
genome build: GCF_000187425.2
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| Submission date |
May 23, 2016 |
| Last update date |
May 20, 2019 |
| Contact name |
Yulong Wang |
| E-mail(s) |
yulong4444@126.com
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| Organization name |
Anhui Agricultural University
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| Lab |
Anhui Provincial Key Laboratory of Microbial Pest Control
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| Street address |
130 West Changjiang Road
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| City |
Hefei |
| ZIP/Postal code |
230036 |
| Country |
China |
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| Platform ID |
GPL21936 |
| Series (1) |
| GSE81758 |
small RNAs in Metarhizium robertsii wild type and Δdcl2 |
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| Relations |
| BioSample |
SAMN05163637 |
| SRA |
SRX1793023 |
| Supplementary data files not provided |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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