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| Status |
Public on Nov 06, 2012 |
| Title |
Degradome analysis in Phalaenopsis aphrodite subsp. formosana |
| Organism |
Phalaenopsis aphrodite subsp. formosana |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We performed one degradome sequencing for identification and characterization of novel microRNAs in Phalaenopsis aphrodite subsp. formosana. Plant tissues of leaves, stalk, and flower buds frozen in liquid nitrogen were ground to fine powder using a mortar and pestle, respectively. Total RNA extraction was freshly prepared using Trizol (Invitrogen, Carlsbad, CA, USA) following the manufacturer's instructions. About 50 μg of leaves with or without low temperature treatment, stalks and flower buds were taken separately and then mixed. The degradome library was constructed by the Genomics BioSci & Tech. Company following the manufactoring protocol. In brief, 200 μg of total RNA was passed though polyA column using the Oligotex kit (Qiagen). The 5'-RNA adapter containing a Mme I recognition site was ligated by T4 RNA ligase and further reverse transcribed to amplify the templates. After digesting with Mme I then ligated to a 3'-double DNA adapter, the products were amplified by additional PCR cycles and gel-purified for Illumina sequencing. The files contain the raw data of degradome sequencing.
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| Overall design |
Examination of one degradome of mixed tissues of Phalaenopsis orchid
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| Contributor(s) |
An F, Chan M |
| Citation(s) |
22904110 |
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| Submission date |
Feb 13, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Feng-Ming An |
| E-mail(s) |
brayan@gate.sinica.edu.tw
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| Phone |
886-6-5056630-304
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| Fax |
886-6-5053352-304
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| Organization name |
Academia Sinica
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| Department |
Biotechnology Center in Southern Taiwan
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| Lab |
Ming-Tsair Chan's Lab
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| Street address |
No. 59, Silaya Blvd., Sinshi Dist.
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| City |
Tainan |
| ZIP/Postal code |
74145 |
| Country |
Taiwan |
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| Platforms (1) |
| GPL13240 |
Illumina Genome Analyzer (Phalaenopsis aphrodite subsp. formosana) |
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| Samples (1) |
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| Relations |
| SRA |
SRP010929 |
| BioProject |
PRJNA152147 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE35739_RAW.tar |
4.4 Mb |
(http)(custom) |
TAR (of FA) |
SRA Run Selector |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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