Project | Rhizoctonia infected and vegetative tissue - small RNA |
Sample Name | JA9 |
Contact Scientist | janderson |
Contact Scientist email | |
Institution | CSIRO |
Species | Wheat and Rhizoctonia solani |
Sample Type | Small RNA |
RNA Source | Infected wheat roots |
Extraction Method | |
Growth Protocol | Moist vermiculite pre-infected with fungus, germinated seedlings planted to vermiculite, harvest at 2, 4, 7 and 10 days after planting. RNA-seq at 2 and 7 dpi. Additional plants left until 21 dpi to confirm infective conditions. Amount of fungal DNA in-planta also confirmed infection occurring from day 2. |
Treatment Protocol | Germinated seedlings planted into pre-infected vermiculite |
Experimental Design | 3 biological replicates for all samples. QPCR confirmation of wheat response and fungal gene expression prior to RNA-seq |
Note | 7 dpi mock treated wheat roots rep 3 |
Filename | MD5 | Run Description |
---|---|---|
JA_R9_GTTTCG_L002_R1_001.fastq.gz | da2563b3377bcdabe0b228203268f9f1 | WheatPathogenTranscriptRun object (19) |
JA_R9_GTTTCG_L008_R1_001.fastq.gz | 0001416c395b35af969d7c8e1a496449 | WheatPathogenTranscriptRun object (19) |
wget
or curl
to fetch only the listed sequence files from the archive.
https://downloads-qcif.bioplatforms.com/bpa/wheat_pathogens_transcript/all/JA_R9_GTTTCG_L002_R1_001.fastq.gz
https://downloads-qcif.bioplatforms.com/bpa/wheat_pathogens_transcript/all/JA_R9_GTTTCG_L008_R1_001.fastq.gz