Globodera rostochiensis - public RNASeq studies
Analysed
SRP055923: Globodera rostochiensis transcriptome evolution during hatching.
Agriculture and Agri-Food Canada
Design: 9 conditions
Condition | num. replicates | Depth | Geographic location | Host | Strain | Treatment |
---|---|---|---|---|---|---|
dry cysts | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | dry cysts |
hatched J2 larvae | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hatched J2 larvae |
hydrated cysts | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts |
hydrated cysts soaked 15m in PRD | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts soaked 15m in PRD |
hydrated cysts soaked 1h in PRD | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts soaked 1h in PRD |
hydrated cysts soaked 24h in PRD | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts soaked 24h in PRD |
hydrated cysts soaked 48h in PRD | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts soaked 48h in PRD |
hydrated cysts soaked 7d in PRD | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts soaked 7d in PRD |
hydrated cysts soaked 8h in PRD | 2 | 0-20cm | Canada: St-Amable, QC | potato | Ro1 | hydrated cysts soaked 8h in PRD |
Other
These studies are available in ENA, and the reads successfully align to our genomes.
We have decided not to include them in our analysis.
Either they failed to meet minimal criteria for inclusion, we've been asked to exclude them for data quality reasons, or we were unable to interpret the metadata.
ERP001236: Globodera pallida transcriptomics
Wellcome Sanger Institute
As part of the Globodera pallida (potato cyst nematode) genome project we are profiling the transcriptome of the parasite across its life cycle using RNA-Seq. .
4 runs in ENA
ERP013515: 100 bp paired-end Illumina Hiseq RNAseq of G. rostochiensis females 14 days post infection.
University of Dundee
100 bp paired-end Illumina Hiseq RNAseq of G. rostochiensis females 14 days post infection each in biological duplicate. Pathotype Ro1 infecting potato.
2 runs in ENA
SRP146253: Globodera spp. host specificity
Agriculture and Agri-Food Canada
2 runs in ENA