Carlavirus

RNAseq of Beech carlavirus isolate 11648 from Fagus sylvatica

Maxima H Minus double-stranded cDNA synthesis kit (ThermoFisher). RiboMinus plant kit for RNA-Seq (Invitrogen).

{'host': 'Fagus sylvatica', 'isolate': '11648', 'lat_lon': 'not collected', 'source_uvig': 'metagenome (not viral targeted)', 'geo_loc_name': 'Germany: Siebengebirge', 'biosamplemodel': 'MIUVIG.plant-associated', 'collection_date': '2014', 'isolation_source': 'leaf'}

RNAseq of Beech carlavirus isolate 11647 from Fagus sylvatica

Maxima H Minus double-stranded cDNA synthesis kit (ThermoFisher). RiboMinus plant kit for RNA-Seq (Invitrogen).

{'host': 'Fagus sylvatica', 'isolate': '11647', 'lat_lon': 'not collected', 'source_uvig': 'metagenome (not viral targeted)', 'geo_loc_name': 'Germany: Siebengebirge', 'biosamplemodel': 'MIUVIG.plant-associated', 'collection_date': '2014', 'isolation_source': 'leaf'}

RNA seq of Okra Mild Mottle Virus isolate Okra/Iraq-1

1. DNA digest: total RNA was treated with DNase I which degraded double-stranded and single stranded DNA presenting in RNA samples.; 2. rRNA removal: using the Ribo-off rRNA Depletion Kit to remove ribosomal RNA.; 3. RNA fragmentation.; 4. cDNA Synthesis: First-strand cDNA was generated using random hexamer-primed reverse transcription, followed by a second-strand cDNA synthesis with dUTP instead of dTTP.; 5. End repair, add A and adaptor ligation.; 6. PCR amplification: The PCR reaction system and program are configured and set up to amplify the product.; 7. Library quality control.; 8. Cyclization: Denature the PCR product by heat and the DNA is cyclized by splint oligo and DNA ligase.; 9. DNA nanoball (DNB) synthesis.; 10. Sequencing on DNBSEQ platform.

{'host': 'Okra', 'isolate': 'Okra/Iraq-1', 'geo_loc_name': 'Iraq', 'biosamplemodel': 'Microbe, viral or environmental', 'collection_date': '2023', 'isolation_source': 'leaves'}