Orthotospovirus

Impatiens Necrotic Spot Orthotospovirus isolate IV24CA164 experiment_2

Total RNA extracted from INSV-infected leaves, Ribosomal RNA depletion,cDNA synthesis, Indexed library construction, Pooled and 150 bp paired-end sequenced on Element BioSciences Aviti machine in UCD Genome Center DNA Technologies core.

{'host': 'Lettuce', 'isolate': 'IV24CA164', 'lat_lon': 'not collected', 'genotype': 'Iceberg', 'env_medium': 'not collected', 'propagation': 'not collected', 'collected_by': 'Steve Koike (TrIcal)', 'geo_loc_name': 'USA: Monterey County, CA', 'biosamplemodel': 'Viral', 'collection_date': '2024-06-26', 'env_broad_scale': 'not collected', 'env_local_scale': 'not collected', 'isolation_source': 'Field samples', 'isol_growth_condt': 'not collected', 'host_tissue_sampled': 'Leaves', 'biomaterial_provider': 'Michelmore Lab, UCD'}

TSWV isolate T1012 on tomato cv. York

Libraries were constructed following the protocol of the NEBNext UltraII RNA Library Prep Kit for Illumina (New England Biolabs) or the Illumina DNA Prep Kit (Illumina), combined with the Maxima H Minus Reverse Transcriptase (ThermoScientific) and the NEBNext Ultra II Non-Directional RNA Second Strand Module (New England Biolabs) for double-strand cDNA synthesis. Both preparations included a ribosomal-RNA depletion treatment according to the QIAseq FastSelect -rRNA Plant Kit (Qiagen)

{'host': 'Solanum lycopersicum', 'isolate': 'T1012', 'lab_host': 'Solanum lycopersicum', 'geo_loc_name': 'Italy:Mesagne', 'biosamplemodel': 'Viral', 'collection_date': '2005', 'isolation_source': 'Infected leaves'}

RNAseq of IpOV1 isolate NPPO-NL 24080017

NEBNext Ultra II Directional RNA library Prep kit, rRNA depleted

{'host': 'Ipomoea batatas', 'isolate': 'NPPO-NL 24080017', 'source_uvig': 'metagenome (not viral targeted)', 'geo_loc_name': 'Honduras', 'biosamplemodel': 'MIUVIG.plant-associated', 'collection_date': '2024-07-30', 'isolation_source': 'leaves'}