Plant Pathogen, Genomics, Illumina Shortread, Sample ID 394531
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Data Policy
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:425:pp-prj008 |
| Access Control Date | 2024-09-21 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| analysis_software | NovaSeq Control Software (NCS) v1.0.1.7385; Real Time Analysis (RTA) v4.0.5; Illumina DRAGEN BCL Convert 07.021.645.4.0.3 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1442/20230724_PP_AGRF_225VVGLT3/ |
| bioplatforms_dataset_id | 102.100.100/399014 |
| bioplatforms_library_id | 102.100.100/396781 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP008_PVY |
| bioplatforms_sample_id | 102.100.100/394531 |
| ccg_jira_ticket | BPAOPS-1442 |
| class | Stelpaviricetes |
| collector | John Thomas |
| common_name | PVY |
| country | Australia |
| data_context | Genomics |
| data_type | Illumina short read |
| date_data_published | 25/07/2023 |
| date_of_transfer | 2023-07-24 |
| date_of_transfer_to_archive | 2023-07-25 |
| description | Illumina short read |
| download | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1442 |
| facility | AGRF |
| facility_project_code | CAGRF221012485 |
| facility_sample_id | 14218-1 |
| family | Potyviridae |
| flowcell_id | 225VVGLT3 |
| flowcell_type | 10B |
| folder_name | 20230724_PP_AGRF_225VVGLT3 |
| genus | Potyvirus |
| host_common_name | Tomato |
| host_family | Solanaceae |
| host_organ | Leaves |
| host_scientific_name | Solanum lycopersicum |
| host_status | Cultivated food staple |
| host_symptom | Necrosis |
| insert_size_range | 180.0 |
| library_construction_protocol | TruSeq Stranded Total RNA with Ribo-Zero Plant |
| library_id | 396781 |
| library_index_id | UDI0018-F & UDI0018-R |
| library_index_sequence | CGGCGTGA-GCGCCTGT |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 7.4 |
| library_pcr_cycles | 13 |
| library_prep_date | 2023-06-21 |
| library_prepared_by | Liana Johnson |
| library_selection | Stranded RNA with rRNA Depletion |
| library_source | Plant RNA |
| library_strategy | Whole Transcriptome Sequencing |
| library_type | RNASeq |
| location_text | Field |
| material_conc_ng_ul | 616.0 |
| material_extracted_by | Fiona Filardo |
| material_extraction_date | 2023-04-18 |
| material_extraction_method | RNA isolation kit |
| material_extraction_type | RNA |
| metadata_revision_date | 2024-01-16 |
| metadata_revision_filename | 2024-01-16_Combined_Plant_Pathogen_sample_metadata_forQCIF_removelatlong_v2.xlsx |
| order | Patatavirales |
| phylum | Pisuviricota |
| project_lead | Fiona Filardo | DAFQ |
| sample_collection_type | Virus collection |
| sample_custodian | QDAF virus isolate collection |
| sample_type | Plant tissue |
| scientific_name | Potato virus Y |
| scientific_name_authorship | K.M. Smith (1931) |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | 1.0 |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| species | Potato virus Y |
| specimen_custodian | QDAF virus isolate collection |
| specimen_id | 3A |
| specimen_id_description | Virus isolate |
| state_or_region | QLD |
| taxon_id | 12216 |
| taxonomic_group | Virus |
| ticket | BPAOPS-1442 |
| tissue | Leaf |
| tissue_preservation | Freeze dried |
| tissue_preservation_temperature | -20°C |
| work_order | WO2002 |