Plant Pathogen, Genomics, PacBio HiFi, Sample ID 394568
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Data and Resources
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:pp-prj032 |
| Access Control Date | 2024-06-27 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link Analysis |
| associated_media | None |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/pacbio-hifi/BPAOPS-1426/20230619_PP_AGRF_CAGRF221213146_m84073_230616_014416_s1/ |
| bioplatforms_dataset_id | 102.100.100/399022 |
| bioplatforms_library_id | 102.100.100/397107 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP032_P_coronata |
| bioplatforms_sample_id | 102.100.100/394568 |
| ccg_jira_ticket | BPAOPS-1426 |
| cell_postion | A01 |
| class | Pucciniomycetes |
| collection_date | 2021-10-19 |
| collection_method | Infected leaves are removed from the plant and shipped to CSIRO in a paper envelope |
| collector | Figueroa, M. |
| common_name | Oat crown rust, leaf rust |
| country | Australia |
| data_context | Genomics |
| data_type | PacBio-HiFi |
| date_data_published | 06/07/2023 |
| date_of_transfer | 2023-06-28 |
| date_of_transfer_to_archive | 2023-06-29 |
| decimal_latitude_public | Part of community submission project - coordinates not provided |
| decimal_longitude_public | Part of community submission project - coordinates not provided |
| description | PacBio-HiFi |
| dna_treatment | SHEARING |
| download | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1426 |
| experimental_design | 12.0.0.172289 |
| facility | AGRF |
| facility_project_code | CAGRF221213146 |
| facility_sample_id | 394568 |
| family | Pucciniaceae |
| fast5_compression | NA |
| flowcell_id | m84073_230616_014416_s1 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20230619_PP_AGRF_CAGRF221213146_m84073_230616_014416_s1 |
| genus | Puccinia |
| host_common_name | Oat |
| host_family | Poaceae |
| host_organ | Leaf |
| host_scientific_name | Avena spp. |
| host_status | Wild |
| host_symptom | Mild infection |
| insert_size_range | 13999.0 |
| isolate | 21ACT116 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 397107 |
| library_index_id | NA |
| library_index_id_dual | NA |
| library_index_seq_dual | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 250pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_prep_date | 2023-05-26 |
| library_prepared_by | Jack Royle |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| location_info_restricted | No |
| location_text | National Arboretum, Canberra |
| material_conc_ng_ul | 61.0 |
| material_extracted_by | Eva Henningsen | CSIRO |
| material_extraction_date | 2023-01-06 |
| material_extraction_method | Phenol-chloroform as described in https://doi.org/10.1038/s41467-019-12927-7 |
| material_extraction_type | High molecular weight gDNA |
| metadata_revision_date | 2023-09-06 |
| metadata_revision_filename | 2023-09-06_Combined_Plant_Pathogen_sample_metadata__forQCIF_removelatlong.xlsx |
| model_base_caller | NA |
| movie_length | 24Hrs |
| n_libraries_pooled | 1.0 |
| order | Pucciniales |
| phylum | Pucciniomycotina |
| project_lead | Melania Figueroa | CSIRO |
| sample_collection_type | Private |
| sample_custodian | David Lewis | CSIRO |
| sample_id | 394568 |
| sample_quality | Spores are viable |
| sample_type | Single pustule isolation |
| scientific_name | Puccinia coronata f. sp. avenae |
| scientific_name_authorship | Urban and Marková, 1993 |
| scientific_name_note | The full name assigned by Urban and Marková is Puccinia coronata var. avenae f. sp. avenae |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| species | coronata |
| specimen_custodian | CSIRO |
| specimen_id | 21ACT116 |
| specimen_id_description | CSIRO |
| state_or_region | Australian Captial Territory |
| sub_species | f. sp. avenae |
| taxon_id | 200324 |
| taxonomic_group | Fungi |
| ticket | BPAOPS-1426 |
| tissue | Urediniospores |
| tissue_preservation | Frozen |
| tissue_preservation_temperature | -80°C |
| wild_captive | Wild |
| work_order | 20010 |