there is no common name listed, Reference genome, PacBio-HiFi, leaf
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2024-05-07 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | No restrictions |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 12.0.0.177059 |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1387/2023053_TSI_AGRF_CAGRF221213172_DA235476/ |
| bioplatforms_project | Threatened Species Initiative |
| cell_postion | 1_A01 |
| certainty | NA |
| class | Equisetopsida |
| collection_method | snap freeze in liquid nitrogen from live plant |
| collector | Ton Stewart, University of the Sunshine Coast |
| common_name | there is no common name listed |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Ton Stewart |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/358811 |
| dataset_url | researcher informed |
| date_of_transfer | 2023-05-08 |
| date_of_transfer_to_archive | 2023-05-10 |
| description | Fontainea HiFi |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | CAGRF221213172 |
| facility_sample_id | 460859.0 |
| family | Euphorbiaceae |
| fast5_compression | NA |
| file_type | BAM |
| flowcell_id | DA235476 |
| flowcell_type | SMRT Cell 8M |
| folder_name | 2023053_TSI_AGRF_CAGRF221213172_DA235476 |
| genotypic_sex | NA |
| genus | Fontainea |
| habitat | rain forest |
| health_state | healthy young plant |
| insert_size_range | 16000.0 |
| institution_name | University of the Sunshine Coast |
| library_construction_protocol | Preparing whole genome and metagenome libraries using SMRTbell ® prep kit 3.0 |
| library_id | 102.100.100/460859 |
| 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 | 48.6 |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2023-04-19 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| location_text | only two sites just north of Coffs Harbour on the NSW mid-north coast, Boambee Valley, along the coastal foothills to Coffs Creek, the Korora Basin |
| material_extracted_by | Ton Stewart |
| material_extraction_type | DNA |
| metadata_revision_date | 2024-07-11 |
| metadata_revision_filename | 20240711_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | NA |
| model_base_caller | NA |
| movie_length | 30HRS |
| n_libraries_pooled | 1.0 |
| order | Malpighiales |
| phenotypic_sex | NA |
| phylum | Streptophyta |
| sample_custodian | Ton Stewart, Gabes Conroy |
| sample_id | 102.100.100/458822 |
| sample_quality | don't know yet |
| sample_type | tissue sample |
| scientific_name | Fontainea sp. Coffs Harbour (A.S.Benwell 341, NSW1102027) |
| scientific_name_authorship | A.S.Benwell 341 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | 11.1.0.154383 |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| species | Coffs harbour |
| specimen_id | UniSC FC0001 |
| specimen_id_description | UniSC is where the plant propagate, FC is Fontainea Coffs Harbour, number is plant number |
| state_or_region | New South Wales |
| subspecies | None |
| taxon_id | no taxon id in taxonomy website but there ie number from NSW as NSW1102027 |
| taxonomic_group | Plant |
| ticket | BPAOPS-1387 |
| tissue_collection | Botany |
| tissue_collection_type | living collection |
| tissue_number | UniSC FC0001_leaf1 |
| tissue_preservation | frozen |
| tissue_preservation_temperature | -80C |
| tissue_type | leaf |
| work_order | 14043 |