Adamson's blown grass, Reference genome, PacBio-HiFi, leaf
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This dataset is currently under a short embargo period until March 13, 2025 to enable primary access by research partners.
If you would like access during this period please contact us here or contact the project lead directly (see details in the table below) for collaboration opportunities.
Data and Resources
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Data Policy
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Geospatial Coverage |
Dataset extentMap tiles & Data by OpenStreetMap, under CC BY SA.
|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2025-03-13 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | no restrictions |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 13.0.0.207600 |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1564/20240313_TSI_AGRF_CAGRF24020344_m84073_240229_045057_s1/ |
| bioplatforms_project | Threatened Species Initiative |
| cell_postion | B01 |
| certainty | certain |
| class | Magnoliopsida |
| collection_date | 2022-12-09 |
| collection_method | Plant dug up with shovel and transferred to pot. |
| collector | A.J. Brown, J. Levinson |
| collector_sample_id | AJB3046 |
| common_name | Adamson's blown grass |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Laura Simmons |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/358865 |
| date_of_transfer | 2024-03-13 |
| date_of_transfer_to_archive | 2024-03-14 |
| decimal_latitude_public | -37.7 |
| decimal_longitude_public | 142.63 |
| description | Adamson's blown grass (Lachnagrostis adamsonii) (HiFi Revio, additional cell) |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | CAGRF24020344 |
| facility_sample_id | 462066.0 |
| family | Poaceae |
| fast5_compression | NA |
| file_type | BAM |
| flowcell_id | m84073_240229_045057_s1 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20240313_TSI_AGRF_CAGRF24020344_m84073_240229_045057_s1 |
| genotypic_sex | hermaphrodite |
| genus | Lachnagrostis |
| habitat | ephemeral creekline |
| health_state | healthy |
| insert_size_range | 15000.0 |
| institution_name | Royal Botanic Gardens Victoria |
| latitude | -37.7 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/462066 |
| 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 | 300pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2023-08-18 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | adult |
| location_text | Eastern Creek, Reedy Creek Station, Wickliffe |
| longitude | 142.63 |
| material_conc_ng_ul | 1450.0 |
| material_extracted_by | Gareth Holmes |
| material_extraction_date | 2023-03-03 |
| material_extraction_method | Standard CTAB with a sorbitol pre-wash. |
| material_extraction_type | DNA |
| metadata_revision_date | 2024-07-11 |
| metadata_revision_filename | 20240711_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | examination under microscope |
| model_base_caller | NA |
| movie_length | 30Hrs |
| n_libraries_pooled | 1.0 |
| order | Poales |
| phenotypic_sex | hermaphrodite |
| phylum | Streptophyta |
| sample_custodian | Melbourne Gardens |
| sample_id | 102.100.100/460029 |
| sample_type | leaf tissue sample |
| scientific_name | Lachnagrostis adamsonii subsp. adamsonii |
| scientific_name_authorship | Jacobs, 2002 |
| scientific_name_note | subspeciation described by Brown, 2015 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| source_population | Eastern Creek, Reedy Creek Station, Wickliffe |
| species | adamsonii |
| specimen_id | 2527655A |
| specimen_id_description | National Herbarium of Victoria (MEL) |
| state_or_region | Victoria |
| subspecies | adamsonii |
| taxon_id | 1544614.0 |
| taxonomic_group | Plant |
| ticket | BPAOPS-1564 |
| tissue_collection | Melbourne Gardens |
| tissue_collection_type | Living Collection |
| tissue_number | MEL2527655A_01 |
| tissue_preservation | frozen, pressed sheet |
| tissue_preservation_temperature | -20.0 |
| tissue_type | leaf |
| type_status | Representative sample from within distritbution. |
| wild_captive | wild |
| work_order | 14060 |