native guava, Reference genome for Rhodomyrtus psidioides, Pacbio HiFi, leaf tissue
Dataset size is: 541.62 GiB
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 | 2021-12-01 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 9.0.0.92188 |
| ancillary_notes | Tissue culture generated for the specimen (see Sommerville, K. D., Cuneo, P., Errington, G., Makinson, R. O., Pederson, S., Phillips, G., ... & Offord, C. A. Conservation in the wake of myrtle rust–a case study on two critically endangered Australian rainforest plants. Pacific Conservation Biology.) |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-988/TSI_AGRF_PacBio_C20083637/357366_TSI_AGRF_PacBio_DA052899_HiFi_metadata/ |
| cell_postion | D01 |
| certainty | 1.0 |
| class | Magnoliopsida |
| collection_date | 2020-08-24 |
| collector | Sam Yap |
| common_name | native guava |
| country | Australia |
| data_context | Reference genome for Rhodomyrtus psidioides |
| data_custodian | Jia-Yee Samantha Yap |
| data_type | Pacbio HiFi |
| dataset_id | 102.100.100/358866 |
| date_of_transfer | 2020-12-01 |
| date_of_transfer_to_archive | 2020-12-01 |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_sample_id | RP_2 |
| family | Myrtaceae |
| file_name | 355356_TSI_AGRF_PacBio_DA052899.subreads.bam |
| file_type | BAM |
| flowcell_id | DA052899 |
| flowcell_type | SMRT Cell 8M |
| folder_name | TSI_AGRF_PacBio_C20083637 |
| genus | Rhodomyrtus |
| insert_size_range | 16365.0 |
| institution_name | Research Centre for Ecosystem Resilience, Australian Institute of Botanical Science |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/357366 |
| library_index_id | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 96.2 |
| library_oligo_sequence | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2020-10-14 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_status | Library Sequenced |
| library_strategy | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_type | WGS |
| location_text | Bed 65i at Royal Botanic Gardens, Sydney |
| material_extraction_date | 2020-08-24 |
| material_extraction_method | modified CTAB method |
| material_extraction_type | DNA |
| metadata_revision_date | 2023-11-30 |
| metadata_revision_filename | 20231130_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | Observation (Adam & Williams 2001) |
| movie_length | 30HRS |
| n_libraries_pooled | 1.0 |
| order | Myrtales |
| phenotypic_sex | unknown (bisexual but self-incompatible) |
| phylum | Streptophyta |
| sample_custodian | RBG-SYD |
| sample_id | 102.100.100/355356 |
| sample_type | Tissue sample |
| scientific_name | Rhodomyrtus psidioides |
| sequencing_facility | AGRF |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| source_population | unknown provenance |
| species | psidioides |
| specimen_id | AA16933 |
| specimen_id_description | Rhodomyrtus psidioides from the RBGSYD living collection |
| state_or_region | New South Wales |
| taxon_id | 375277.0 |
| taxonomic_group | Plant |
| ticket | BPAOPS-988 |
| tissue_collection | AA16933_RBGSYD |
| tissue_number | AA16933SYD_RBG_leaf |
| tissue_preservation | fresh |
| tissue_type | leaf tissue |
| work_order | 14002 |