GAP ddRAD, Conservation genomics, Dataset ID 83664
Dataset size is: 116.35 GiB
Data and Resources
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83664_HGJ7TDRX2_CTTGTA_L001_R2.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_GTGAAA_L002_R1.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_GTGAAA_L001_R2.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_ACAGTG_L002_R1.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_GTGAAA_L001_R1.fastq.gz Metadata Only FASTQ
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GAP_NGS_HGJ7TDRX2_library_metada... Metadata Only XLSX
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83664_HGJ7TDRX2_CTTGTA_L002_R1.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_CTTGTA_L002_R2.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_GTGAAA_L002_R2.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_ACAGTG_L001_R1.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_ACAGTG_L001_R2.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_ACAGTG_L002_R2.fastq.gz Metadata Only FASTQ
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83664_HGJ7TDRX2_CTTGTA_L001_R1.fastq.gz Metadata Only FASTQ
This data is made available openly under a Creative Commons Attribution license.
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member |
| Access Control Date | 2023-07-25 |
| Access Control Mode | date |
| Sequence Data Type | illumina-ddrad |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/plants_staging/ddrad/BPAOPS-1307/AGRF_GAP_HGJ7TDRX2_83664/ |
| country | Australia |
| data_type | Main dataset |
| dataset_id | 102.100.100/83664 |
| dataset_url | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1307 |
| date_of_transfer | 2022-07-25 |
| date_of_transfer_to_archive | 2022-07-26 |
| description | ddRAD |
| dna_extract | Yes |
| dna_extract_pressed_sheet | DNA extracted from silica dried plant tissue collected from alternative individual in the same population as voucher |
| experimental_design | PstI and MseI |
| family | Orchidaceae |
| flowcell_id | HGJ7TDRX2 |
| folder_name | AGRF_GAP_HGJ7TDRX2_83664 |
| genomic_material_associated_references | Doyle, J.J., Doyle, J.L., 1990. Isolation of plant DNA from fresh tissue. Focus 12, 13–15 |Weising, K., Nybom, H., Pfenninger, M., Wolff, K., Kahl, G., 2005. DNA fingerprinting in plants: principles, methods, and applications 2nd. ed. CRC Press, BocaRaton, Florida |
| genomic_material_preparation_process | CTAB method by Doyle and Doyle, 1990, with modifications as described in Weising et al. (2005) |
| genomic_material_preparation_type | gDNA |
| genomic_material_prepared_by | Lalita Simpson |
| herbarium_code | PERTH |
| id_vetting_by | Bill Gaynor |
| library_pcr_cycles | 11 |
| library_pcr_reps | 7 |
| library_prep_date | 2022-07-04 |
| library_prep_method | ddRAD (based on Peterson et al 2012) |
| library_prepared_by | Simon Farrelly |
| library_type | ddRAD |
| metadata_revision_date | 2023-12-08 |
| metadata_revision_filename | 2023-12-08_Combined_plant_sample_metadata_forQCIF.xlsx |
| n_libraries_pooled | 3 |
| nagoya_protocol_compliance | Yes |
| nagoya_protocol_permit_number | FT61000286 |
| preservation_type | DNA |
| project_aim | Conservation genomics |
| sample_submission_date | 2022-05-31 |
| sample_submitter_email | katharina.nargar@csiro.au |
| sample_submitter_name | Katharina Nargar |
| scientific_name | Caleana aff. terminalis , Caleana gracilicordata , Caleana granitica , Caleana nigrita , Caleana sp. , Caleana terminalis , Caleana triens |
| sequence_length | 150 bp |
| sequencing_facility | AGRF Melbourne |
| sequencing_platform | Illumina Nova Seq |
| silica_gel | Yes |
| species_complex | Flying duck orchid complex (Paracaleana gracilicordata/P. grantica complex) |
| state_or_territory | Western Australia |
| ticket | BPAOPS-1307 |