Ghost Bat, Reference genome, Pacbio HiFi, Liver, heart and kidney
Dataset size is: 823.48 GiB
Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Data Policy
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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 | 2022-06-17 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | exact site coordinates should not be released to public as it is an important conservation site for ghost bats |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 9.0.0.92188 |
| ancillary_notes | The captured bat was clearly an older bat with very worn teeth, scarred wing membrane and a large notch missing from his ear. |
| associated_media | photos,videos |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1087/20210616_TSI_AGRF_DA061173/357503_TSI_AGRF_DA061173_HiFi_metadata/ |
| cell_postion | B01 |
| certainty | certain |
| class | Mammalia |
| collection_date | 2020-09-23 |
| collection_method | A ghost bat was captured using a mist net in open woodland in the vicinity of a known roost. Bat was lured into the mist net using a playback protocol designed by Nicola Hanrahan during her PhD research. Bat was removed from net immediately and placed into a calico bag. The ghost bat was sedated by a trained vet to a workable sedation using isoflourane in a purpose-built chamber. Blood samples were taken using cranial vena cava venepuncture. The fully sedated bat was then euthanised using cervical dislocation. Once the bat was confirmed to be deceased, samples were taken from all identifiable organs, with the number of samples taken based on the size of the organ. |
| collector | Nicola Hanrahan (Western Sydney University/Charles Darwin University), Simon Hollamby (Veterinary Surgeon; Territory Wildlife Park), Damian Stanioch (NT Parks & Wildlife), Sam Banks (Charles Darwin University), Brenton von Takach Dukai (Charles Darwin University) |
| collector_sample_id | PC43 |
| common_name | Ghost Bat |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Nicola Hanrahan |
| data_type | Pacbio HiFi |
| dataset_id | 102.100.100/358731 |
| date_of_transfer | 2021-06-17 |
| date_of_transfer_to_archive | 2021-06-18 |
| death_date | 2020-09-23 |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_sample_id | 357503.0 |
| family | Megadermatidae |
| file_name | 357503_TSI_AGRF_PacBio_DA061173.subreads.bam |
| file_type | BAM |
| flowcell_id | DA061173 |
| flowcell_type | SMRT Cell 8M |
| folder_name | 20210616_TSI_AGRF_DA061173 |
| genus | Macroderma |
| habitat | Undulating hills, Open Eucalypt woodland, historic gold mining area with multiple mine shafts. |
| insert_size_range | 17071.0 |
| institution_name | Charles Darwin University |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/357503 |
| library_index_id | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 85.0 |
| library_oligo_sequence | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2021-04-15 |
| 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 |
| lifestage | adult |
| location_text | Pine Creek Township, Norhern Territroy |
| material_conc_ng_ul | 66.0 |
| material_extracted_by | Elspeth McLennan (USYD); Kate Farquharson (USYD) |
| material_extraction_date | 2020-11-10 |
| material_extraction_method | Circulomics Kit ("Nanobind Tissue Big DNA Kit v1.0 11/19"), with Liver Note for liver extraction |
| material_extraction_type | DNA |
| metadata_revision_date | 2023-11-30 |
| metadata_revision_filename | 20231130_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | genitals |
| movie_length | 30HRS |
| n_libraries_pooled | 1.0 |
| order | Chiroptera |
| phenotypic_sex | male |
| phylum | Chordata |
| prior_genetics | none |
| sample_custodian | Nicola Hanrahan |
| sample_id | 102.100.100/355492 |
| sample_quality | High |
| scientific_name | Macroderma gigas NA |
| sequencing_facility | AGRF |
| sequencing_model | PacBio Sequel II |
| sequencing_platform | PACBIO_SMRT |
| source_population | Pine Creek |
| species | gigas |
| specimen_id | MG_PC43 |
| specimen_id_description | scientific name acronym_researcher assigned sample ID |
| state_or_region | Northern Territory |
| subspecies | NA |
| taxon_id | 9411.0 |
| taxonomic_group | Mammal |
| ticket | BPAOPS-1087 |
| tissue_collection | Charles Darwin University_Nicola Hanrahan |
| tissue_number | MG_PC43_pooled_liver_heart_kidney_LN1 |
| tissue_preservation | Liquid Nitrogen - Placed in dry tube,flash frozen in liquid nitrogen, transported on dry ice and stored in -80 freezer |
| tissue_type | Liver, heart and kidney |
| wild_captive | wild_caught |
| work_order | 14004 & 14408 |