Project name: Strigops habroptila isolate:Jane

Description: The Kakapo parrot is one of the most critically endangered birds, with 148 animals left as of the date of this submission. It is Native to New Zealand. This reference assembly of a female named Jane has been produced as part of the G10K-VGP Project, avian B10K Project, and the Kakapo Genetic Recovery Project. Her blood sample was collected while she as alive in the field from 2013-2017 by Tim Raemaekers, Daryl Eason, Andrew Digby of Department of Conservation, New Zealand. The samples were coordinated by Bruce Robertson in New Zealand and prepared by Jason Howard in the lab of Erich Jarvis, and sequencing was conducted at Pacific Biosciences, Bionano Genomics, and Arima Genomics for HiC, and the Rockefeller University Vertebrate Genomes Lab for the 10X Genomics reads. Genome assembly was conducted by the G10K-VGP group, specifically by Arang Rhie and Sergey Koren of Adam Phillippy's lab at NIH. Manual curation of chromosomes and other genomic features was conducted by the gEVAL group led by Kerstin Howe at the Sanger Institute, Harris Lewin and Joanna Damas at UC Davis, and the Phillippy Lab. The primary haplotype contains the longest contigs of the Pacbio FALCON unzip assembly, scaffolded with 10X linked reads, Bionano optical maps, and Arima HiC reads, with multiple tools to further separate out haplotypes. Funding was from the different companies that paid for sequencing, HHMI to Erich Jarvis, and individual grants and awards to the persons listed above. Released from embargo April 29, 2021.

Data type: Genome sequencing and assembly

Sample scope: Monoisolate

Relevance: ModelOrganism

Release date: 2019-01-10

Last updated: 2018-09-03