DATA / GENOMES
Genomic datasets
Our genomic (SNP) datasets and associated phenotypic data are accessible through Bridges repository (see our Data Collection). These data contribute to the Australian Research Data Commons (ARDC) Data Retention Project. Our Macquarie perch work was featured as an ARDC case study.
Helmeted honeyeater genome (and genetic map)
Chromosome-length genome assembly
Robledo-Ruiz DA, Gan HM, Kaur P, Dudchenko O, Weisz D, Khan R, Lieberman Aiden E, Osipova E, Hiller M, Morales HE, Magrath MJL, Clarke RH, Sunnucks P, Pavlova A. 2022. Chromosome-length genome assembly and linkage map of a Critically Endangered Australian bird: the helmeted honeyeater. GigaScience 11.
Macquarie perch and golden perch draft genomes
Pavlova A, Harrisson KA, Turakulov R, Lee YP, Ingram BA, Gilligan D, Sunnucks P, Gan HM. 2022. Labile sex chromosomes in the Australian freshwater fish family Percichthyidae. Molecular Ecology Resources, 22, 1639-1655.
Whereas ancient sex chromosomes are relatively easy to detect, new ones can be very challenging. The workflow described in this paper can address this major issue in chromosome evolution, enabling design of sex-specific tests in species with genetic sex determination lacking strong differentiation between sex-chromosomes.
The data encompass rich genomic resources for two Australian freshwater fish species: genome assemblies, transcriptomes, structural and functional annotations, and whole genome resequencing data for 100 known-sex Macquarie perch individuals and reduced-representation DArTseq data.
Eastern yellow robin (inland lineage) genome
Chromosome-length genome assembly
Gan HM, Falk S, Morales HE, Austin CM, Sunnucks P, Pavlova A. (2019) Genomic evidence of neo-sex chromosomes in the Eastern Yellow Robin Gigascience 8, 1–10 supplementary material blog
Murray cod genome
Austin CM, Tan MH, Harrisson KA, Lee YP, Croft LJ, Sunnucks P, Pavlova A, Gan HM (2017) De novo genome assembly and annotation of Australia's largest freshwater fish, the Murray cod (Maccullochella peelii) from Illumina and Nanopore sequencing reads. Gigascience 6(8)
