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Data

Working with providers, Genomics Aotearoa is aiming to develop a national genomics data archive, with appropriate guardianship, to support our research. Genomics Aotearoa plans to manage data storage and access within a Māori values context.

The data repository is currently running as part of a research project. For more information, contact genomics.aotearoa@otago.ac.nz

Available data


Black rat (Rattus rattus)

Description: Genome assembly for Rattus rattus (New Zealand), completed using 130x total of illumina paired-end data, Oxford nanopore PromethION and HiC by the New Zealand Rat genome consortium (CSIRO, PF2050, University of Auckland, University of Otago)

Access link Contact Florian Pichlmueller for access, f.pichlmuller@auckland.ac.nz

Cite as:
Rane, Rahul, Pichlmueller, Florian, Lee, Ronald, Edwards, Owain, Gemmell, Neil, Tompkins, Dan (2020)
Rattus rattus chromosomal assembly (New Zealand strain). v2.
https://www.ncbi.nlm.nih.gov/bioproject/PRJNA574245


Kōura - Crayfish (Paranephrops zealandicus)

Description: Neuropeptidome for early life stages of Kōura, Paranephrops zealandicus

Access link Contact Peter Dearden for access, peter.dearden@otago.ac.nz

Publication:
Oliphant D et al.
'Transcriptomic characterisation of neuropeptides and their putative cognate G protein-coupled receptors during late embryo and stage-1 juvenile development of the Aotearoa-New Zealand crayfish, Paranephrops zealandicus'
General and Comparative Endocrinology, in press


Mānuka (Leptospermum scoparium)

Description: Gene predictions and genome assembly for Leptospermum scoparium, 'Crimson Glory’

Access link Contact Ben Te Aika for access, ben.teaika@otago.ac.nz

Publication:
Thrimawithana AH et al
'A whole genome assembly of Leptospermum scoparium (Myrtaceae) for mānuka research'
New Zealand Journal of Crop and Horticultural Science, 2019, 47 (4)
https://doi.org/10.1080/01140671.2019.1657911


Snapper (Chrysophrys auratus)

Description: RNA-seq data for domesticated and wild type snapper (Chrysophrys auratus) individuals reared under high and low temperatures

Access link Contact Maren Wellenreuther for access, maren.wellenreuther@plantandfood.co.nz

Publication:
Wellenreuther M, Le Luyer J, Cook D, Ritchie PA, Bernatchez L
'Domestication and temperature modulate gene expression signatures and growth in the Australasian snapper Chrysophrys auratus'
G3: Genes, Genomes, Genetics, January 2019, 9 (1), 105-116
https://doi.org/10.1534/g3.118.200647


Description: Genome assembly version 1.0 of Chrysophrys auratus including the allpaths assembly, and the super scaffold level assembly

Access link Contact Maren Wellenreuther for access, maren.wellenreuther@plantandfood.co.nz

Publication:
Catanach A, Crowhurst R, Deng C, David C, Bernatchez L, Wellenreuther M
'The genomic pool of standing structural variation outnumbers single nucleotide polymorphism by threefold in the marine teleost Chrysophrys auratus'
Molecular Ecology, 2019, 28 (6)
https://doi.org/10.1111/mec.15051