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Peer-reviewedCC BY 4.0PLOS One

Filling the gaps in Australian angiosperm genomes

  • Theodore R. Allnutt1
  • Todd G. B. McLay1,2
  • Ashley Jones3
  • Richard Edwards4,5
  • Gareth D. Holmes1
  • Alexander N. Schmidt-Lebuhn6
  • Rose L. Andrew7
  • Rachael M. Fowler1,8
  • Chris Jackson1
  • Mabel Lum9
  • Jeremy J. Bruhl7
  • Scott Ferguson10
5 more authors
  • Alexander Fournier-Level8
  • Matthew G. Lewsey11
  • Michael Roach12
  • Tareg Shaldoom7
  • David J. Cantrill1
12 affiliations
  1. 1Royal Botanic Gardens Victoria, Birdwood Avenue, Melbourne, Victoria, Australia
  2. 2National Biodiversity DNA Library, National Research Collections Australia, CSIRO, Parkville, Victoria, Australia
  3. 3Research School of Biology, The Australian National University, Canberra, Australian Capital Territory, Australia
  4. 4Oceans institute, The University of Western Australia, Perth, Western Australia, Australia
  5. 5Evolution & Ecology Research Centre, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales, Australia
  6. 6CSIRO, Centre for Australian National Biodiversity Research (a joint venture of CSIRO and Parks Australia), Canberra, Australian Capital Territory, Australia
  7. 7N.C.W. Beadle Herbarium and School of Environmental and Rural Science, University of New England, Armidale, New South Wales, Australia
  8. 8School of BioSciences, The University of Melbourne, Parkville, Victoria, Australia
  9. 9Bioplatforms Australia Ltd., Sydney, New South Wales, Australia
  10. 10Department of Integrative Biology, University of California, Berkeley, California, United States of America
  11. 11La Trobe Institute for Sustainable Agriculture and Food, La Trobe University, Bundoora, Victoria, Australia
  12. 12Flinders Health and Medical Research Institute, Flinders University, Adelaide, South Australia, Australia
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Abstract

The Genomics for Australian Plants Initiative (GAP) reference genome project aimed to provide high quality angiosperm genomes for previously underrepresented taxonomic groups with evolutionary significance, cultural value, biogeographic importance, and concerning conservation status in Australia. Here we present the results of long-read genomic sequencing and assembly for 29 selected angiosperm species, including analyses of genome completeness, contiguity, ploidy, gene annotations, and repeat content. Plastid and mitochondrion genomes were also assembled and annotated. The data provided a diverse selection of genome size, ploidy and complexity, which were compared. The long read sequencing methods, PacBio HiFi, and Oxford Nanopore Technologies (ONT), used in tandem and individually where appropriate, provided high quality near complete telomere to telomere assemblies. These genomes provide valuable genomic resources for Australian plants that will enable and extend research in evolution, conservation, functional adaptation, and comparative genomics.

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Cite

BibTeXRIS
BibTeX
@article{allnutt2026filling,
  title = {{Filling the gaps in Australian angiosperm genomes}},
  author = {Theodore R. Allnutt and Todd G. B. McLay and Ashley Jones and Richard Edwards and Gareth D. Holmes and Alexander N. Schmidt-Lebuhn and Rose L. Andrew and Rachael M. Fowler and Chris Jackson and Mabel Lum and Jeremy J. Bruhl and Scott Ferguson and Alexander Fournier-Level and Matthew G. Lewsey and Michael Roach and Tareg Shaldoom and David J. Cantrill},
  journal = {PLOS One},
  year = {2026},
  month = nov,
  doi = {10.1371/journal.pone.0359340},
  url = {https://doi.org/10.1371/journal.pone.0359340},
  note = {CC BY 4.0},
}
RIS
TY  - JOUR
TI  - Filling the gaps in Australian angiosperm genomes
AU  - Theodore R. Allnutt
AU  - Todd G. B. McLay
AU  - Ashley Jones
AU  - Richard Edwards
AU  - Gareth D. Holmes
AU  - Alexander N. Schmidt-Lebuhn
AU  - Rose L. Andrew
AU  - Rachael M. Fowler
AU  - Chris Jackson
AU  - Mabel Lum
AU  - Jeremy J. Bruhl
AU  - Scott Ferguson
AU  - Alexander Fournier-Level
AU  - Matthew G. Lewsey
AU  - Michael Roach
AU  - Tareg Shaldoom
AU  - David J. Cantrill
PY  - 2026
DA  - 2026/11/04
JO  - PLOS One
DO  - 10.1371/journal.pone.0359340
UR  - https://doi.org/10.1371/journal.pone.0359340
AB  - The Genomics for Australian Plants Initiative (GAP) reference genome project aimed to provide high quality angiosperm genomes for previously underrepresented taxonomic groups with evolutionary significance, cultural value, biogeographic importance, and concerning conservation status in Australia. Here we present the results of long-read genomic sequencing and assembly for 29 selected angiosperm species, including analyses of genome completeness, contiguity, ploidy, gene annotations, and repeat content. Plastid and mitochondrion genomes were also assembled and annotated. The data provided a diverse selection of genome size, ploidy and complexity, which were compared. The long read sequencing methods, PacBio HiFi, and Oxford Nanopore Technologies (ONT), used in tandem and individually where appropriate, provided high quality near complete telomere to telomere assemblies. These genomes provide valuable genomic resources for Australian plants that will enable and extend research in evolution, conservation, functional adaptation, and comparative genomics.
SN  - 1932-6203
ER  -