The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes
Abstract Combining genome assembly with population and functional genomics can provide valuable insights to development and evolution, as well as tools for species management. Here, we present a chromosome-level genome assembly of the common brushtail possum (Trichosurus vulpecula), a model marsupia...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2023-10-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-023-41784-8 |
| _version_ | 1797558029929938944 |
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| author | Donna M. Bond Oscar Ortega-Recalde Melanie K. Laird Takashi Hayakawa Kyle S. Richardson Finlay.C. B. Reese Bruce Kyle Brooke E. McIsaac-Williams Bruce C. Robertson Yolanda van Heezik Amy L. Adams Wei-Shan Chang Bettina Haase Jacquelyn Mountcastle Maximilian Driller Joanna Collins Kerstin Howe Yasuhiro Go Francoise Thibaud-Nissen Nicholas C. Lister Paul D. Waters Olivier Fedrigo Erich D. Jarvis Neil J. Gemmell Alana Alexander Timothy A. Hore |
| author_facet | Donna M. Bond Oscar Ortega-Recalde Melanie K. Laird Takashi Hayakawa Kyle S. Richardson Finlay.C. B. Reese Bruce Kyle Brooke E. McIsaac-Williams Bruce C. Robertson Yolanda van Heezik Amy L. Adams Wei-Shan Chang Bettina Haase Jacquelyn Mountcastle Maximilian Driller Joanna Collins Kerstin Howe Yasuhiro Go Francoise Thibaud-Nissen Nicholas C. Lister Paul D. Waters Olivier Fedrigo Erich D. Jarvis Neil J. Gemmell Alana Alexander Timothy A. Hore |
| author_sort | Donna M. Bond |
| collection | DOAJ |
| description | Abstract Combining genome assembly with population and functional genomics can provide valuable insights to development and evolution, as well as tools for species management. Here, we present a chromosome-level genome assembly of the common brushtail possum (Trichosurus vulpecula), a model marsupial threatened in parts of their native range in Australia, but also a major introduced pest in New Zealand. Functional genomics reveals post-natal activation of chemosensory and metabolic genes, reflecting unique adaptations to altricial birth and delayed weaning, a hallmark of marsupial development. Nuclear and mitochondrial analyses trace New Zealand possums to distinct Australian subspecies, which have subsequently hybridised. This admixture allowed phasing of parental alleles genome-wide, ultimately revealing at least four genes with imprinted, parent-specific expression not yet detected in other species (MLH1, EPM2AIP1, UBP1 and GPX7). We find that reprogramming of possum germline imprints, and the wider epigenome, is similar to eutherian mammals except onset occurs after birth. Together, this work is useful for genetic-based control and conservation of possums, and contributes to understanding of the evolution of novel mammalian epigenetic traits. |
| first_indexed | 2024-03-10T17:25:36Z |
| format | Article |
| id | doaj.art-b0bc7afa953349c6a2db51b5dff01fe2 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-03-10T17:25:36Z |
| publishDate | 2023-10-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-b0bc7afa953349c6a2db51b5dff01fe22023-11-20T10:12:20ZengNature PortfolioNature Communications2041-17232023-10-0114111710.1038/s41467-023-41784-8The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genesDonna M. Bond0Oscar Ortega-Recalde1Melanie K. Laird2Takashi Hayakawa3Kyle S. Richardson4Finlay.C. B. Reese5Bruce Kyle6Brooke E. McIsaac-Williams7Bruce C. Robertson8Yolanda van Heezik9Amy L. Adams10Wei-Shan Chang11Bettina Haase12Jacquelyn Mountcastle13Maximilian Driller14Joanna Collins15Kerstin Howe16Yasuhiro Go17Francoise Thibaud-Nissen18Nicholas C. Lister19Paul D. Waters20Olivier Fedrigo21Erich D. Jarvis22Neil J. Gemmell23Alana Alexander24Timothy A. Hore25Department of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoFaculty of Environmental Earth Science, Hokkaido UniversityDepartment of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoDepartment of Zoology, University of OtagoDepartment of Zoology, University of OtagoDepartment of Zoology, University of OtagoSchool of Life and Environmental Science, Faculty of Science, The University of SydneyVertebrate Genome Laboratory, The Rockefeller UniversityVertebrate Genome Laboratory, The Rockefeller UniversityLeibniz Institute for Zoo and Wildlife ResearchTree of Life, Wellcome Sanger InstituteTree of Life, Wellcome Sanger InstituteGraduate School of Information Science, Hyogo UniversityNational Center for Biotechnology Information, National Library of Medicine, National Institutes of HealthSchool of Biotechnology and Biomolecular Science, Faculty of Science, UNSW SydneySchool of Biotechnology and Biomolecular Science, Faculty of Science, UNSW SydneyVertebrate Genome Laboratory, The Rockefeller UniversityVertebrate Genome Laboratory, The Rockefeller UniversityDepartment of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoDepartment of Anatomy, University of OtagoAbstract Combining genome assembly with population and functional genomics can provide valuable insights to development and evolution, as well as tools for species management. Here, we present a chromosome-level genome assembly of the common brushtail possum (Trichosurus vulpecula), a model marsupial threatened in parts of their native range in Australia, but also a major introduced pest in New Zealand. Functional genomics reveals post-natal activation of chemosensory and metabolic genes, reflecting unique adaptations to altricial birth and delayed weaning, a hallmark of marsupial development. Nuclear and mitochondrial analyses trace New Zealand possums to distinct Australian subspecies, which have subsequently hybridised. This admixture allowed phasing of parental alleles genome-wide, ultimately revealing at least four genes with imprinted, parent-specific expression not yet detected in other species (MLH1, EPM2AIP1, UBP1 and GPX7). We find that reprogramming of possum germline imprints, and the wider epigenome, is similar to eutherian mammals except onset occurs after birth. Together, this work is useful for genetic-based control and conservation of possums, and contributes to understanding of the evolution of novel mammalian epigenetic traits.https://doi.org/10.1038/s41467-023-41784-8 |
| spellingShingle | Donna M. Bond Oscar Ortega-Recalde Melanie K. Laird Takashi Hayakawa Kyle S. Richardson Finlay.C. B. Reese Bruce Kyle Brooke E. McIsaac-Williams Bruce C. Robertson Yolanda van Heezik Amy L. Adams Wei-Shan Chang Bettina Haase Jacquelyn Mountcastle Maximilian Driller Joanna Collins Kerstin Howe Yasuhiro Go Francoise Thibaud-Nissen Nicholas C. Lister Paul D. Waters Olivier Fedrigo Erich D. Jarvis Neil J. Gemmell Alana Alexander Timothy A. Hore The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes Nature Communications |
| title | The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes |
| title_full | The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes |
| title_fullStr | The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes |
| title_full_unstemmed | The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes |
| title_short | The admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes |
| title_sort | admixed brushtail possum genome reveals invasion history in new zealand and novel imprinted genes |
| url | https://doi.org/10.1038/s41467-023-41784-8 |
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