The tuatara genome reveals ancient features of amniote evolution

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

The tuatara genome reveals ancient features of amniote evolution. / Gemmell, Neil J.; Rutherford, Kim; Prost, Stefan; Tollis, Marc; Winter, David; Macey, J. Robert; Adelson, David L.; Suh, Alexander; Bertozzi, Terry; Grau, Jose H.; Organ, Chris; Gardner, Paul P.; Muffato, Matthieu; Patricio, Mateus; Billis, Konstantinos; Martin, Fergal J.; Flicek, Paul; Petersen, Bent; Kang, Lin; Michalak, Pawel; Buckley, Thomas R.; Wilson, Melissa; Cheng, Yuanyuan; Miller, Hilary; Schott, Ryan K.; Jordan, Melissa D.; Newcomb, Richard D.; Arroyo, Jose Ignacio; Valenzuela, Nicole; Hore, Tim A.; Renart, Jaime; Peona, Valentina; Peart, Claire R.; Warmuth, Vera M.; Zeng, Lu; Kortschak, R. Daniel; Raison, Joy M.; Zapata, Valeria Velasquez; Wu, Zhiqiang; Santesmasses, Didac; Mariotti, Marco; Guigo, Roderic; Rupp, Shawn M.; Twort, Victoria G.; Dussex, Nicolas; Taylor, Helen; Abe, Hideaki; Bond, Donna M.; Paterson, James M.; Mulcahy, Daniel G.; Ngatiwai Trust Board.

In: Nature, Vol. 584, 2020, p. 403–409, +19.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Gemmell, NJ, Rutherford, K, Prost, S, Tollis, M, Winter, D, Macey, JR, Adelson, DL, Suh, A, Bertozzi, T, Grau, JH, Organ, C, Gardner, PP, Muffato, M, Patricio, M, Billis, K, Martin, FJ, Flicek, P, Petersen, B, Kang, L, Michalak, P, Buckley, TR, Wilson, M, Cheng, Y, Miller, H, Schott, RK, Jordan, MD, Newcomb, RD, Arroyo, JI, Valenzuela, N, Hore, TA, Renart, J, Peona, V, Peart, CR, Warmuth, VM, Zeng, L, Kortschak, RD, Raison, JM, Zapata, VV, Wu, Z, Santesmasses, D, Mariotti, M, Guigo, R, Rupp, SM, Twort, VG, Dussex, N, Taylor, H, Abe, H, Bond, DM, Paterson, JM, Mulcahy, DG & Ngatiwai Trust Board 2020, 'The tuatara genome reveals ancient features of amniote evolution', Nature, vol. 584, pp. 403–409, +19. https://doi.org/10.1038/s41586-020-2561-9

APA

Gemmell, N. J., Rutherford, K., Prost, S., Tollis, M., Winter, D., Macey, J. R., Adelson, D. L., Suh, A., Bertozzi, T., Grau, J. H., Organ, C., Gardner, P. P., Muffato, M., Patricio, M., Billis, K., Martin, F. J., Flicek, P., Petersen, B., Kang, L., ... Ngatiwai Trust Board (2020). The tuatara genome reveals ancient features of amniote evolution. Nature, 584, 403–409, +19. https://doi.org/10.1038/s41586-020-2561-9

Vancouver

Gemmell NJ, Rutherford K, Prost S, Tollis M, Winter D, Macey JR et al. The tuatara genome reveals ancient features of amniote evolution. Nature. 2020;584:403–409, +19. https://doi.org/10.1038/s41586-020-2561-9

Author

Gemmell, Neil J. ; Rutherford, Kim ; Prost, Stefan ; Tollis, Marc ; Winter, David ; Macey, J. Robert ; Adelson, David L. ; Suh, Alexander ; Bertozzi, Terry ; Grau, Jose H. ; Organ, Chris ; Gardner, Paul P. ; Muffato, Matthieu ; Patricio, Mateus ; Billis, Konstantinos ; Martin, Fergal J. ; Flicek, Paul ; Petersen, Bent ; Kang, Lin ; Michalak, Pawel ; Buckley, Thomas R. ; Wilson, Melissa ; Cheng, Yuanyuan ; Miller, Hilary ; Schott, Ryan K. ; Jordan, Melissa D. ; Newcomb, Richard D. ; Arroyo, Jose Ignacio ; Valenzuela, Nicole ; Hore, Tim A. ; Renart, Jaime ; Peona, Valentina ; Peart, Claire R. ; Warmuth, Vera M. ; Zeng, Lu ; Kortschak, R. Daniel ; Raison, Joy M. ; Zapata, Valeria Velasquez ; Wu, Zhiqiang ; Santesmasses, Didac ; Mariotti, Marco ; Guigo, Roderic ; Rupp, Shawn M. ; Twort, Victoria G. ; Dussex, Nicolas ; Taylor, Helen ; Abe, Hideaki ; Bond, Donna M. ; Paterson, James M. ; Mulcahy, Daniel G. ; Ngatiwai Trust Board. / The tuatara genome reveals ancient features of amniote evolution. In: Nature. 2020 ; Vol. 584. pp. 403–409, +19.

Bibtex

@article{29438445783445d5a9f1cdb61c8853d2,
title = "The tuatara genome reveals ancient features of amniote evolution",
abstract = "The tuatara (Sphenodon punctatus)-the only living member of the reptilian order Rhynchocephalia (Sphenodontia), once widespread across Gondwana(1,2)-is an iconic species that is endemic to New Zealand(2,3). A key link to the now-extinct stem reptiles (from which dinosaurs, modern reptiles, birds and mammals evolved), the tuatara provides key insights into the ancestral amniotes(2,4). Here we analyse the genome of the tuatara, which-at approximately 5 Gb-is among the largest of the vertebrate genomes yet assembled. Our analyses of this genome, along with comparisons with other vertebrate genomes, reinforce the uniqueness of the tuatara. Phylogenetic analyses indicate that the tuatara lineage diverged from that of snakes and lizards around 250 million years ago. This lineage also shows moderate rates of molecular evolution, with instances of punctuated evolution. Our genome sequence analysis identifies expansions of proteins, non-protein-coding RNA families and repeat elements, the latter of which show an amalgam of reptilian and mammalian features. The sequencing of the tuatara genome provides a valuable resource for deep comparative analyses of tetrapods, as well as for tuatara biology and conservation. Our study also provides important insights into both the technical challenges and the cultural obligations that are associated with genome sequencing.The approximately 5-Gb tuatara (Sphenodon punctatus) genome assembly provides a resource for analysing amniote evolution, and highlights the imperative for meaningful cultural engagement with Indigenous communities in genome-sequencing endeavours.",
keywords = "NEW-ZEALAND, SPHENODON, ELEMENTS",
author = "Gemmell, {Neil J.} and Kim Rutherford and Stefan Prost and Marc Tollis and David Winter and Macey, {J. Robert} and Adelson, {David L.} and Alexander Suh and Terry Bertozzi and Grau, {Jose H.} and Chris Organ and Gardner, {Paul P.} and Matthieu Muffato and Mateus Patricio and Konstantinos Billis and Martin, {Fergal J.} and Paul Flicek and Bent Petersen and Lin Kang and Pawel Michalak and Buckley, {Thomas R.} and Melissa Wilson and Yuanyuan Cheng and Hilary Miller and Schott, {Ryan K.} and Jordan, {Melissa D.} and Newcomb, {Richard D.} and Arroyo, {Jose Ignacio} and Nicole Valenzuela and Hore, {Tim A.} and Jaime Renart and Valentina Peona and Peart, {Claire R.} and Warmuth, {Vera M.} and Lu Zeng and Kortschak, {R. Daniel} and Raison, {Joy M.} and Zapata, {Valeria Velasquez} and Zhiqiang Wu and Didac Santesmasses and Marco Mariotti and Roderic Guigo and Rupp, {Shawn M.} and Twort, {Victoria G.} and Nicolas Dussex and Helen Taylor and Hideaki Abe and Bond, {Donna M.} and Paterson, {James M.} and Mulcahy, {Daniel G.} and {Ngatiwai Trust Board}",
year = "2020",
doi = "10.1038/s41586-020-2561-9",
language = "English",
volume = "584",
pages = "403–409, +19",
journal = "Nature",
issn = "0028-0836",
publisher = "nature publishing group",

}

RIS

TY - JOUR

T1 - The tuatara genome reveals ancient features of amniote evolution

AU - Gemmell, Neil J.

AU - Rutherford, Kim

AU - Prost, Stefan

AU - Tollis, Marc

AU - Winter, David

AU - Macey, J. Robert

AU - Adelson, David L.

AU - Suh, Alexander

AU - Bertozzi, Terry

AU - Grau, Jose H.

AU - Organ, Chris

AU - Gardner, Paul P.

AU - Muffato, Matthieu

AU - Patricio, Mateus

AU - Billis, Konstantinos

AU - Martin, Fergal J.

AU - Flicek, Paul

AU - Petersen, Bent

AU - Kang, Lin

AU - Michalak, Pawel

AU - Buckley, Thomas R.

AU - Wilson, Melissa

AU - Cheng, Yuanyuan

AU - Miller, Hilary

AU - Schott, Ryan K.

AU - Jordan, Melissa D.

AU - Newcomb, Richard D.

AU - Arroyo, Jose Ignacio

AU - Valenzuela, Nicole

AU - Hore, Tim A.

AU - Renart, Jaime

AU - Peona, Valentina

AU - Peart, Claire R.

AU - Warmuth, Vera M.

AU - Zeng, Lu

AU - Kortschak, R. Daniel

AU - Raison, Joy M.

AU - Zapata, Valeria Velasquez

AU - Wu, Zhiqiang

AU - Santesmasses, Didac

AU - Mariotti, Marco

AU - Guigo, Roderic

AU - Rupp, Shawn M.

AU - Twort, Victoria G.

AU - Dussex, Nicolas

AU - Taylor, Helen

AU - Abe, Hideaki

AU - Bond, Donna M.

AU - Paterson, James M.

AU - Mulcahy, Daniel G.

AU - Ngatiwai Trust Board

PY - 2020

Y1 - 2020

N2 - The tuatara (Sphenodon punctatus)-the only living member of the reptilian order Rhynchocephalia (Sphenodontia), once widespread across Gondwana(1,2)-is an iconic species that is endemic to New Zealand(2,3). A key link to the now-extinct stem reptiles (from which dinosaurs, modern reptiles, birds and mammals evolved), the tuatara provides key insights into the ancestral amniotes(2,4). Here we analyse the genome of the tuatara, which-at approximately 5 Gb-is among the largest of the vertebrate genomes yet assembled. Our analyses of this genome, along with comparisons with other vertebrate genomes, reinforce the uniqueness of the tuatara. Phylogenetic analyses indicate that the tuatara lineage diverged from that of snakes and lizards around 250 million years ago. This lineage also shows moderate rates of molecular evolution, with instances of punctuated evolution. Our genome sequence analysis identifies expansions of proteins, non-protein-coding RNA families and repeat elements, the latter of which show an amalgam of reptilian and mammalian features. The sequencing of the tuatara genome provides a valuable resource for deep comparative analyses of tetrapods, as well as for tuatara biology and conservation. Our study also provides important insights into both the technical challenges and the cultural obligations that are associated with genome sequencing.The approximately 5-Gb tuatara (Sphenodon punctatus) genome assembly provides a resource for analysing amniote evolution, and highlights the imperative for meaningful cultural engagement with Indigenous communities in genome-sequencing endeavours.

AB - The tuatara (Sphenodon punctatus)-the only living member of the reptilian order Rhynchocephalia (Sphenodontia), once widespread across Gondwana(1,2)-is an iconic species that is endemic to New Zealand(2,3). A key link to the now-extinct stem reptiles (from which dinosaurs, modern reptiles, birds and mammals evolved), the tuatara provides key insights into the ancestral amniotes(2,4). Here we analyse the genome of the tuatara, which-at approximately 5 Gb-is among the largest of the vertebrate genomes yet assembled. Our analyses of this genome, along with comparisons with other vertebrate genomes, reinforce the uniqueness of the tuatara. Phylogenetic analyses indicate that the tuatara lineage diverged from that of snakes and lizards around 250 million years ago. This lineage also shows moderate rates of molecular evolution, with instances of punctuated evolution. Our genome sequence analysis identifies expansions of proteins, non-protein-coding RNA families and repeat elements, the latter of which show an amalgam of reptilian and mammalian features. The sequencing of the tuatara genome provides a valuable resource for deep comparative analyses of tetrapods, as well as for tuatara biology and conservation. Our study also provides important insights into both the technical challenges and the cultural obligations that are associated with genome sequencing.The approximately 5-Gb tuatara (Sphenodon punctatus) genome assembly provides a resource for analysing amniote evolution, and highlights the imperative for meaningful cultural engagement with Indigenous communities in genome-sequencing endeavours.

KW - NEW-ZEALAND

KW - SPHENODON

KW - ELEMENTS

U2 - 10.1038/s41586-020-2561-9

DO - 10.1038/s41586-020-2561-9

M3 - Journal article

C2 - 32760000

VL - 584

SP - 403–409, +19

JO - Nature

JF - Nature

SN - 0028-0836

ER -

ID: 249061354