Evolutionary signals of selection on cognition from the great tit genome and methylome

Veronika Laine; T.I. Gossmann; K.M. Schachtschneider; C.J. Garroway; O. Madsen; K.J.F. Verhoeven; V.C.L. de Jager; H-J. Megens; W.C. Warren; P. Minx; R.P.M.A. Crooijmans; P. Corcoran; B.C. Sheldon; J. Slate; K. Zeng; K. van Oers; M.E. Visser; M.A.M. Groenen

doi:10.1038/ncomms10474

Evolutionary signals of selection on cognition from the great tit genome and methylome

Veronika Laine, T.I. Gossmann, K.M. Schachtschneider, C.J. Garroway, O. Madsen, K.J.F. Verhoeven, V.C.L. de Jager, H-J. Megens, W.C. Warren, P. Minx, R.P.M.A. Crooijmans, P. Corcoran, , B.C. Sheldon, J. Slate, K. Zeng, K. van Oers, M.E. Visser, M.A.M. Groenen

Research output: Contribution to journal/periodical › Article › Scientific › peer-review

150 Citations (Scopus)

237 Downloads (Pure)

Abstract

For over 50 years, the great tit (Parus major) has been a model species for research in evolutionary, ecological and behavioural research; in particular, learning and cognition have been intensively studied. Here, to provide further insight into the molecular mechanisms behind these important traits, we de novo assemble a great tit reference genome and whole-genome re-sequence another 29 individuals from across Europe. We show an overrepresentation of genes related to neuronal functions, learning and cognition in regions under positive selection, as well as increased CpG methylation in these regions. In addition, great tit neuronal non-CpG methylation patterns are very similar to those observed in mammals, suggesting a universal role in neuronal epigenetic regulation which can affect learning-, memory- and experience-induced plasticity. The high-quality great tit genome assembly will play an instrumental role in furthering the integration of ecological, evolutionary, behavioural and genomic approaches in this model species.

Original language	English
Article number	10474
Journal	Nature Communications
Volume	7
DOIs	https://doi.org/10.1038/ncomms10474
Publication status	Published - 2016

Keywords

international

Access to Document

10.1038/ncomms10474Licence: CC BY

5988_Laine
This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material.
Final published version, 1.15 MBLicence: CC BY

Cite this

Laine, V., Gossmann, T. I., Schachtschneider, K. M., Garroway, C. J., Madsen, O., Verhoeven, K. J. F., de Jager, V. C. L., Megens, H.-J., Warren, W. C., Minx, P., Crooijmans, R. P. M. A., Corcoran, P., Sheldon, B. C., Slate, J., Zeng, K., van Oers, K., & Visser, M. E., & Groenen, M. A. M. (2016). Evolutionary signals of selection on cognition from the great tit genome and methylome. Nature Communications, 7, Article 10474. https://doi.org/10.1038/ncomms10474

@article{6c20ee5c1d7c4c2b8961266ee27d1d2b,

title = "Evolutionary signals of selection on cognition from the great tit genome and methylome",

abstract = "For over 50 years, the great tit (Parus major) has been a model species for research in evolutionary, ecological and behavioural research; in particular, learning and cognition have been intensively studied. Here, to provide further insight into the molecular mechanisms behind these important traits, we de novo assemble a great tit reference genome and whole-genome re-sequence another 29 individuals from across Europe. We show an overrepresentation of genes related to neuronal functions, learning and cognition in regions under positive selection, as well as increased CpG methylation in these regions. In addition, great tit neuronal non-CpG methylation patterns are very similar to those observed in mammals, suggesting a universal role in neuronal epigenetic regulation which can affect learning-, memory- and experience-induced plasticity. The high-quality great tit genome assembly will play an instrumental role in furthering the integration of ecological, evolutionary, behavioural and genomic approaches in this model species.",

keywords = "international",

author = "Veronika Laine and T.I. Gossmann and K.M. Schachtschneider and C.J. Garroway and O. Madsen and K.J.F. Verhoeven and {de Jager}, V.C.L. and H-J. Megens and W.C. Warren and P. Minx and R.P.M.A. Crooijmans and P. Corcoran and B.C. Sheldon and J. Slate and K. Zeng and {van Oers}, K. and M.E. Visser and M.A.M. Groenen",

note = "5988, AnE; Data Archiving: Data archived at Genbank",

year = "2016",

doi = "10.1038/ncomms10474",

language = "English",

volume = "7",

journal = "Nature Communications",

issn = "2041-1723",

publisher = "Nature Publishing Group",

}

Laine, V, Gossmann, TI, Schachtschneider, KM, Garroway, CJ, Madsen, O, Verhoeven, KJF, de Jager, VCL, Megens, H-J, Warren, WC, Minx, P, Crooijmans, RPMA, Corcoran, P, Sheldon, BC, Slate, J, Zeng, K, van Oers, K & Visser, ME & Groenen, MAM 2016, 'Evolutionary signals of selection on cognition from the great tit genome and methylome', Nature Communications, vol. 7, 10474. https://doi.org/10.1038/ncomms10474

TY - JOUR

T1 - Evolutionary signals of selection on cognition from the great tit genome and methylome

AU - Laine, Veronika

AU - Gossmann, T.I.

AU - Schachtschneider, K.M.

AU - Garroway, C.J.

AU - Madsen, O.

AU - Verhoeven, K.J.F.

AU - de Jager, V.C.L.

AU - Megens, H-J.

AU - Warren, W.C.

AU - Minx, P.

AU - Crooijmans, R.P.M.A.

AU - Corcoran, P.

AU - Sheldon, B.C.

AU - Slate, J.

AU - Zeng, K.

AU - van Oers, K.

AU - Visser, M.E.

AU - Groenen, M.A.M.

N1 - 5988, AnE; Data Archiving: Data archived at Genbank

PY - 2016

Y1 - 2016

N2 - For over 50 years, the great tit (Parus major) has been a model species for research in evolutionary, ecological and behavioural research; in particular, learning and cognition have been intensively studied. Here, to provide further insight into the molecular mechanisms behind these important traits, we de novo assemble a great tit reference genome and whole-genome re-sequence another 29 individuals from across Europe. We show an overrepresentation of genes related to neuronal functions, learning and cognition in regions under positive selection, as well as increased CpG methylation in these regions. In addition, great tit neuronal non-CpG methylation patterns are very similar to those observed in mammals, suggesting a universal role in neuronal epigenetic regulation which can affect learning-, memory- and experience-induced plasticity. The high-quality great tit genome assembly will play an instrumental role in furthering the integration of ecological, evolutionary, behavioural and genomic approaches in this model species.

AB - For over 50 years, the great tit (Parus major) has been a model species for research in evolutionary, ecological and behavioural research; in particular, learning and cognition have been intensively studied. Here, to provide further insight into the molecular mechanisms behind these important traits, we de novo assemble a great tit reference genome and whole-genome re-sequence another 29 individuals from across Europe. We show an overrepresentation of genes related to neuronal functions, learning and cognition in regions under positive selection, as well as increased CpG methylation in these regions. In addition, great tit neuronal non-CpG methylation patterns are very similar to those observed in mammals, suggesting a universal role in neuronal epigenetic regulation which can affect learning-, memory- and experience-induced plasticity. The high-quality great tit genome assembly will play an instrumental role in furthering the integration of ecological, evolutionary, behavioural and genomic approaches in this model species.

KW - international

UR - http://www.ncbi.nlm.nih.gov/nuccore/?term=JRXK00000000

U2 - 10.1038/ncomms10474

DO - 10.1038/ncomms10474

M3 - Article

SN - 2041-1723

VL - 7

JO - Nature Communications

JF - Nature Communications

M1 - 10474

ER -

Evolutionary signals of selection on cognition from the great tit genome and methylome

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

E-Response: EU - ERC - ADG: Evolutionary responses to a warming world: physiological genomics of seasonal timing

NWO-VIDI: Causes and consequences of heritable epigenetic variation in asexual plants

Parus major Genome sequencing and assembly

Cite this

Evolutionary signals of selection on cognition from the great tit genome and methylome

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

Projects

E-Response: EU - ERC - ADG: Evolutionary responses to a warming world: physiological genomics of seasonal timing

NWO-VIDI: Causes and consequences of heritable epigenetic variation in asexual plants

Datasets

Parus major Genome sequencing and assembly

Cite this