Principal Investigator: Tomàs Marquès-Bonet Principal Investigator: Tomàs Marquès-Bonet

 

Research lines Research lines

Our main line of research is centered on the discovery of the extent of all kinds of genome variation within phenotypically different genomes. Specifically, we study genome variation (centered on CNVs), gene expression and epigenetic differences in the human species in the context of great ape evolution and other mammalian genomes such as canids. Our goal is to create an integrated view of genome evolution by studying changes in the composition, frequency, size and location at every major branch point of recent human evolution.

Genomic variation in ape genomes

Characterizing the variation of thousands of human genomes is standard today. However, primates (our closest relatives) are the ideal set of species for studying the evolution of these features from both mechanistic and adaptive points of view. In this line of research, we use genomic approaches in humans and primates to understand the impact of variants in the evolution of every species to provide a proper perspective to the differences among species.

Epigenetics and transcriptomics of non-human primates

DNA methylation is an epigenetic modification involved in regulatory processes such as cell differentiation during development, X-chromosome inactivation, genomic imprinting and susceptibility to complex disease. However, the dynamics of DNA methylation changes between humans and their closest relatives is still poorly understood. In this project, we evaluate methylation patterns in recent human evolution. We identified a significant positive relationship between the rate of coding variation and alterations of methylation at the promoter level.

Canid evolution

The domestic dog has been widely recognized as an important organism for studying the relationship between selection, genome variation and phenotypic diversity. Both dogs and wolves have been extensively surveyed using mtDNA, microsatellites and SNPs,  but structural variation, including variation in multicopy gene families, has not been fully characterized in canines.

 

Lab website: Comparative Genomics Lab

News News

Principal Investigator Principal Investigator

Current members Current members

Publications since 2011 Publications since 2011

Sousa, André M.M.; Zhu, Y.; Raghanti, M. A.; Kitchen, R.R.; Onorato, M.; Tebbenkamp, A.T.N.; Stutz, B.; Meyer, K.A.; Li, M.; Imamura Kawasawa, Y.; Liu, F.; Garcia Perez, R.; Mele, M.; Carvalho, T.; Skarica, M.; Gulden, F.O.; Pletikos, M.; Shibata, A.; Stephenson, A.R.; Edler, M.K.; Ely, J.J.; Elsworth, J.D.; Horvath, T.L.; Hof, P.R.; Hyde, T.M.; Kleinman, J.E.; Weinberger, D.R.; Reimers, M.; Lifton, R.P.; Mane, S.M.; Noonan, J.P.; State, M.W.; Lein, E.S.; Knowles, J.A.; Marques-Bonet, T.; Sherwood, C.C.; Gerstein, M.B.; Sestan, N. 2017. Molecular and cellular reorganisation of neural circuits in the human lineageScience 24 Nov 2017: Vol. 358, Issue 6366, pp. 1027-1032

Nater, A.; Mattle-Greminger, M.P.; Nurcayo, A.; Nowak, M.G.; de Manuel, M.; Desai, T.; Groves, C.; Pybus, M.; Sonay, T.B.; Roos, C.; Lameira, A.R.; Wich, SA.; Askew, J.; Davila-Ross, M.; Fredriksson, G.; de Valles, G.; Casals, F.; Prado-Martinez, J.; Goossens, B.; Verschoor, E.J.; Warren, K.S.; Singleton, I.; Marques, D.A.; Pamungkas, J.; Perwitasari-Farajalla, D.; Rianti, P.; Tuuga, A.; Gut, I.G.; Gut, M.; Orozco-terWengel, P.; van Schaik, C.P.; Bertranpetit, J.; Anisimova, M.; Scally, A.; Marques-Bonet, T.; Meijaard, E.; Krützen, M. 2017. Morphometric, Behavioral, and Genomic Evidence for a New Orangutan SpeciesCurrent Biology, 2017 Nov 20; 27 (22):3487-3498.e10

Nam, K.; Munch, K.; Mailund, T.; Nater, A.; Greminger, M.P.; Krützen, M.; Marquès-Bonet, T.; Schierup, M.H. 2017. Evidence that the rate of strong selective sweeps increases with population size in the great apes. Proc Natl Acad Sci U S A. pii: 201605660. doi: 10.1073/pnas.1605660114. [Epub ahead of print]


McConnell, M.J.; Moran, J.V.; Abyzov, A.; Akbarian, S.; Bae, T.; Cortes-Ciriano, I.; Erwin, J.A.; Fasching, L.; Flasch, D.A.; Freed, D.; Ganz, J., Jaffe, A.E.; Kwan, K.Y.; Kwon, M.; Lodato, M.A.; Mills, R.E.; Paquola, A.C.M.; Rodin, R.E.; Rosenbluh, C.; Sestan, N.; Sherman, M.A.; Shin, J.H.; Song, S.; Straub, R.E.; Thorpe, J.; Weinberger, D.R.; Urban, A.E.; Zhou, B.; Gage, F.H.; Lehner, T.; Senthil, G.; Walsh, C.A.; Chess, A.; Courchesne, E.; Gleeson, J.G.; Kidd, J.M.;  Park, P.J.; Pevsner, J.; Vaccarino, F.M.; Brain Somatic Mosaicism Network. 2017. Intersection of diverse neuronal genomes and neuropsychiatric disease: The Brain Somatic Mosaicism Network. Science  356:6336 eaal1641

Librado, P.; Gamba, C.; Gaunitz, C.; Der Sarkissian, C.; Pruvost, M.; Albrechtsen, M.; Fages, A.; Khan, N.; Schubert, M.; Jagannathan, V.; Serres-Armero, A.; Kuderna, L.F.K; Povolotskaya, I.S.; Seguin-Orlando, A.; Lepetz, S.; Neuditschko, M.; Thèves, C.; Alquraishi, S.; Alfarhan, A.H.; Al-Rasheid, K.; Rieder, S.; Samashev, Z.; Francfort, H.-P.; Benecke, N.; Hofreiter, M.; Ludwig, A.; Keyser, C.; Marques-Bonet, T.; Ludes, B.; Crubézy, E.; Leeb, T.; Willerslev, E.; Orlando, L. 2017. Ancient genomic changes associated with domestication of the horse. Science, 356 (6336):442-445.

Ongoing projects Ongoing projects

In the media In the media

18th November, 2017. VCN. "¿Por qué Copito de Nieve era blanco?" (mentions Tomàs Marquès-Bonet and Jaume Bertranpetit).

On the publication of the paper Nater, A. et al (2017). Morphometric, behavioral, and genomic evidence for a new orangutan species, with the participation of Tomàs Marquès-BonetCurrent Biology. DOI:10.1016/j.cub.2017.09.047 

6th November 2017:

"Una nueva especie de orangután descubierta en Sumatra está casi extinta", Noticias de la Ciencia y la Tecnología

 

4th November 2017:

"Descoberta a Sumatra una nova espècie de gran simi", ARA Ciència

 

3rd November 2017:

"Hallada una nueva especie de orangután en Indonesia", El País

"Descubren en Sumatra una nueva especie de orangután", El Mundo

"Una nueva especie de orangután descubierta en Sumatra está casi extinta", Agencia SINC

"Descrita una nueva especie de orangután en Sumatra", La Vanguardia

"El orangután descubierto «in extremis»", La Razón