Amphioxus functional genomics (AmphiENCODE)
Lab members: Demián Burguera, Chris Wyatt
Funding: CRG; Genoscope and many other funding sources of the Consortium members (coordinator Hector Escriva).
As part of a large collaborative effort with many labs integrating the European Amphioxus Genome Consortium (coordinated by Hector Escriva (CNRS/UPMC)), Genoscope, and the lab of Jose Luis Gómez-Skarmeta (CADB-CSIC), we are participating in the sequencing, assembly and functional annotation of the European amphioxus, Branchiostoma lanceolatum. The work of this Consortium will provide unprecedented amounts of functional data for this slow-evolving invertebrate chordate, including RNA-Seq for multiple adult tissues and developmental stages, ChIP-Seq of chromatin modifications, ATAC-Seq, CAGE-Seq and Bisulphite-seq. These data will be integrated in public resources and will facilitate studies to understand the evolutionary origins of vertebrates by providing functional data for the best outgroup to our lineage.
- Venkatesh, B., Lee, A.P., Ravi, V., Lian, M.M., Maurya, A.K., Swann, J.B., Ohta, Y., Flajnik, M.F., Sutoh, Y., Kasahara, M., Hoon, S., Gangu, V., Roy, S.W., Irimia, M., Korzh, V., Kondrychyn, I., Tay, B., Tohari, S., Lim, Z.W., Kong, K.W., Ho, S., Lorente-Galdos, B., Quilez, J., Marques-Bonet, T., Raney, B.J., Ingham, P.W., Tay, A., Hillier, L.W., Minx, P., Boehm, T., Wilson, R.K., Brenner, S. (2014). The elephant shark genome provides unique insights into gnathostome evolution. Nature, 505(7482):174-9