Journal article
The zebrafish reference genome sequence and its relationship to the human genome
K Howe, MD Clark, CF Torroja, J Torrance, C Berthelot, M Muffato, JE Collins, S Humphray, K McLaren, L Matthews, S McLaren, I Sealy, M Caccamo, C Churcher, C Scott, JC Barrett, R Koch, GJ Rauch, S White, W Chow Show all
Nature | NATURE PORTFOLIO | Published : 2013
DOI: 10.1038/nature12111
Abstract
Zebrafish have become a popular organism for the study of vertebrate gene function. The virtually transparent embryos of this species, and the ability to accelerate genetic studies by gene knockdown or overexpression, have led to the widespread use of zebrafish in the detailed investigation of vertebrate gene function and increasingly, the study of human genetic disease. However, for effective modelling of human genetic disease it is important to understand the extent to which zebrafish genes and gene structures are related to orthologous human genes. To examine this, we generated a high-quality sequence assembly of the zebrafish genome, made up of an overlapping set of completely sequenced ..
View full abstractGrants
Awarded by National Institute of Child Health and Human Development
Funding Acknowledgements
We wish to thank R. Durbin, E. Birney, A. Scally, C. P. Ponting, E. Busch-Nentwich and R. Kettleborough for helpful discussions, as well as F. L. Marlow and P. Aanstad for critical reading and helpful comments on manuscripts. We thank the zebrafish information network (ZFIN) for funding part of the manual annotation of the zebrafish genome and the ZFIN staff for support with gene nomenclature and other genome issues. We also thank the Genome Reference Consortium for the maintenance and improvement of the zebrafish genome assembly. We are indebted to the Ensembl team for providing a browser and database that greatly facilitated the use and the analyses of the zebrafish genome. We thank A. Pirani at Affymetrix for genotyping advice support, and the Zebrafish International Resource Center (ZIRC) for distributing the SAT strain. J.H.P. was supported by the National Institutes of Health (NIH) grant R01 GM085318 (to J.H.P.), NIH grant P01 HD22486 (to J.H.P.) and R01 OD011116 (later changed to R01 RR020833) (to J.H.P.). We would like to acknowledge the support of the European Commission's Sixth Framework Programme (contract no. LSHG-CT-2003-503496, ZF-MODELS) and Seventh Framework Programme (grant no. HEALTH-F4-2010-242048, ZF-HEALTH). R. G. was supported by the German Human Genome Project (DHGP Grant 01 KW 9627 and 01 KW 9919). C. N.-V., G.-J.R. and R. G. were supported by the NIH (NIH grant 1 R01 DK55377-01A1). The Zebrafish Genome Project at the Wellcome Trust Sanger Institute was funded by Wellcome Trust grant number 098051.