Leatherback and Green Turtle Genome Assemblies

Genome assemblies have been deposited on NCBI GenBank. The NCBI GenBank accession numbers for the leatherback turtle assembly (rDerCor1) are GCF_009764565.3 and GCA_009762595.2 for the annotated primary and original alternate haplotypes in BioProject PRJNA561993, and for the green turtle assembly (rCheMyd1) are GCF_015237465.2 and GCA_015220195.2 for primary and alternate haplotypes respectively in BioProject PRJNA561941. The raw data used for assemblies are available on the Vertebrate Genome Ark (https://vgp.github.io/genomeark/). The leatherback turtle data generated for the purpose of assembly annotation was deposited in the SRA under accession numbers SRX8787564-SRX8787566 (RNA-Seq) and SRX6360706-SRX6360708 (ISO-Seq). Green turtle data generated for annotation were deposited in SRA under accessions SRX10863130-SRX10863133 (RNA-Seq) and as SRX11164043-SRX11164046 (ISO-Seq). The NovaSeq 6000 DNA-Seq data for the green turtle resequencing, including raw reads, are deposited in NCBI (https://www.ncbi.nlm.nih.gov/) under BioProject ID: PRJNA449022. All scripts used for downstream analyses following genome assembly and annotation have been deposited on GitHub under repository https://github.com/bpbentley/sea_turtle_genomes.

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Bentley B.P., Carrasco-Valenzuela T., Ramos E.K., Pawar H., Souza Arantes L., Alexander A., Banerjee S.M., Masterson P., Kuhlwilm M., Pippel M., Mountcastle J., Haase B., Uliano-Silva M., Formenti G., Howe K., Chow W., Tracey A., Sims Y., Pelan S., Wood J., Yetsko K., Perrault J.R., Stewart K., Benson S.R., Levy Y., Todd E.V., Shaffer H.B., Scott P., Henen B.T., Murphy R.W., Mohr D.W., Scott A.F., Duffy D.J., Gemmell N.J., Suh A., Winkler S., Thibaud-Nissen F., Nery M.F., Marques-Bonet T., Antunes A., Tikochinski Y., Dutton P.H., Fedrigo O., Myers E.W., Jarvis E.D., Mazzoni C.J, & Komoroske L.M. (2023). Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories. Proceedings of the National Academy of Sciences of the United States of America, 120(7), e2201076120.

Publication 2023

Genomes Haplotypes Rna seq Sea turtle Turtle Vertebrate

Corresponding Organization :

Other organizations : University of Massachusetts Amherst, Leibniz Institute for Zoo and Wildlife Research, Berlin Center for Genomics in Biodiversity Research, Universidade Estadual de Campinas (UNICAMP), Institut de Biologia Evolutiva, Pompeu Fabra University, University of Otago, National Center for Biotechnology Information, University of Vienna, Max Planck Institute of Molecular Cell Biology and Genetics, Center for Systems Biology Dresden, Rockefeller University, Wellcome Sanger Institute, University of Florida, Sea Turtle Conservancy, Ocean Foundation, NOAA National Marine Fisheries Service Southwest Fisheries Science Center, National Oceanic and Atmospheric Administration, Moss Landing Marine Laboratories, University of Haifa, Deakin University, California Department of Conservation, University of California, Los Angeles, West Texas A&M University, United States Marine Corps, Royal Ontario Museum, Johns Hopkins University, Science for Life Laboratory, University of East Anglia, Uppsala University, Centre for Genomic Regulation, Institució Catalana de Recerca i Estudis Avançats, Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona, Universidade do Porto, Ruppin Academic Center, TU Dresden

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