{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Tomaszkiewicz M"],"funding":["Leverhulme Trust","John and Beverly Stauffer foundation","Penn State Clinical and Translational Sciences Institute","Pennsylvania Department of Health","National Institutes of Healt","NIGMS NIH HHS","National Science Foundation","Alice B. Tyler Charitable Trust"],"pagination":["530-40"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC4817776"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["26(4)"],"pubmed_abstract":["The mammalian Y Chromosome sequence, critical for studying male fertility and dispersal, is enriched in repeats and palindromes, and thus, is the most difficult component of the genome to assemble. Previously, expensive and labor-intensive BAC-based techniques were used to sequence the Y for a handful of mammalian species. Here, we present a much faster and more affordable strategy for sequencing and assembling mammalian Y Chromosomes of sufficient quality for most comparative genomics analyses and for conservation genetics applications. The strategy combines flow sorting, short- and long-read genome and transcriptome sequencing, and droplet digital PCR with novel and existing computational methods. It can be used to reconstruct sex chromosomes in a heterogametic sex of any species. We app"],"journal":["Genome research"],"pubmed_title":["A time- and cost-effective strategy to sequence mammalian Y Chromosomes: an application to the de novo assembly of gorilla Y."],"pmcid":["PMC4817776"],"funding_grant_id":["IIS-1453527","DBI-1356529","IIS-1421908","CCF-1439057","DBI-ABI 0965596","T32 GM102057","1T32GM102057-0A1"],"pubmed_authors":["Makova KD","Chikhi R","Harris R","Rangavittal S","Ferguson-Smith MA","O'Brien PC","Ryder OA","Cechova M","Tomaszkiewicz M","Ye D","Campos Sanchez R","Fescemyer HW","Medvedev P"],"additional_accession":[]},"is_claimable":false,"name":"A time- and cost-effective strategy to sequence mammalian Y Chromosomes: an application to the de novo assembly of gorilla Y.","description":"The mammalian Y Chromosome sequence, critical for studying male fertility and dispersal, is enriched in repeats and palindromes, and thus, is the most difficult component of the genome to assemble. Previously, expensive and labor-intensive BAC-based techniques were used to sequence the Y for a handful of mammalian species. Here, we present a much faster and more affordable strategy for sequencing and assembling mammalian Y Chromosomes of sufficient quality for most comparative genomics analyses and for conservation genetics applications. The strategy combines flow sorting, short- and long-read genome and transcriptome sequencing, and droplet digital PCR with novel and existing computational methods. It can be used to reconstruct sex chromosomes in a heterogametic sex of any species. We app","dates":{"release":"2016-01-01T00:00:00Z","publication":"2016 Apr","modification":"2026-05-04T08:07:34.641Z","creation":"2019-03-27T03:11:01Z"},"accession":"S-EPMC4817776","cross_references":{"pubmed":["26934921"],"doi":["10.1101/gr.199448.115"]}}