First assembly of a draft genome of the critically endangered northern muriqui (Brachyteles hypoxanthus, primates, atelidae) including non-invasive genotyping strategies for the species

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• dc.contributor.author Melo-Ximenes, Amanda Alves de
• dc.contributor.author Batista, Romina
• dc.contributor.author Corvalán, Leonardo Carlos Jeronimo
• dc.contributor.author Marquès i Bonet, Tomàs, 1975-
• dc.contributor.author Kuderna, Lukas, 1989-
• dc.contributor.author Farh, Kyle
• dc.contributor.author Rogers, Jeffrey
• dc.contributor.author Kaizer, Mariane da Cruz
• dc.contributor.author Boubli, Jean P.
• dc.contributor.author Melo, Fabiano Rodrigues de
• dc.contributor.author Nunes, Rhewter
• dc.contributor.author Telles, Mariana Pires de Campos
• dc.date.accessioned 2025-11-07T15:24:04Z
• dc.date.available 2025-11-07T15:24:04Z
• dc.date.issued 2025
• dc.date.updated 2025-11-07T15:24:04Z
• dc.description.abstract Genomic resources, such as draft genomes, are vital for biodiversity monitoring and conservation. For endangered species, they enable the development of tools like organellar genomes and molecular markers, which are crucial for population genetics. Advances in sequencing technologies now allow high-throughput genotyping with detailed amplicon sequences, enhancing genetic variation studies. The northern muriqui (Brachyteles hypoxanthus), a critically endangered primate endemic to Brazil's Atlantic Forest, currently lacks both nuclear and mitochondrial genome data and species-specific microsatellite markers for population genetic studies. We assembled a 2.52 Gb draft genome for B. hypoxanthus with 202,243 contigs (N50 = 29,134 bp), and BUSCO analyses indicated 52% completeness and 15.5% fragmented genes. The complete 16,635 bp mitochondrial genome retains the conserved mammalian structure with 22 tRNAs, 2 rRNAs, 13 CDS, and an origin of replication. Additionally, we designed 31 SSR primer pairs suitable for non-invasive sampling and genotyping, alongside two mtDNA and two sex-determination primers, configured into three multiplex PCR sets. These genomic resources, including the draft genome, complete mitochondrial genome, and microsatellite markers, provide essential tools for evolutionary analyses and the genetic monitoring of B. hypoxanthus populations, supporting its conservation.
• dc.format.mimetype application/pdf
• dc.identifier.citation Melo-Ximenes AA, Batista R, Corvalan LCJ, Marques-Bonet T, Kuderna L, Farh K, Rogers J, Kaizer MC, Boubli JP, Melo FR, Nunes R, Telles MPC. First assembly of a draft genome of the critically endangered northern muriqui (Brachyteles hypoxanthus, primates, atelidae) including non-invasive genotyping strategies for the species. Ecol Evol. 2025 Aug 19;15(8):e71356. DOI: 10.1002/ece3.71356
• dc.identifier.doi http://dx.doi.org/10.1002/ece3.71356
• dc.identifier.issn 2045-7758
• dc.identifier.uri http://hdl.handle.net/10230/71812
• dc.language.iso eng
• dc.publisher Wiley
• dc.relation.ispartof Ecology and Evolution. 2025;15(8):e71356
• dc.rights © 2025 The Author(s). Ecology and Evolution published by British Ecological Society and John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Conservation genomics
• dc.subject.keyword GBS
• dc.subject.keyword Genomics
• dc.subject.keyword HTS
• dc.subject.keyword SSR
• dc.subject.keyword SSR-Seq
• dc.title First assembly of a draft genome of the critically endangered northern muriqui (Brachyteles hypoxanthus, primates, atelidae) including non-invasive genotyping strategies for the species
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion