Chromosome-length genome assembly of the stone marten (<i>Martes foina</i>, Mustelidae): A new view on one of the cornerstones in carnivore cytogenetics
The stone marten (Martes foina) is an important species for cytogenetic studies in the order Carnivora. ZooFISH probes created from its chromosomes provided a strong and clean signal in chromosome painting experiments and were valuable for studying the evolution of carnivoran genome architecture. The research revealed that the stone marten chromosome set is similar to the presumed ancestral karyotype of the Carnivora, which added an additional value for the species. Using linked-read and Hi-C sequencing, we generated a chromosome-length genome assembly of a male stone marten (Gansu province, China) from a primary cell line. The stone marten assembly had a length of 2.42 Gbp, scaffold N50 of 144 Mbp, and a 96.2% BUSCO completeness score. We identified 19 chromosomal scaffolds (2n = 38) and assigned them chromosome ids based on chromosome painting data. Annotation identified 20,087 protein-coding gene models, of which 18,283 were assigned common names. Comparison of the stone marten assembly with the cat, dog, and human genomes revealed several small syntenic blocks absent on the published painting maps. Finally, we assessed the heterozygosity and its distribution over the chromosomes. The detected low heterozygosity level (0.4 hetSNPs/kbp) and the presence of long runs of homozygosity require further research and a new evaluation of the conservation status of the stone marten in China. Combined with available carnivoran genomes in large-scale synteny analysis, the stone marten genome will highlight new features and events in carnivoran evolution, hidden from cytogenetic approaches.
Authors
- Erez Lieberman Aiden (ORCID: https://orcid.org/0000-0003-0634-6486)
- Nadezhda V. Vorobieva
- Fengtang Yang (ORCID: https://orcid.org/0000-0002-3573-2354)
- Natalia A. Serdyukova (ORCID: https://orcid.org/0000-0002-0409-1371)
- Klaus‐Peter Koepfli (ORCID: https://orcid.org/0000-0001-7281-0676)
- Olga Dudchenko (ORCID: https://orcid.org/0000-0001-9163-9544)
- Malcolm Andrew Ferguson-Smith (ORCID: https://orcid.org/0000-0001-9372-1381)
- Andrey Tomarovsky (ORCID: https://orcid.org/0000-0002-6414-704X)
- Sergei Kliver (ORCID: https://orcid.org/0000-0002-2965-3617)
- Elena Balanovska (ORCID: https://orcid.org/0000-0002-3882-8300)
- Polina L. Perelman (ORCID: https://orcid.org/0000-0002-0982-5100)
- Tatiana Bulyonkova (ORCID: https://orcid.org/0000-0002-5215-2001)
- David Weisz (ORCID: https://orcid.org/0000-0001-5868-6672)
- Marcus Thomas P. Gilbert (ORCID: https://orcid.org/0000-0002-5805-7195)
- Nikolay Cherkasov (ORCID: https://orcid.org/0000-0001-7353-3615)
- Svetlana A. Romanenko (ORCID: https://orcid.org/0000-0002-0951-5209)
- Alexei V. Abramov (ORCID: https://orcid.org/0000-0001-9709-4469)
- Ruqayya Khan (ORCID: https://orcid.org/0000-0001-7549-8761)
- Anastasia A. Proskuryakova (ORCID: https://orcid.org/0000-0003-3812-4853)
- Azamat Totikov (ORCID: https://orcid.org/0000-0003-1236-631X)
- Alexander S. Graphodatsky (ORCID: https://orcid.org/0000-0002-8282-1085)
- Jinhuan Wang
- Wenhui Nie
- Roger A. Powell (ORCID: https://orcid.org/0000-0001-9419-4034)
Institutions
- Shandong University of Technology (CN)
- University of Copenhagen (DK)
- North Carolina State University (US)
- George Mason University (US)
- Baylor College of Medicine (US)
- Kunming Institute of Zoology (CN)
- Novosibirsk State University (RU)
- Chinese Academy of Sciences (CN)
- Peter the Great St. Petersburg Polytechnic University (RU)
- University of Cambridge (GB)
- Zoological Institute (RU)
- Yugra State University (RU)
- Bridge University (SS)
- Institute of Molecular and Cell Biology (RU)
- Research Centre for Medical Genetics (RU)
- Siberian Branch of the Russian Academy of Sciences (RU)
- Vitensenteret i Trondheim (NO)
- Center for Theoretical Biological Physics (US)
- Genomics (United Kingdom) (GB)
- Baylor Genetics (US)
- Rice University (US)
Publication Details
- Journal
- Journal of Heredity
- Published
- 2025-01-29
- DOI
- https://doi.org/10.1093/jhered/esaf001
- Citations
- 5
- Primary Topic
- Chromosomal and Genetic Variations
- Type
- article
- Field-Weighted Citation Impact
- 8.75