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Resource: Haplotype-resolved genome and population genomics of the threatened garden dormouse in Europe
- Paige A. Byerly,
- Alina von Thaden,
- Evgeny Leushkin,
- Leon Hilgers,
- Shenglin Liu,
- Sven Winter,
- Tilman Schell,
- Charlotte Gerheim,
- Alexander Ben Hamadou,
- Carola Greve,
- Christian Betz,
- Hanno J. Bolz,
- Sven Büchner,
- Johannes Lang,
- Holger Meinig,
- Evax Marie Famira-Parcsetich,
- Sarah P. Stubbe,
- Alice Mouton,
- Sandro Bertolino,
- Goedele Verbeylen,
- Thomas Briner,
- Lídia Freixas,
- Lorenzo Vinciguerra,
- Sarah A. Mueller,
- Carsten Nowak,
- and Michael Hiller
Genome Res. November 2024 34: 2094-2107; Published in Advance November 14, 2024, doi:10.1101/gr.279066.124
...and extend prior genetic research, which also identified four garden dormouse lineages within a similar sampling area based on mitochondrial DNA haplotypes and chromosome number differences (Perez et al. 2013; Forcina et al. 2022). As in Perez et al. (2013), we found the Alpine region south of the main...
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Research: Extensive sampling of Saccharomyces cerevisiae in Taiwan reveals ecology and evolution of predomesticated lineages
- Tracy Jiaye Lee,
- Yu-Ching Liu,
- Wei-An Liu,
- Yu-Fei Lin,
- Hsin-Han Lee,
- Huei-Mien Ke,
- Jen-Pan Huang,
- Mei-Yeh Jade Lu,
- Chia-Lun Hsieh,
- Kuo-Fang Chung,
- Gianni Liti,
- and Isheng Jason Tsai
Genome Res. May 2022 32: 864-877; Published in Advance March 31, 2022, doi:10.1101/gr.276286.121
...the Taiwanese lineages. Consistent with observations from NITG, most of these genes were lineage specific, with only AIM21, involved in mitochondrial inheritance, detected in four out of five lineages (Supplemental Fig. S21; Supplemental Table S18), suggesting that selection acted independently...
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Research: Reconstructing ancient mitochondrial DNA links between Africa and Europe
- María Cerezo,
- Alessandro Achilli,
- Anna Olivieri,
- Ugo A. Perego,
- Alberto Gómez-Carballa,
- Francesca Brisighelli,
- Hovirag Lancioni,
- Scott R. Woodward,
- Manuel López-Soto,
- Ángel Carracedo,
- Cristian Capelli,
- Antonio Torroni,
- and Antonio Salas
Genome Res. May 2012 22: 821-826; Published in Advance March 27, 2012, doi:10.1101/gr.134452.111
..., Spain ↵ 7 These authors contributed equally to this work. Abstract Mitochondrial DNA (mtDNA) lineages of macro-haplogroup L (excluding the derived L3 branches M and N) represent the majority of the typical sub-Saharan mtDNA variability. In Europe, these mtDNAs account...
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Research: Rapid coastal spread of First Americans: Novel insights from South America's Southern Cone mitochondrial genomes
- Martin Bodner,
- Ugo A. Perego,
- Gabriela Huber,
- Liane Fendt,
- Alexander W. Röck,
- Bettina Zimmermann,
- Anna Olivieri,
- Alberto Gómez-Carballa,
- Hovirag Lancioni,
- Norman Angerhofer,
- Maria Cecilia Bobillo,
- Daniel Corach,
- Scott R. Woodward,
- Antonio Salas,
- Alessandro Achilli,
- Antonio Torroni,
- Hans-Jürgen Bandelt,
- and Walther Parson
Genome Res. May 2012 22: 811-820; Published in Advance February 14, 2012, doi:10.1101/gr.131722.111
...in the range of 16.9 ± 1.6 ky (ML: 16.5 ± 2.0, ρ: 17.8 ± 2.5) (Table 1).DiscussionD1g and D1j: Southern Cone lineages present in the rapid pioneer settlementThe two novel mitochondrial lineages D1g and D1j appear almost exclusively distributed in the South American Southern Cone. Together with their ample...
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Research: Ancient dog introgression into the Iberian wolf genome may have facilitated adaptation to human-dominated landscapes
- Diana Lobo,
- Hernán E. Morales,
- Cock Van Oosterhout,
- José Vicente López-Bao,
- Pedro Silva,
- Luis Llaneza,
- Carolina Pacheco,
- Diana Castro,
- Germán Hernández-Alonso,
- George Pacheco,
- John Archer,
- M. Thomas P. Gilbert,
- Nuno Ferrand,
- and Raquel Godinho
Genome Res. March 2025 35: 432-445; Published in Advance February 14, 2025, doi:10.1101/gr.279093.124
...Peninsula (Portugal and Spain), has uniquely persisted in human-dominated landscapes, unlike many other wolf populations that faced widespread extinction across Europe during the twentieth century. In this study, we conducted a comprehensive -wide analysis of 145 historical and contemporary Iberian wolf...
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Research: The initial peopling of the Americas: A growing number of founding mitochondrial genomes from Beringia
- Ugo A. Perego,
- Norman Angerhofer,
- Maria Pala,
- Anna Olivieri,
- Hovirag Lancioni,
- Baharak Hooshiar Kashani,
- Valeria Carossa,
- Jayne E. Ekins,
- Alberto Gómez-Carballa,
- Gabriela Huber,
- Bettina Zimmermann,
- Daniel Corach,
- Nora Babudri,
- Fausto Panara,
- Natalie M. Myres,
- Walther Parson,
- Ornella Semino,
- Antonio Salas,
- Scott R. Woodward,
- Alessandro Achilli,
- and Antonio Torroni
Genome Res. September 2010 20: 1174-1179; Published in Advance June 29, 2010, doi:10.1101/gr.109231.110
...lineages of Native Americans are at least 15, indicating that the overall number of Beringian or Asian founder mitochondrial genomes will probably increase extensively when all Native American haplogroups reach the same level of phylogenetic and genomic resolution as obtained here for C1d. Footnotes...
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Research: Brown rat demography reveals pre-commensal structure in eastern Asia before expansion into Southeast Asia
- Emily E. Puckett and
- Jason Munshi-South
Genome Res. May 2019 29: 762-770; Published in Advance March 25, 2019, doi:10.1101/gr.235754.118
...the ancestral population that produced the Pacific (diverged ∼16.1 kya), eastern China (∼17.5 kya), and Southeast (SE) Asia (∼0.86 kya) lineages. Our model shows a rapid range expansion from SE Asia into the Middle East and then continued expansion into central Europe 788 yr ago (1227 AD). We observed declining...
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Research: Genome-wide relaxation of selection and the evolution of the island syndrome in Orkney voles
- Xuejing Wang and
- Gerald Heckel
Genome Res. June 2024 34: 851-862; Published in Advance July 2, 2024, doi:10.1101/gr.278487.123
...) were introduced to the Orkney archipelago in the north of Scotland by Neolithic farmers >5000 years ago, likely as a food resource (Haynes et al. 2003; Martínková et al. 2013; Romaniuk et al. 2016). Common voles are very widespread in continental Europe with multiple distinct evolutionary lineages...
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LETTER: Mitochondrial Genome Variation and Evolutionary History of Australian and New Guinean Aborigines
- Max Ingman and
- Ulf Gyllensten
Genome Res. July 2003 13: 1600-1606; doi:10.1101/gr.686603
..., Sweden Abstract To study the evolutionary history of the Australian and New Guinean indigenous peoples, we analyzed 101 complete mitochondrial genomes including populations from Australia and New Guinea as well as from Africa, India, Europe, Asia, Melanesia, and Polynesia. The genetic...
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Research: Reconstructing genetic history of Siberian and Northeastern European populations
- Emily H.M. Wong,
- Andrey Khrunin,
- Larissa Nichols,
- Dmitry Pushkarev,
- Denis Khokhrin,
- Dmitry Verbenko,
- Oleg Evgrafov,
- James Knowles,
- John Novembre,
- Svetlana Limborska,
- and Anton Valouev
Genome Res. January 2017 27: 1-14; Published in Advance December 13, 2016, doi:10.1101/gr.202945.115
...Hungarians in central Europe, are members of the Ugric language group. The language of Northwestern Siberian Nenets people belongs to the Samoyedic branch of Uralic languages, suggesting shared history between Nenets people and other Western Siberian populations. Despite the geographical separation, several...

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