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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
...selection in European populations. Am J Hum Genet 92: 696–706. doi:10.1016/j.ajhg.2013.03.019 ↵Barthe M, Doutrelant C, Covas R, Melo M, Illera JC, Tilak M-K, Colombier C, Leroy T, Loiseau C, Nabholz B. 2022. Evolution of immune genes in island birds: reduction in population sizes can explain island syndrome...
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Research: Divergence patterns of genic copy number variation in natural populations of the house mouse (Mus musculus domesticus) reveal three conserved genes with major population-specific expansions
- Željka Pezer,
- Bettina Harr,
- Meike Teschke,
- Hiba Babiker,
- and Diethard Tautz
Genome Res. August 2015 25: 1114-1124; Published in Advance July 6, 2015, doi:10.1101/gr.187187.114
...that were caught at the same farm to ensure that the analyzed offspring represent the natural genetic variation of wild caught animals. Three individuals were sampled on Heligoland Island (Germany, North Sea) and were not bred further. DNA was extracted from the tails (mainland mice) and livers (Heligoland...
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Resource: Genome variation and population structure among 1142 mosquitoes of the African malaria vector species Anopheles gambiae and Anopheles coluzzii
- The Anopheles gambiae 1000 Genomes Consortium
Genome Res. October 2020 30: 1533-1546; Published in Advance September 28, 2020, doi:10.1101/gr.262790.120
...sampling of natural populations across the species ancestral range in sub-Saharan Africa, as well as naturalized populations in Europe and North America (Lack et al. 2016). Although Anopheles and Drosophila are both dipteran insects, there are fundamental differences in their biology and life histories...
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Resource: A chromosome-level assembly of the Atlantic herring genome—detection of a supergene and other signals of selection
- Mats E. Pettersson,
- Christina M. Rochus,
- Fan Han,
- Junfeng Chen,
- Jason Hill,
- Ola Wallerman,
- Guangyi Fan,
- Xiaoning Hong,
- Qiwu Xu,
- He Zhang,
- Shanshan Liu,
- Xin Liu,
- Leanne Haggerty,
- Toby Hunt,
- Fergal J. Martin,
- Paul Flicek,
- Ignas Bunikis,
- Arild Folkvord,
- and Leif Andersson
Genome Res. November 2019 29: 1919-1928; Published in Advance October 24, 2019, doi:10.1101/gr.253435.119
...representing autumn-spawning North Sea herring (NS in Fig. 6B). This strong genetic differentiation is never observed at selectively neutral loci among the populations included in this analysis (Martinez Barrio et al. 2016; Lamichhaney et al. 2017). Thus, this supergene polymorphism must be under selection...
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Research: Adaptive selection of an incretin gene in Eurasian populations
- Chia Lin Chang,
- James J. Cai,
- Chiening Lo,
- Jorge Amigo,
- Jae-Il Park,
- and Sheau Yu Teddy Hsu
Genome Res. January 2011 21: 21-32; Published in Advance October 26, 2010, doi:10.1101/gr.110593.110
...; Li et al. 2008). We computed the FST for the coding SNPs of GPCR and ligand genes and compared the result with those for coding SNPs of all other human genes. FST was computed between all possible pairs of HapMap II populations (YRI [African, Yoruba from Ibadan], CEU [European, United States...
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Research: Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches
- Fan Han,
- Sangeet Lamichhaney,
- B. Rosemary Grant,
- Peter R. Grant,
- Leif Andersson,
- and Matthew T. Webster
Genome Res. June 2017 27: 1004-1015; Published in Advance April 25, 2017, doi:10.1101/gr.212522.116
...in comparisons between the Cocos finch and species from the Galápagos Islands. Cocos Island lies∼ 780 km north of Galápagos, and the Cocos finch (P. inornata) is the only species of Darwin’s finches there. It is highly unlikely that recent gene flow involving this species has occurred. It therefore appears...
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Resource: The 100-genomes strains, an S. cerevisiae resource that illuminates its natural phenotypic and genotypic variation and emergence as an opportunistic pathogen
- Pooja K. Strope,
- Daniel A. Skelly,
- Stanislav G. Kozmin,
- Gayathri Mahadevan,
- Eric A. Stone,
- Paul M. Magwene,
- Fred S. Dietrich,
- and John H. McCusker
Genome Res. May 2015 25: 762-774; Published in Advance April 3, 2015, doi:10.1101/gr.185538.114
...five populations. Strain names in black and red indicate nonclinical and clinical environmental origin strains, respectively. North American Sake Malaysian West African Wine/European Mosaic West African Malaysian North American Sake Red: Clinical strains Black: Non-clinical strains YJM1244 YJM189 YJM...
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LETTER: Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations
- Penelope R. Haddrill,
- Kevin R. Thornton,
- Brian Charlesworth,
- and Peter Andolfatto
Genome Res. June 2005 15: 790-799; doi:10.1101/gr.3541005
...model ( Table 5 ). Our results imply that highly reduced variation observed at some loci in -wide scans (i.e., Harr et al. 2002 ; Glinka et al. 2003 ; Kauer et al. 2003 ) might be more easily explained by a bottleneck in the history of European populations than by recurrent selective sweeps. What about...
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Resource: Singapore Genome Variation Project: A haplotype map of three Southeast Asian populations
- Yik-Ying Teo,
- Xueling Sim,
- Rick T.H. Ong,
- Adrian K.S. Tan,
- Jieming Chen,
- Erwin Tantoso,
- Kerrin S. Small,
- Chee-Seng Ku,
- Edmund J.D. Lee,
- Mark Seielstad,
- and Kee-Seng Chia
Genome Res. November 2009 19: 2154-2162; Published in Advance August 21, 2009, doi:10.1101/gr.095000.109
...number of sub-ethnicities within the Han classification with a diverse range of dialects and cultural diversity, with established genetic heterogeneity following a geographical north–south cline (Chu et al. 1998; Wen et al. 2004). The majority of the early Chinese immigrants to 7These authors contributed...
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Research: Shifts in the intensity of purifying selection: An analysis of genome-wide polymorphism data from two closely related yeast species
- Eyal Elyashiv,
- Kevin Bullaughey,
- Shmuel Sattath,
- Yosef Rinott,
- Molly Przeworski,
- and Guy Sella
Genome Res. November 2010 20: 1558-1573; Published in Advance September 4, 2010, doi:10.1101/gr.108993.110
...intensity of purifying selection Genome-wide measures S. cerevisiae S. paradoxus All populations European Malaysian Sake All populations European Far Eastern North American f̂p 0.18 0.37 0.37 0.27 0.14 0.24 0.25 0.16 (3 3 10#2;3) (2 3 10#2;2) (5 3 10#2;2) (1 3 10#2;2) (2 3 10#2;3) (6 3 10#2;3) (1 3 10...

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