20032020

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2020

Mixed ancestry from wild and domestic lineages contributes to the rapid expansion of invasive feral swine

Smyser, T. J., Tabak, M. A., Slootmaker, C., Robeson, M. S., Miller, R. S., Bosse, M., Megens, H. J., Groenen, M. A. M., Paiva, S. R., de Faria, D. A., Blackburn, H. D., Schmit, B. S. & Piaggio, A. J., 26 Feb 2020, In : Molecular Ecology. 29, 6

Research output: Contribution to journalArticleAcademicpeer-review

PCADD: SNV prioritisation in Sus scrofa

Groß, C., Derks, M., Megens, H. J., Bosse, M., Groenen, M. A. M., Reinders, M. & De Ridder, D., 7 Feb 2020, In : Genetics Selection Evolution. 52, 1, 4.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access

The genomes of the livebearing fish species Poeciliopsis retropinna and Poeciliopsis turrubarensis reflect their different reproductive strategies

van Kruistum, H., Guernsey, M. W., Baker, J. C., Kloet, S. L., Groenen, M. A. M., Pollux, B. J. A. & Megens, H. J. W. C., May 2020, In : Molecular Biology and Evolution. 37, 5, p. 1376-1386 15 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Open Access
2019

Ancient pigs reveal a near-complete genomic turnover following their introduction to Europe

Frantz, L. A. F., Haile, J., Lin, A. T., Scheu, A., Geörg, C., Benecke, N., Alexander, M., Linderholm, A., Mullin, V. E., Daly, K. G., Battista, V. M., Price, M., Gron, K. J., Alexandri, P., Arbogast, R. M., Arbuckle, B., Bǎlǎşescu, A., Barnett, R., Bartosiewicz, L., Baryshnikov, G. & 80 others, Bonsall, C., Borić, D., Boroneanţ, A., Bulatović, J., Çakirlar, C., Carretero, J. M., Chapman, J., Church, M., Crooijmans, R., De Cupere, B., Detry, C., Dimitrijevic, V., Dumitraşcu, V., Du Plessis, L., Edwards, C. J., Erek, C. M., Erim-Özdoǧan, A., Ervynck, A., Fulgione, D., Gligor, M., Götherström, A., Gourichon, L., Groenen, M. A. M., Helmer, D., Hongo, H., Horwitz, L. K., Irving-Pease, E. K., Lebrasseur, O., Lesur, J., Malone, C., Manaseryan, N., Marciniak, A., Martlew, H., Mashkour, M., Matthews, R., Matuzeviciute, G. M., Maziar, S., Meijaard, E., McGovern, T., Megens, H. J., Miller, R., Mohaseb, A. F., Orschiedt, J., Orton, D., Papathanasiou, A., Pearson, M. P., Pinhasi, R., Radmanović, D., Ricaut, F. X., Richards, M., Sabin, R., Sarti, L., Schier, W., Sheikhi, S., Stephan, E., Stewart, J. R., Stoddart, S., Tagliacozzo, A., Tasić, N., Trantalidou, K., Tresset, A., Valdiosera, C., Van Den Hurk, Y., Van Poucke, S., Vigne, J. D., Yanevich, A., Zeeb-Lanz, A., Triantafyllidis, A., Gilbert, M. T. P., Schibler, J., Rowley-Conwy, P., Zeder, M., Peters, J., Cucchi, T., Bradley, D. G., Dobney, K., Burger, J., Evin, A., Girdland-Flink, L. & Larson, G., 27 Aug 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 35, p. 17231-17238 8 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
8 Citations (Scopus)

Deleterious alleles in the context of domestication, inbreeding, and selection

Bosse, M., Megens, H-J., Derks, M. F. L., de Cara, Á. M. R. & Groenen, M. A. M., 2019, In : Evolutionary Applications. 12, 1, p. 6-17

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
10 Citations (Scopus)

Detection of a Frameshift Deletion in the SPTBN4 Gene Leads to Prevention of Severe Myopathy and Postnatal Mortality in Pigs

Derks, M. F. L., Harlizius, B., Lopez, M. S., Greijdanus-van der Putten, S., Dibbits, B. W., Laport, K., Megens, H. J. W. C. & Groenen, M., 26 Nov 2019, In : Frontiers in Genetics Livestock Genomics. 10, 9 p., 1226.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access

Genomic analysis on pygmy hog reveals extensive interbreeding during wild boar expansion

Liu, L., Bosse, M., Megens, H-J., Frantz, L. A. F., Lee, Y. L., Irving-Pease, E. K., Narayan, G., Groenen, M. A. M. & Madsen, O., 1 Dec 2019, In : Nature Communications. 10, 1992.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
3 Citations (Scopus)

Impact of merging commercial breeding lines on the genetic diversity of Landrace pigs

Hulsegge, I., Calus, M., Hoving-Bolink, R., Lopes, M., Megens, H. J. & Oldenbroek, K., 29 Oct 2019, In : Genetics Selection Evolution. 51, 1, 60.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access

Loss of function mutations in essential genes cause embryonic lethality in pigs

Derks, M. F. L., Gjuvsland, A. B., Bosse, M., Lopes, M. S., van Son, M., Harlizius, B., Tan, B. F., Hamland, H., Grindflek, E., Groenen, M. A. M. & Megens, H. J., 1 Mar 2019, In : Plos Genetics. 15, 3, p. e1008055

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
7 Citations (Scopus)
Open Access
2018
Open Access
2 Citations (Scopus)

A survey of functional genomic variation in domesticated chickens

Derks, M. F. L., Megens, H. J., Bosse, M., Visscher, J., Peeters, K., Bink, M. C. A. M., Vereijken, A., Gross, C., De Ridder, D., Reinders, M. J. T. & Groenen, M. A. M., 16 Apr 2018, In : Genetics Selection Evolution. 50, 1, 17.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
6 Citations (Scopus)

Balancing selection on a recessive lethal deletion with pleiotropic effects on two neighboring genes in the porcine genome

Derks, M. F. L., Lopes, M. S., Bosse, M., Madsen, O., Dibbits, B., Harlizius, B., Groenen, M. A. M. & Megens, H. J., 19 Sep 2018, In : Plos Genetics. 14, 9, 20 p., e1007661.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
3 Citations (Scopus)

Diversiteit en krielonderzoek: bij de traditionele Nederlandse hoenderrassen

Bortoluzzi, C., Megens, H. J. W. C., Crooijmans, R. P. M. A., de Boer, H., Taks, A., Kroon, P. & Hoving, A. H., Jun 2018, In : Kleindier magazine. 132, 6, p. 11-13

Research output: Contribution to journalArticleProfessional

Open Access

Diversiteit en krielonderzoek bij de traditionele Nederlandse hoenderrassen

Bortoluzzi, C., Megens, H. J. W. C., Crooijmans, R. P. M. A., de Boer, H., Taks, A., Kroon, P. & Hoving, A. H., 2018, In : Zeldzaam huisdier. 43, 3, p. 20-21

Research output: Contribution to journalArticleProfessional

Early and late feathering in Turkey and chicken: Same gene but different mutations

Derks, M. F. L., Herrero-Medrano, J. M., Crooijmans, R. P. M. A., Vereijken, A., Long, J. A., Megens, H. J. & Groenen, M. A. M., 22 Mar 2018, In : Genetics Selection Evolution. 50, 1, 7.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
5 Citations (Scopus)

Hotspots of recent hybridization between pigs and wild boars in Europe

Iacolina, L., Pertoldi, C., Amills, M., Kusza, S., Megens, H. J., Bâlteanu, V. A., Bakan, J., Cubric-Curik, V., Oja, R., Saarma, U., Scandura, M., Šprem, N. & Stronen, A. V., 1 Dec 2018, In : Scientific Reports. 8, 1, 17372.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
5 Citations (Scopus)
7 Citations (Scopus)
Open Access
8 Citations (Scopus)
2017

A history of hybrids? Genomic patterns of introgression in the True Geese

Ottenburghs, J., Megens, H. J., Kraus, R. H. S., van Hooft, P., van Wieren, S. E., Crooijmans, R. P. M. A., Ydenberg, R. C., Groenen, M. A. M. & Prins, H. H. T., 2017, In : BMC Evolutionary Biology. 17, 1, 201.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
9 Citations (Scopus)

A systematic survey to identify lethal recessive variation in highly managed pig populations

Derks, M. F. L., Megens, H. J., Bosse, M., Lopes, M. S., Harlizius, B. & Groenen, M. A. M., 9 Nov 2017, In : BMC Genomics. 18, 1, 858.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
12 Citations (Scopus)

Distribution and functionality of copy number variation across European cattle populations

Upadhyay, M., Da Silva, V. H., Megens, H. J., Visker, M. H. P. W., Ajmone-Marsan, P., Bâlteanu, V. A., Dunner, S., Garcia, J. F., Ginja, C., Kantanen, J., Groenen, M. A. M. & Crooijmans, R. P. M. A., 2017, In : Frontiers in Genetics. 8, 12 p., 108.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
14 Citations (Scopus)

Fine-mapping of BTA17 using imputed sequences for associations with de novo synthesized fatty acids in bovine milk

Duchemin, S. I., Bovenhuis, H., Megens, H. J., Van Arendonk, J. A. M. & Visker, M. H. P. W., Nov 2017, In : Journal of Dairy Science. 100, 11, p. 9125-9135

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

Genetic origin, admixture and population history of aurochs (Bos primigenius) and primitive European cattle

Upadhyay, M. R., Chen, W., Lenstra, J. A., Goderie, C. R. J., MacHugh, D. E., Park, S. D. E., Magee, D. A., Matassino, D., Ciani, F., Megens, H. J., van Arendonk, J. A. M. & Groenen, M. A. M., 2017, In : Heredity. 118, p. 169-176

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
33 Citations (Scopus)

Genome-wide SNP data unveils the globalization of domesticated pigs

Yang, B., Cui, L., Pérez-Enciso, M., Traspov, A., Crooijmans, R. P. M. A., Zinovieva, N., Schook, L. B., Archibald, A., Gatphayak, K., Knorr, C., Triantafyllidis, A., Alexandri, P., Semiadi, G., Hanotte, O., Dias, D., Dovč, P., Uimari, P., Iacolina, L., Scandura, M., Groenen, M. A. M. & 2 others, Huang, L. & Megens, H. J., 2017, In : Genetics, Selection, Evolution. 49, 15 p., 71.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
35 Citations (Scopus)
2016

Accuracy of genomic prediction using imputed whole-genome sequence data in white layers

Heidaritabar, M., Calus, M. P. L., Megens, H. J., Vereijken, A., Groenen, M. A. M. & Bastiaansen, J. W. M., 2016, In : Journal of Animal Breeding and Genetics. p. 167-179 3.

Research output: Contribution to journalArticleAcademicpeer-review

21 Citations (Scopus)
13 Citations (Scopus)

Distinguishing migration events of different timing for wild boar in the Balkans

Alexandri, P., Megens, H. J. W. C., Crooijmans, R. P. M. A., Groenen, M., Goedbloed, D. J., Herrero Medrano, J. M., Rund, L. A., Schook, L. B., Chatzinikos, E., Triantaphyllidis, C. & Triantafyllidis, A., 1 Oct 2016, In : Journal of Biogeography. 44, 2, p. 259-270

Research output: Contribution to journalArticleAcademicpeer-review

3 Citations (Scopus)

Evidence for adaptation of porcine Toll-like receptors

Darfour-Oduro, K. A., Megens, H. J., Roca, A., Groenen, M. A. M. & Schook, L. B., 2016, In : Immunogenetics. 68, 3, p. 179-189

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
2 Citations (Scopus)

Evolutionary patterns of Toll-like receptor signaling pathway genes in the Suidae

Darfour-Oduro, K. A., Megens, H. J., Roca, A. L., Groenen, M. A. M. & Schook, L. B., 2016, In : BMC Evolutionary Biology. 16, 1, 11 p., 602.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
3 Citations (Scopus)

Evolutionary signals of selection on cognition from the great tit genome and methylome

Laine, V. N., Gossmann, T. I., Schachtschneider, K. M., Garroway, C. J., Madsen, O., Verhoeven, K. J. F., De Jager, V., Megens, H. J., Warren, W. C., Minx, P., Crooijmans, R. P. M. A., Corcoran, P., Adriaensen, F., Belda, E., Bushuev, A., Cichon, M., Charmantier, A., Dingemanse, N., Doligez, B., Eeva, T. & 26 others, Erikstad, K. E., Fedorov, S., Hau, M., Hille, S., Hinde, C., Kempenaers, B., Kerimov, A., Krist, M., Mand, R., Matthysen, E., Nager, R., Norte, C., Orell, M., Richner, H., Slagsvold, T., Tilgar, V., Tinbergen, J., Torok, J., Tschirren, B., Yuta, T., Sheldon, B. C., Slate, J., Zeng, K., van Oers, K., Visser, M. E. & Groenen, M. A. M., 2016, In : Nature Communications. 7, 10474.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
65 Citations (Scopus)

Extra genetische variatie door krielvarianten van kippenrassen

Klein Swormink, B., Hoving, A. H., Bortoluzzi, C., Megens, H. J. W. C., Crooijmans, R. P. M. A. & Hiemstra, S. J., 1 Jun 2016, In : Boerenvee. p. 4-4

Research output: Contribution to journalArticleProfessional

Genomic diversity and differentiation of a managed island wild boar population

Iacolina, L., Scandura, M., Goedbloed, D. J., Alexandri, P., Crooijmans, R. P. M. A., Larson, G., Archibald, A., Apollonio, M., Schook, L. B., Groenen, M. A. M. & Megens, H. J., 1 Jan 2016, In : Heredity. 116, 1, p. 60-67

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
21 Citations (Scopus)

The Use of Genomics in Conservation Management of the Endangered Visayan Warty Pig (Sus cebifrons)

Nuijten, R. J. M., Bosse, M., Crooijmans, R. P. M. A., Madsen, O., Schaftenaar, W., Ryder, O. A., Groenen, M. A. M. & Megens, H. J., 2016, In : International journal of genomcs. 2016, 5613862.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
7 Citations (Scopus)
2015

Adaptive evolution of Toll-like receptors (TLRs) in the family Suidae

Darfour-Oduro, K. A., Megens, H. J. W. C., Roca, A. L., Groenen, M. A. M. & Schook, L. B., 2015, In : PLoS ONE. 10, 4, e0124069.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
11 Citations (Scopus)

Artificial selection on introduced Asian haplotypes shaped the genetic architecture in european commercial pigs

Bosse, M., Soares Lopes, M., Madsen, O., Megens, H. J., Crooijmans, R. P. M. A., Frantz, L. A. F., Harlizius, B., Bastiaansen, J. W. M. & Groenen, M. A. M., 2015, In : Proceedings of the Royal Society. B: Biological Sciences. 282, 1821, 9 p., 20152019.

Research output: Contribution to journalArticleAcademicpeer-review

13 Citations (Scopus)

Copy number variation in the speciation of pigs: a possible prominent role for olfactory receptors

Paudel, Y., Madsen, O., Megens, H. J. W. C., Frantz, L. A. F., Bosse, M., Crooijmans, R. P. M. A. & Groenen, M. A. M., 2015, In : BMC Genomics. 16, 14 p., 330.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
29 Citations (Scopus)

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes

Frantz, L. A. F., Schraiber, J. G., Madsen, O., Megens, H. J. W. C., Cagan, A., Bosse, M., Paudel, Y., Crooijmans, R. P. M. A., Larson, G. & Groenen, M. A. M., 2015, In : Nature Genetics. 47, 10, p. 1141-1148

Research output: Contribution to journalArticleAcademicpeer-review

97 Citations (Scopus)

Genetic diversity of different indigenous chicken ecotypes using highly polymorphic MHC-linked and non-MHC microsatellite markers

Ngeno, K., van der Waaij, E. H., Megens, H. J. W. C., Kahi, A. K., van Arendonk, J. A. M. & Crooijmans, R. P. M. A., 2015, In : Animal Genetic Resources. 56, p. 1-7

Research output: Contribution to journalArticleAcademicpeer-review

Hybrid origin of European commercial pigs examined by an in-depth haplotype analysis on chromosome 1

Bosse, M., Madsen, O., Megens, H. J. W. C., Frantz, L. A. F., Paudel, Y., Crooijmans, R. P. M. A. & Groenen, M., 2015, In : Frontiers in Genetics. 5, 442.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
11 Citations (Scopus)

Increased Mycoplasma hyopneumoniae Disease Prevalence in Domestic Hybrids Among Free-Living Wild Boar

Goedbloed, D. J., van Hooft, W. F., Lutz, W., Megens, H. J. W. C., van Wieren, S. E., Ydenberg, R. C. & Prins, H. H. T., 2015, In : EcoHealth. 12, 4, p. 571-579

Research output: Contribution to journalArticleAcademicpeer-review

8 Citations (Scopus)

Prospects and challenges for the conservation of farm animal genomic resources, 2015-2025

Bruford, M. W., Ginja, C., Hoffmann, I. & Megens, H. J., 2015, In : Frontiers in Genetics. 6, OCT, 314.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
34 Citations (Scopus)

Shallow genetic divergence and species delineations in the endemic Labeobarbus species flock of Lake Tana, Ethiopia

Nagelkerke, L. A. J., Leon-Kloosterziel, K. M., Megens, H. J. W. C., de Graaf, M., Diekmann, O. E. & Sibbing, F. A., 2015, In : Journal of Fish Biology. 87, 5, p. 1191-1208

Research output: Contribution to journalArticleAcademicpeer-review

10 Citations (Scopus)
Open Access
37 Citations (Scopus)

TRES: Identification of Discriminatory and Informative SNPs from Population Genomic Data

Kavakiotis, I., Triantafyllidis, A., Ntelidou, D., Alexandri, P., Megens, H. J. W. C., Crooijmans, R. P. M. A., Groenen, M. A. M., Tsoumakas, G. & Vlahavas, I., 2015, In : Journal of Heredity. 106, 5, p. 672-676

Research output: Contribution to journalArticleAcademicpeer-review

13 Citations (Scopus)

Using genome-wide measures of coancestry to maintain diversity and fitness in endangered and domestic pig populations

Bosse, M., Megens, H. J. W. C., Madsen, O., Crooijmans, R. P. M. A., Ryder, O. A., Austerlitz, F., Groenen, M. A. M. & de Cara, M. A. R., 2015, In : Genome Research. 25, 7, p. 970-981

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
36 Citations (Scopus)
2014
Open Access
1 Citation (Scopus)

Genomic analysis reveals selection for Asian genes in European pigs following human-mediated introgression

Bosse, M., Megens, H. J. W. C., Frantz, L. A. F., Madsen, O., Paudel, Y., Duijvestein, N., Crooijmans, R. P. M. A. & Groenen, M., 2014, In : Nature Communications. 5, 8 p., 4392.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
61 Citations (Scopus)

Host genetic heterozygosity and age are important determinants of porcine circovirus type 2 disease prevalence in European wild boar

Goedbloed, D. J., van Hooft, W. F., Megens, H. J. W. C., Bosch, T., Lutz, W., van Wieren, S. E., Ydenberg, R. C. & Prins, H. H. T., 2014, In : European Journal of Wildlife Research. 60, 5, p. 803-810

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)