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Animal population genetics

Section edited by Anna Malacrida, Li Ma and Pim van Hooft

This section incorporates all aspects of the genetics of animal populations including but not limited to: analysis of evolutionary, ecological and conservation genetics of animal populations.

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  1. Content type: Research article

    Previous studies on linkage disequilibrium have investigated second order linkage disequilibrium in animal and plant populations. The objective of this paper was to investigate the genome-wide levels of third ...

    Authors: Luis Gomez-Raya, Luis Silio, Wendy M. Rauw, Luis Alberto Gracia-Cortés and Carmen Rodríguez

    Citation: BMC Genetics 2018 19:60

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  2. Content type: Research article

    Atlantic cod (Gadus morhua L.) has formed the basis of many economically significant fisheries in the North Atlantic, and is one of the best studied marine fishes, but a legacy of overexploitation has depleted po...

    Authors: Geir Dahle, María Quintela, Torild Johansen, Jon-Ivar Westgaard, François Besnier, Asgeir Aglen, Knut E. Jørstad and Kevin A. Glover

    Citation: BMC Genetics 2018 19:42

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  3. Content type: Research article

    Identification of genetic mechanisms and idiosyncrasies at the breed-level can provide valuable information for potential use in evolutionary studies, medical applications, and breeding of selective traits. He...

    Authors: Kelsey Caetano-Anolles, Kwondo Kim, Woori Kwak, Samsun Sung, Heebal Kim, Bong-Hwan Choi and Dajeong Lim

    Citation: BMC Genetics 2018 19:37

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  4. Content type: Research article

    Bovine leukocyte antigens (BoLAs) are used extensively as markers of disease and immunological traits in cattle. However, until now, characterization of BoLA gene polymorphisms in Zebu breeds using high resolu...

    Authors: Shin-nosuke Takeshima, Claudia Corbi-Botto, Guillermo Giovambattista and Yoko Aida

    Citation: BMC Genetics 2018 19:33

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  5. Content type: Research article

    Defining hidden genetic diversity within species is of great significance when attempting to maintain the evolutionary potential of natural populations and conduct appropriate management. Our hypothesis is tha...

    Authors: Samer Angelone, Michael J. Jowers, Anna Rita Molinar Min, Paulino Fandos, Paloma Prieto, Mario Pasquetti, Francisco Javier Cano-Manuel, Gregorio Mentaberre, Jorge Ramón López Olvera, Arián Ráez-Bravo, José Espinosa, Jesús M. Pérez, Ramón C. Soriguer, Luca Rossi and José Enrique Granados

    Citation: BMC Genetics 2018 19:28

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  6. Content type: Research article

    Female lions generally do not disperse far beyond their natal range, while males can disperse distances of over 200 km. However, in bush-like ecosystems dispersal distances less than 25 km are reported. Here, ...

    Authors: Pim van Hooft, Dewald F. Keet, Diana K. Brebner and Armanda D. S. Bastos

    Citation: BMC Genetics 2018 19:21

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  7. Content type: Methodology article

    Accurate imputation plays a major role in genomic studies of livestock industries, where the number of genotyped or sequenced animals is limited by costs. This study explored methods to create an ideal referen...

    Authors: Steven G. Larmer, Mehdi Sargolzaei, Luiz F. Brito, Ricardo V. Ventura and Flávio S. Schenkel

    Citation: BMC Genetics 2017 18:120

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  8. Content type: Research article

    Populations of the earthworm, Lumbricus rubellus, are commonly found across highly contaminated former mine sites and are considered to have under-gone selection for mitigating metal toxicity. Comparison of adapt...

    Authors: Craig Anderson, Luis Cunha, Pierfrancesco Sechi, Peter Kille and David Spurgeon

    Citation: BMC Genetics 2017 18:97

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  9. Content type: Research article

    Sudan is endowed with a variety of indigenous goat breeds which are used for meat and milk production and which are well adapted to the local environment. The aim of the present study was to determine the gene...

    Authors: Siham A. Rahmatalla, Danny Arends, Monika Reissmann, Ammar Said Ahmed, Klaus Wimmers, Henry Reyer and Gudrun A. Brockmann

    Citation: BMC Genetics 2017 18:92

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  10. Content type: Research article

    Previous studies in the Norwegian pig breeds Landrace and Duroc have revealed a QTL for levels of skatole located in the region 74.7–80.5 Mb on SSC7. Skatole is one of the main components causing boar taint, w...

    Authors: Maren van Son, Matthew P. Kent, Harald Grove, Rahul Agarwal, Hanne Hamland, Sigbjørn Lien and Eli Grindflek

    Citation: BMC Genetics 2017 18:85

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  11. Content type: Research article

    The allotetraploid hybrid fish (4nAT) that was created in a previous study through an intergeneric cross between red crucian carp (Carassius auratus red var., ♀) and common carp (Cyprinus carpio L., ♂) provided a...

    Authors: Lihai Ye, Chun Zhang, Xiaojun Tang, Yiyi Chen and Shaojun Liu

    Citation: BMC Genetics 2017 18:75

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  12. Content type: Research article

    Investments in genetic selection have played a major role in the New Zealand sheep industry competitiveness. Selection may erode genetic diversity, which is a crucial factor for the success of breeding program...

    Authors: Vincent Prieur, Shannon M. Clarke, Luiz F. Brito, John C. McEwan, Michael A. Lee, Rudiger Brauning, Ken G. Dodds and Benoît Auvray

    Citation: BMC Genetics 2017 18:68

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  13. Content type: Research article

    Copy number variations are genome polymorphism that influence phenotypic variation and are an important source of genetic variation in populations. The aim of this study was to investigate genetic variability ...

    Authors: E. Gorla, M. C. Cozzi, S. I. Román-Ponce, F. J. Ruiz López, V. E. Vega-Murillo, S. Cerolini, A. Bagnato and M. G. Strillacci

    Citation: BMC Genetics 2017 18:61

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  14. Content type: Research article

    Genome-wide investigation of molecular mechanisms for high-altitude adaptation has attracted great attention in the last few years. In order to understand the contribution of gene expression level variations t...

    Authors: Weizhao Yang, Yin Qi, Bin Lu, Liang Qiao, Yayong Wu and Jinzhong Fu

    Citation: BMC Genetics 2017 18:62

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  15. Content type: Research article

    Cattle are bred for, amongst other factors, specific traits, including parasite resistance and adaptation to climate. However, the influence and inheritance of mitochondrial DNA (mtDNA) are not usually conside...

    Authors: Kanokwan Srirattana, Kieren McCosker, Tim Schatz and Justin C. St. John

    Citation: BMC Genetics 2017 18:59

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  16. Content type: Research article

    Correlated genetic response in survival to selection for high growth has not been reported in giant freshwater prawn (GFP) (Macrobrachium rosenbergii). The main aim of this study was to measure genetic changes an...

    Authors: Nguyen Thanh Vu, Trinh Quoc Trong and Nguyen Hong Nguyen

    Citation: BMC Genetics 2017 18:56

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  17. Content type: Research article

    The South West Indian Ocean (SWIO) archipelagos and Madagascar constitute a hotspot of biodiversity with a high rate of endemism. In this area, the endemic subspecies A. m. unicolor has been described in Madagasc...

    Authors: Maéva Angélique Techer, Johanna Clémencet, Christophe Simiand, Sookar Preeaduth, Hamza Abdou Azali, Bernard Reynaud and Delatte Hélène

    Citation: BMC Genetics 2017 18:53

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  18. Content type: Research article

    Genotyping-by-sequencing (GBS) has emerged as a powerful and cost-effective approach for discovering and genotyping single-nucleotide polymorphisms. The GBS technique was largely used in crop species where its...

    Authors: Jean-Simon Brouard, Brian Boyle, Eveline M. Ibeagha-Awemu and Nathalie Bissonnette

    Citation: BMC Genetics 2017 18:32

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  19. Content type: Research article

    Knowledge about the genetic diversity of a population is a crucial parameter for the implementation of successful genomic selection and conservation of genetic resources. The aim of this research was to establ...

    Authors: Luiz F. Brito, John C. McEwan, Stephen P. Miller, Natalie K. Pickering, Wendy E. Bain, Ken G. Dodds, Flávio S. Schenkel and Shannon M. Clarke

    Citation: BMC Genetics 2017 18:25

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  20. Content type: Research article

    The Major Histocompatibility Complex (MHC) is a key component of the adaptive immune system of all vertebrates and consists of the most polymorphic genes known to date. Due to this complexity, however, MHC rem...

    Authors: Melinda J. Hofmann, Seraina E. Bracamonte, Christophe Eizaguirre and Marta Barluenga

    Citation: BMC Genetics 2017 18:15

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  21. Content type: Research article

    Africa is home to numerous cattle breeds whose diversity has been shaped by subtle combinations of human and natural selection. African Sanga cattle are an intermediate type of cattle resulting from interbreed...

    Authors: Mengistie Taye, Jaemin Kim, Sook Hee Yoon, Wonseok Lee, Olivier Hanotte, Tadelle Dessie, Stephen Kemp, Okeyo Ally Mwai, Kelsey Caetano-Anolles, Seoae Cho, Sung Jong Oh, Hak-Kyo Lee and Heebal Kim

    Citation: BMC Genetics 2017 18:11

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  22. Content type: Research article

    New Zealand has some unique Terminal Sire composite sheep breeds, which were developed in the last three decades to meet commercial needs. These composite breeds were developed based on crossing various Termin...

    Authors: Luiz F. Brito, Shannon M. Clarke, John C. McEwan, Stephen P. Miller, Natalie K. Pickering, Wendy E. Bain, Ken G. Dodds, Mehdi Sargolzaei and Flávio S. Schenkel

    Citation: BMC Genetics 2017 18:7

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  23. Content type: Research article

    Knowledge on the levels of linkage disequilibrium (LD) across the genome, persistence of gametic phase between breed pairs, genetic diversity and population structure are important parameters for the successfu...

    Authors: Daniela A. Grossi, Mohsen Jafarikia, Luiz F. Brito, Marcos E. Buzanskas, Mehdi Sargolzaei and Flávio S. Schenkel

    Citation: BMC Genetics 2017 18:6

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  24. Content type: Research article

    Genomic selection (GS) has played an important role in cattle breeding programs. However, genotyping prices are still a challenge for implementation of GS in beef cattle and there is still a lack of informatio...

    Authors: Mario L. Piccoli, Luiz F. Brito, José Braccini, Fernando F. Cardoso, Mehdi Sargolzaei and Flávio S. Schenkel

    Citation: BMC Genetics 2017 18:2

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  25. Content type: Research article

    Nucleolar dominance is an epigenetic phenomenon that occurs in interspecific hybrids and involves the expression of 45S rRNA genes inherited from one progenitor due to the silencing of the other progenitor’s r...

    Authors: Jun Xiao, Fangzhou Hu, Kaikun Luo, Wuhui Li and Shaojun Liu

    Citation: BMC Genetics 2016 17:150

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  26. Content type: Research article

    The widespread use of individual sires for artificial insemination promotes the propagation of recessive conditions. Inadvertent matings between unnoticed carriers of deleterious alleles may result in the mani...

    Authors: Hubert Pausch, Simon Ammermüller, Christine Wurmser, Henning Hamann, Jens Tetens, Cord Drögemüller and Ruedi Fries

    Citation: BMC Genetics 2016 17:149

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  27. Content type: Research article

    Colour polymorphisms are common among animal species. When combined with genetic and ecological data, these polymorphisms can be excellent systems in which to understand adaptation and the molecular changes un...

    Authors: Ana S. B. Rodrigues, Sara E. Silva, Francisco Pina-Martins, João Loureiro, Mariana Castro, Karim Gharbi, Kevin P. Johnson, Christopher H. Dietrich, Paulo A. V. Borges, José A. Quartau, Chris D. Jiggins, Octávio S. Paulo and Sofia G. Seabra

    Citation: BMC Genetics 2016 17:144

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  28. Content type: Research article

    The native cattle breeds are an important genetic resource for meat and milk production throughout Asia. In Asia cattle were domesticated around 10,000 years ago and in Korea cattle are being raised since 2000...

    Authors: Aditi Sharma, Seung-Hwan Lee, Dajeong Lim, Han-Ha Chai, Bong-Hwan Choi and Yongmin Cho

    Citation: BMC Genetics 2016 17:139

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    The Erratum to this article has been published in BMC Genetics 2017 18:12

  29. Content type: Research article

    A major function of the captive panda population is to preserve the genetic diversity of wild panda populations in their natural habitats. Understanding the genetic composition of the captive panda population ...

    Authors: Jiandong Yang, Fujun Shen, Rong Hou and Yang Da

    Citation: BMC Genetics 2016 17:133

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  30. Content type: Research article

    Tea green leafhopper is one of the most dominant pests in Chinese tea plantations. Recent evidence, including morphological and molecular data, revealed that tea green leafhopper in China is the same species a...

    Authors: Li Zhang, Christopher H. Dietrich and Daozheng Qin

    Citation: BMC Genetics 2016 17:112

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  31. Content type: Research article

    Two separate domestication events gave rise to humped zebu cattle in India and humpless taurine cattle in the Fertile Crescent of the Near and Middle East. Iran covers the Eastern side of the Fertile Crescent ...

    Authors: Karim Karimi, Eva M. Strucken, Nasir Moghaddar, Mohammad H. Ferdosi, Ali Esmailizadeh and Cedric Gondro

    Citation: BMC Genetics 2016 17:108

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  32. Content type: Research article

    The effects of different evolutionary forces are expected to lead to the conservation, over many generations, of particular genomic regions (haplotypes) due to the development of linkage disequilibrium (LD). T...

    Authors: Enrique Sánchez-Molano, Dimitrios Tsiokos, Dimitrios Chatziplis, Hossein Jorjani, Lorenzo Degano, Clara Diaz, Attilio Rossoni, Hermann Schwarzenbacher, Franz Seefried, Luis Varona, Daniele Vicario, Ezequiel L. Nicolazzi and Georgios Banos

    Citation: BMC Genetics 2016 17:91

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  33. Content type: Research article

    QTL mapping through genome-wide association studies (GWAS) is challenging, especially in the case of low heritability complex traits and when few animals possess genotypic and phenotypic information. When most...

    Authors: Thaise P. Melo, Luciana Takada, Fernando Baldi, Henrique N. Oliveira, Marina M. Dias, Haroldo H. R. Neves, Flavio S. Schenkel, Lucia G. Albuquerque and Roberto Carvalheiro

    Citation: BMC Genetics 2016 17:89

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  34. Content type: Research article

    The Shaziling pig (Sus scrofa) is a well-known indigenous breed in China. One of its main advantages over European breeds is its high meat quality. However, little genetic information is available for the Shazili...

    Authors: Hu Yang, Xing-li Xu, Hai-ming Ma and Jun Jiang

    Citation: BMC Genetics 2016 17:80

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  35. Content type: Research article

    The maternally inherited mitochondrial genome encodes key proteins of the electron transfer chain, which produces the vast majority of cellular ATP. Mitochondrial DNA (mtDNA) present in the mature oocyte acts ...

    Authors: Te-Sha Tsai, Sriram Rajasekar and Justin C. St. John

    Citation: BMC Genetics 2016 17:67

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  36. Content type: Research article

    The sperm gene bindin encodes a gamete recognition protein, which plays an important role in conspecific fertilization and reproductive isolation of sea urchins. Molecular evolution of the gene has been extensive...

    Authors: Evgeniy S. Balakirev, Maria Anisimova, Vladimir A. Pavlyuchkov and Francisco J. Ayala

    Citation: BMC Genetics 2016 17:66

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  37. Content type: Methodology article

    Non-invasive sampling has opened avenues for the genetic study of elusive species, which has contributed significantly to their conservation. Where field based identity of non-invasive sample is ambiguous (e.g...

    Authors: Pranay Amruth Maroju, Sonu Yadav, Vishnupriya Kolipakam, Shweta Singh, Qamar Qureshi and Yadvendradev Jhala

    Citation: BMC Genetics 2016 17:37

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    The Erratum to this article has been published in BMC Genetics 2017 18:28

  38. Content type: Research article

    Methods for parentage control in cattle have changed since their initial implementation in the late 1950’s from blood group typing to more current single nucleotide polymorphism determination. In the early 199...

    Authors: Bertram Brenig and Ekkehard Schütz

    Citation: BMC Genetics 2016 17:18

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  39. Content type: Research article

    Human intestinal schistosomiasis caused by Schistosoma mansoni and urinary schistosomiasis caused by Schistosoma haematobium are endemic in Ethiopia. Although schistosomes look morphologically uniform, there is v...

    Authors: Mulugeta Aemero, Jérôme Boissier, Deborah Climent, Hélène Moné, Gabriel Mouahid, Nega Berhe and Berhanu Erko

    Citation: BMC Genetics 2015 16:137

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  40. Content type: Research article

    The establishment of the bisexual fertile fish hybrid lineage including the allodiploid and allotetraploid hybrids, from interspecific hybridization of red crucian carp (Carassius auratus red var. 2n = 100, 2n = ...

    Authors: Chun Zhang, Lihai Ye, Yiyi Chen, Jun Xiao, Yanhong Wu, Min Tao, Yamei Xiao and Shaojun Liu

    Citation: BMC Genetics 2015 16:140

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  41. Content type: Research article

    Natural and artificial selection following domestication has led to the existence of more than a hundred pig breeds, as well as incredible variation in phenotypic traits. Berkshire pigs are regarded as having ...

    Authors: Hyeonsoo Jeong, Ki-Duk Song, Minseok Seo, Kelsey Caetano-Anollés, Jaemin Kim, Woori Kwak, Jae-don Oh, EuiSoo Kim, Dong Kee Jeong, Seoae Cho, Heebal Kim and Hak-Kyo Lee

    Citation: BMC Genetics 2015 16:104

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  42. Content type: Research article

    The roe deer, Capreolus sp., is one of the most widespread meso-mammals of Palearctic distribution, and includes two species, the European roe deer, C. capreolus inhabiting mainly Europe, and the Siberian roe dee...

    Authors: Yun Sun Lee, Nickolay Markov, Inna Voloshina, Alexander Argunov, Damdingiin Bayarlkhagva, Jang Geun Oh, Yong-Su Park, Mi-Sook Min, Hang Lee and Kyung Seok Kim

    Citation: BMC Genetics 2015 16:100

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  43. Content type: Research article

    Misidentifications between exploited species may lead to inaccuracies in population assessments, with potentially irreversible conservation ramifications if overexploitation of either species is occurring. A n...

    Authors: Andrea M Bernard, Mahmood S Shivji, Eric D Prince, Fabio HV Hazin, Freddy Arocha, Andres Domingo and Kevin A Feldheim

    Citation: BMC Genetics 2014 15:141

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  44. Content type: Research article

    Research has increasingly highlighted the role of serotonin in behavior. However, few researchers have examined serotonin in an evolutionary context, although such research could provide insight into the evolu...

    Authors: Milena R Shattuck, Jessica Satkoski-Trask, Amos Deinard, Raul Y Tito, David G Smith, Don J Melnick and Ripan S Malhi

    Citation: BMC Genetics 2014 15:116

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