Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus)
Recent studies have reported an unusually high frequency of nonamplifying alleles at microsatellite loci in bivalves. Null alleles have been associated with heterozygous deficits in many studies. While several studies have tested for its presence using different analytical tools, few have empiricall...
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| Format: | Article |
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PeerJ Inc.
2017-04-01
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| Series: | PeerJ |
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| Online Access: | https://peerj.com/articles/3188.pdf |
| _version_ | 1827608106725539840 |
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| author | Ciro Rico Jose Antonio Cuesta Pilar Drake Enrique Macpherson Louis Bernatchez Amandine D. Marie |
| author_facet | Ciro Rico Jose Antonio Cuesta Pilar Drake Enrique Macpherson Louis Bernatchez Amandine D. Marie |
| author_sort | Ciro Rico |
| collection | DOAJ |
| description | Recent studies have reported an unusually high frequency of nonamplifying alleles at microsatellite loci in bivalves. Null alleles have been associated with heterozygous deficits in many studies. While several studies have tested for its presence using different analytical tools, few have empirically tested for its consequences in estimating population structure and differentiation. We characterised 16 newly developed microsatellite loci and show that null alleles are ubiquitous in the wedge clam, Donax trunculus. We carried out several tests to demonstrate that the large heterozygous deficits observed in the newly characterised loci were most likely due to null alleles. We tested the robustness of microsatellite genotyping for population assignment by showing that well-recognised biogeographic regions of the south Atlantic and south Mediterranean coast of Spain harbour genetically different populations. |
| first_indexed | 2024-03-09T07:06:17Z |
| format | Article |
| id | doaj.art-65c700ab26644c4fbb96dbefadd08110 |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T07:06:17Z |
| publishDate | 2017-04-01 |
| publisher | PeerJ Inc. |
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| spelling | doaj.art-65c700ab26644c4fbb96dbefadd081102023-12-03T09:30:58ZengPeerJ Inc.PeerJ2167-83592017-04-015e318810.7717/peerj.3188Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus)Ciro Rico0Jose Antonio Cuesta1Pilar Drake2Enrique Macpherson3Louis Bernatchez4Amandine D. Marie5School of Marine Studies, Molecular Analytics Laboratory (MOANA), Faculty of Science Technology and Environment, The University of the South Pacific, Suva, FijiInstituto de Ciencias Marinas de Andalucía (ICMAN, CSIC), Puerto Real (Cádiz), SpainInstituto de Ciencias Marinas de Andalucía (ICMAN, CSIC), Puerto Real (Cádiz), SpainCentre d’Estudis Avançats de Blanes, (CEAB, CSIC), Blanes, SpainInstitut de Biologie Intégrative et des Systèmes (IBIS), Département de Biologie, Pavillon Charles-Eugène-Marchand, Laval University, Quebec, CanadaSchool of Marine Studies, Molecular Analytics Laboratory (MOANA), Faculty of Science Technology and Environment, The University of the South Pacific, Suva, FijiRecent studies have reported an unusually high frequency of nonamplifying alleles at microsatellite loci in bivalves. Null alleles have been associated with heterozygous deficits in many studies. While several studies have tested for its presence using different analytical tools, few have empirically tested for its consequences in estimating population structure and differentiation. We characterised 16 newly developed microsatellite loci and show that null alleles are ubiquitous in the wedge clam, Donax trunculus. We carried out several tests to demonstrate that the large heterozygous deficits observed in the newly characterised loci were most likely due to null alleles. We tested the robustness of microsatellite genotyping for population assignment by showing that well-recognised biogeographic regions of the south Atlantic and south Mediterranean coast of Spain harbour genetically different populations.https://peerj.com/articles/3188.pdfBivalvesDonax trunculusMicrosatellitesHeterozygous deficitsNull allelesPopulation genetics |
| spellingShingle | Ciro Rico Jose Antonio Cuesta Pilar Drake Enrique Macpherson Louis Bernatchez Amandine D. Marie Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus) PeerJ Bivalves Donax trunculus Microsatellites Heterozygous deficits Null alleles Population genetics |
| title | Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus) |
| title_full | Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus) |
| title_fullStr | Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus) |
| title_full_unstemmed | Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus) |
| title_short | Null alleles are ubiquitous at microsatellite loci in the Wedge Clam (Donax trunculus) |
| title_sort | null alleles are ubiquitous at microsatellite loci in the wedge clam donax trunculus |
| topic | Bivalves Donax trunculus Microsatellites Heterozygous deficits Null alleles Population genetics |
| url | https://peerj.com/articles/3188.pdf |
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