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Gruzdeva MA, Semenova AV, Kuzishchin KV, Ponomareva EV, Volkov AA, Pavlov DS. Genetic Variability of Dolly Varden (Salvelinus malma), White-Spotted Char (S. leucomaenis), and Interspecific Hybrids from the Utkholok River (Northwestern Kamchatka). RUSS J GENET+ 2020. [DOI: 10.1134/s1022795419090060] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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2
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Fuchs H, Schlee P, Rottmann O, Stein H. Differentiation of bleak (Alburnus alburnus, L.) and chub (Leuciscus cephalus, L.) populations from Rivers Main, Isar and Danube using molecular genetic markers. J Anim Breed Genet 2011. [DOI: 10.1111/j.1439-0388.1998.tb00369.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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3
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Arslan S, Bardakci F. Genetic structure of brown trout (Salmo trutta) populations from Turkey based on microsatellite data. Biochem Genet 2010; 48:995-1014. [PMID: 20963631 DOI: 10.1007/s10528-010-9388-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2009] [Accepted: 09/12/2010] [Indexed: 10/18/2022]
Abstract
This present study investigated micro- and macro-geographic microsatellite DNA variations using five polymorphic microsatellite loci from 27 brown trout populations in Turkey. Average number of alleles and average observed heterozygosity were 7.4 and 0.254, respectively. Even populations from the same sea basin and river system (the so called micro-geographic regions) had unique alleles. Genetic variation among the populations from macro-geographic regions (different sea basins and river systems) was 45.78%. The mtDNA lineages of brown trout that have previously been identified by mtDNA analyses were supported by the analysis of the microsatellite DNA data in general. The Çatak population, which belongs to the Tigris lineage, was clustered together with the Euphrates populations within the Adriatic mtDNA lineage, based on microsatellite data. Both mitochondrial and microsatellite DNA analyses have made it possible to determine a secondary contact between Adriatic and Tigris lineages.
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Affiliation(s)
- Serdal Arslan
- Department of Molecular Biology and Genetics, Cumhuriyet University, Sivas, Turkey
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4
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Lie Ø, Slettan A, Lingaas F, Olsaker I, Hordvik I, Refstie T. Haploid gynogenesis: A powerful strategy for linkage analysis in fish. Anim Biotechnol 2009. [DOI: 10.1080/10495399409525802] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Ø. Lie
- a Department of Morphology, Genetics and Aquatic Biology, Division of Genetics , Norwegian College of Veterinary Medicine , P.O. Box 8146, Dep., Oslo, N‐0033, Norway
| | - A. Slettan
- a Department of Morphology, Genetics and Aquatic Biology, Division of Genetics , Norwegian College of Veterinary Medicine , P.O. Box 8146, Dep., Oslo, N‐0033, Norway
| | - F. Lingaas
- a Department of Morphology, Genetics and Aquatic Biology, Division of Genetics , Norwegian College of Veterinary Medicine , P.O. Box 8146, Dep., Oslo, N‐0033, Norway
| | - I. Olsaker
- a Department of Morphology, Genetics and Aquatic Biology, Division of Genetics , Norwegian College of Veterinary Medicine , P.O. Box 8146, Dep., Oslo, N‐0033, Norway
| | - I. Hordvik
- a Department of Morphology, Genetics and Aquatic Biology, Division of Genetics , Norwegian College of Veterinary Medicine , P.O. Box 8146, Dep., Oslo, N‐0033, Norway
- b Center for Biotechnology , University of Bergen , Bergen, Norway
| | - T. Refstie
- a Department of Morphology, Genetics and Aquatic Biology, Division of Genetics , Norwegian College of Veterinary Medicine , P.O. Box 8146, Dep., Oslo, N‐0033, Norway
- c Institute of Aquaculture Research Ltd. , Sunndals⊘ra, Norway
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5
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Taggart JB, Prodöhl PA, Ferguson A. Genetic markers for Atlantic salmon (Salmo salar L.): single locus inheritance and joint segregation analyses of minisatellite (VNTR) DNA loci. Anim Genet 2009. [DOI: 10.1111/j.1365-2052.1995.tb02613.x] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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6
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Spatial and temporal variation of genetic diversity and estimation of effective population sizes in Atlantic salmon (Salmo salar, L.) populations from Asturias (Northern Spain) using microsatellites. CONSERV GENET 2007. [DOI: 10.1007/s10592-007-9400-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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7
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Artamonova VS. Genetic markers in population studies of Atlantic salmon Salmo salar L.: Analysis of DNA sequences. RUSS J GENET+ 2007. [DOI: 10.1134/s1022795407040011] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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8
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Pardo BG, Fernández C, Hermida M, Vázquez-López A, Pérez M, Presa P, Calaza M, Alvarez-Dios JA, Comesaña AS, Raposo-Guillán J, Bouza C, Martínez P. Development and characterization of 248 novel microsatellite markers in turbot (Scophthalmus maximus). Genome 2007; 50:329-32. [PMID: 17502907 DOI: 10.1139/g06-154] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The turbot is a flatfish species of great relevance to marine aquaculture in Europe. Only a limited number of microsatellites have been isolated to date in this species. To increase the number of potentially useful mapping markers, we screened simple sequence repeat (SSR) - enriched genomic libraries obtained from several di-, tri-, and tetranucleotide tandem repeat motifs. A total of 248 new polymorphic microsatellites were successfully optimized. The efficiency of the protocol applied (6.4%) was higher than that in other studies of fish that used the same method. Dinucleotide and perfect microsatellites were predominant in this species; the (AC)n motif was the most frequent class of repeat. Polymorphism and structural properties at these loci, together with 30 variable loci previously reported in turbot, were evaluated in 6 wild individuals. The number of alleles per locus ranged from 2 to 10, with an average of 4.046. The microsatellite markers characterized in this study will contribute to the development of the turbot genetic map, which can be used for quantitative trait locus (QTL) identification, marker-assisted selection programs, and other applications to improve its culture.
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Affiliation(s)
- B G Pardo
- Departamento de Genética, Facultad de Veterinaria, Universidad de Santiago de Compostela, Spain
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Meglécz E, Pecsenye K, Varga Z, Solignac M. Comparison of Differentiation Pattern at Allozyme and Microsatellite Loci in Parnassius Mnemosyne (Lepidoptera) Populations. Hereditas 2004. [DOI: 10.1111/j.1601-5223.1998.00095.x] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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10
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Reddy KD, Abraham EG, Nagaraju J. Microsatellites in the silkworm, Bombyx mori: Abundance, polymorphism, and strain characterization. Genome 1999. [DOI: 10.1139/g99-027] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
We have isolated and characterized microsatellites (simple sequence repeat (SSR) loci) from the silkworm genome. The screening of a partial genomic library by the conventional hybridization method led to the isolation of 28 microsatellites harbouring clones. The abundance of (CA)n repeats in the silkworm genome was akin to those reported in the other organisms such as honey bee, pig, and human, but the (CT)n repeat motif is less common compared to bumble bee and honey bee genomes. Detailed analysis of 13 diverse silkworm strains with a representative of 15 microsatellite loci revealed a number of alleles ranging from 3 to 17 with heterozygosity values of 0.66-0.90. Along with strain-specific microsatellite markers, diapause and non-diapause strain-specific alleles were also identified. The repeat length did not show any relationship with the degree of polymorphism in the present study. The co-dominant inheritance of microsatellite markers was demonstrated in F1 offspring. A list of primer sequences that tag each locus is provided. The availability of microsatellite markers can be expected to enhance the power and resolution of genome analysis in silkworm.Key words: microsatellites, simple sequence repeats, polymorphisms, silkworm strains, Bombyx mori.
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Krenz JD, Semlitsch RD, Gerhardt HC, Mahoney PA. Isolation and characterization of simple sequence repeat loci in the gray tree frog, Hyla chrysoscelis. Genome 1999; 42:676-80. [PMID: 10464791 DOI: 10.1139/g98-166] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
A gray tree frog (Hyla chrysoscelis) genomic library was constructed and characterized with regard to the incidence and complexity of simple sequence repeat (SSR) loci. The partial genomic library, containing approximately 10,000 clones with an average-sized insert of 350 bp, was screened with six SSR repeat oligonucleotides (AC, AG, ACG, AGC, AAC, and AAG). Screening identified 31 unique positive clones containing 41 SSR loci. Sequences of tandemly arrayed dinucleotide repeats were more common (36 of 41) than trinucleotide repeats. Twenty-six loci were identified using the AC dinucleotide probe, while 7 loci were identified using the AG dinucleotide probe. An additional 3 AT dinucleotide loci were serendipitously identified. The AT repeats generally comprised the longest dinucleotide repeat loci. The SSR repeat loci reported here should provide potent markers for identity, parentage, and short-lineage determinations in large-scale experiments using gray tree frogs.
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Affiliation(s)
- J D Krenz
- Division of Biological Sciences, University of Missouri, Columbia 65211-7400, USA.
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A test of the hypothesis of an autopolyploid vs. allopolyploid origin for a tetraploid lineage: application to the genus barbus (Cyprinidae). Heredity (Edinb) 1999; 82 Pt 4:373-80. [PMID: 10383655 DOI: 10.1038/sj.hdy.6884890] [Citation(s) in RCA: 39] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022] Open
Abstract
A new method is described for determination of the origin of polyploid lineages. It tests the hypothesis that a tetraploid lineage originated via autopolyploidization vs. allopolyploidization. The method is based on the hypothesis that, in the case of autopolyploidy, any genetic marker in the first tetraploid ancestor is represented by two copies (one for each homoeologous chromosome of the haploid complement), whereas in allopolyploidy some markers absent from one of the hybridizing species will display one copy at most. The model requires knowledge of the phylogeny (topology and branch lengths) of a sample of species descending from the same tetraploidization event, together with the number of homoeologous copies present in each species for a set of neutral markers. The likelihood of a given proportion of the markers being present in both homoeologous chromosome pairs of the ancestral tetraploid is expressed as a function of the deletion rate of a marker. In the case of an autopolyploid origin, this proportion equals one. A likelihood-ratio test was carried out to test this hypothesis. The method was used to examine five microsatellite loci in eight species of Barbus (sensu lato). Assuming the validity of the hypotheses on phylogenetic relationships and evolutionary rates, the test rejects the possibility that European tetraploid barbs originated through autopolyploidy. This is the first test that can reject autopolyploidy, and it would appear particularly useful for phylogenetic studies in taxa where hybridization is known and where, consequently, undetected reticulate evolution may impair phylogenetic reconstruction.
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Slettan A, Olsaker I, Lie O. Segregation studies and linkage analysis of Atlantic salmon microsatellites using haploid genetics. Heredity (Edinb) 1997; 78 ( Pt 6):620-7. [PMID: 9203354 DOI: 10.1038/hdy.1997.101] [Citation(s) in RCA: 42] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023] Open
Abstract
A genetic marker map of Atlantic salmon would facilitate the identification of loci influencing economically important traits. In the present paper we describe five new Atlantic salmon microsatellites. Segregation studies and linkage analysis of these and previously published microsatellites were carried out in pedigrees consisting of diploid dams and haploid gynogenetic offspring. We confirm earlier reports that salmon microsatellites tend to have a higher number of repeat units than those of mammals. Linkage analysis revealed that three microsatellites belong to a linkage group spanning approximately 50 cM of the genome, whereas the remaining 10 markers seem to be unlinked.
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Affiliation(s)
- A Slettan
- Department of Morphology, Genetics and Aquatic Biology, Norwegian College of Veterinary Medicine, Oslo, Norway.
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Sánchez JA, Clabby C, Ramos D, Blanco G, Flavin F, Vázquez E, Powell R. Protein and microsatellite single locus variability in Salmo salar L. (Atlantic salmon). Heredity (Edinb) 1996; 77 ( Pt 4):423-32. [PMID: 8885382 DOI: 10.1038/hdy.1996.162] [Citation(s) in RCA: 139] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
Abstract
We describe genetic variation at three microsatellite single loci and six allozyme loci of seven natural Atlantic salmon populations from Ireland and Spain. A comparison of genetic variability detected at both types of loci is performed. Also, the relative value of microsatellite single locus variability with regard to the identification of individual salmon populations is assessed. Microsatellite loci are shown to display higher levels of variation than allozyme loci. Mean number of alleles (6 +/- 1.53) and heterozygosity (0.46 +/- 0.04) at microsatellite loci are greater than those found for allozymes (1.85 +/- 0.05 and 0.21 +/- 0.03, respectively), and some microsatellite alleles appear to be specific for a location or geographical area. Allozyme and microsatellite variation show the same pattern of differentiation between populations with Irish and Spanish populations grouped into different clusters. However, greater values of genetic distance were found among microsatellite (D = 0.0747 +/- 0.011) rather than among allozyme loci (D = 0.0449 +/- 0.008). These results provide evidence that microsatellite-based analysis of genetic variation will be useful in the identification of individual populations of Atlantic salmon.
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Affiliation(s)
- J A Sánchez
- Deparatmento de Biología Funcional, Universidad de Oviedo, Spain
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Thorén PA, Paxton RJ, Estoup A. Unusually high frequency of (CT)n and (GT)n microsatellite loci in a yellowjacket wasp, Vespula rufa (L.) (Hymenoptera: Vespidae). INSECT MOLECULAR BIOLOGY 1995; 4:141-148. [PMID: 8589840 DOI: 10.1111/j.1365-2583.1995.tb00019.x] [Citation(s) in RCA: 47] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
A high number of (GT)n and (CT)n microsatellites were isolated from a partial genomic library of primitively eusocial wasp, Vespula rufa. On average, (GT)n and (CT)n repeats occur in the genome approximately every 8 kb and 2.5 kb respectively. This is the highest density of dinucleotide microsatellites reported in the literature. Predominant categories of repeats are imperfect and compound repeats for (GT)n microsatellites and perfect repeats for (CT)n microsatellites. Comparisons with other Hymenoptera and with mammalian species showed significant differences in the frequency distribution of these categories of repeats. Many (CT)n and (GT)n repeats are surrounded by various types of microsatellites, suggesting an associative distribution of short tandem repeats. A high level of intracolonial polymorphism is demonstrated with one microsatellite locus, showing that multiple mating of the queen occurs in V. rufa.
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Affiliation(s)
- P A Thorén
- Department of Genetics, Uppsala University, Sweden
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Slettan A, Olsaker I, Lie O. Atlantic salmon, Salmo salar, microsatellites at the SSOSL25, SSOSL85, SSOSL311, SSOSL417 loci. Anim Genet 1995; 26:281-2. [PMID: 7661406 DOI: 10.1111/j.1365-2052.1995.tb03262.x] [Citation(s) in RCA: 221] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- A Slettan
- Department of Morphology, Genetics and Aquatic Biology, Norwegian College of Veterinary Medicine, Oslo
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17
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Lie Ø, Slettan A, Grimholt U, Lundin M, Syed M, Olsaker I. Fish gene maps and their implications for aquaculture. Anim Biotechnol 1994. [DOI: 10.1080/10495399409525822] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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