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Martin Flajšhans - One of the best experts on this subject based on the ideXlab platform.
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Genetic variability and differentiation of wild and cultured Tench populations inferred from microsatellite loci
Reviews in Fish Biology and Fisheries, 2010Co-Authors: Klaus Kohlmann, Remigiusz Panicz, Petra Kersten, Devrim Memiş, Martin FlajšhansAbstract:Nine species-specific microsatellites were used to characterize 792 Tench, Tinca tinca (L.), from 21 wild and cultured populations. Seven loci were polymorphic expressing four to 22 alleles. A Spanish cultured strain was homozygous at all loci for all individuals studied. Low variability was also observed in a wild population from Sapanca Lake, Turkey and a Chinese cultured strain. In contrast, the highest variabilities were found in wild Tench from lake Felchowsee (average number of alleles), and the cultured strain from Königswartha (average heterozygosity), both from Germany. Genetic differentiation between populations was moderate to high. The smallest genetic distances were found between the geographically most distant populations. A Neighbor-Joining tree showed only two major clades consisting of 4 and 17 populations, respectively. Within the smaller clade the Turkish wild and Spanish and Chinese cultured Tench formed a sub-cluster with 100% bootstrap support. Possible reasons for the latter unexpected grouping are discussed.
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comparison of microsatellite variability in wild and cultured Tench tinca tinca
Aquaculture, 2007Co-Authors: Klaus Kohlmann, Martin Flajšhans, Petra KerstenAbstract:Abstract The Tench is a cyprinid fish species of increasing interest for European pond aquaculture. However, only little is known on the population genetic structure of this species; the few studies conducted so far were based on allozyme polymorphisms. In the present study, Tench specific microsatellites were used for a genetic comparison of two wild populations and four cultured strains from Germany and Czech Republic. Seven out of nine loci analysed were polymorphic with a total number of alleles ranging from 2 (locus MTT-2 ) to 19 (locus MTT-9 ). Wild populations showed a higher allelic richness than the cultured strains (3.73 vs . 2.43) but this difference was still not significant ( P = 0.062). Observed heterozygosity (0.370 vs . 0.366) and gene diversity (0.403 vs . 0.343) were globally similar in wild and cultured Tench. In contrast to the variability within populations, genetic differentiation was significant between all of them as estimated by F ST values from pairwise comparisons. The differentiation of the two wild populations ( F ST of 0.024) was lower than the average differentiation of the four cultured strains (mean F ST of 0.159) but again this difference was not significant ( P = 0.143). The present results indicate a tendency towards a reduction in variability within and an increase in differentiation between cultured strains in comparison to wild populations. To verify this, more populations have to be analysed. However, it is already evident that wild Tench populations should be protected since they represent valuable genetic resources.
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Fatty Acid Composition in Diploid and Triploid Populations of Tench ( Tinca tinca L.)
Acta Veterinaria Brno, 2004Co-Authors: Hana Buchtová, Miriam Smutná, Lenka Vorlová, Zdenka Svobodova, Martin FlajšhansAbstract:Buchtova, H., M. Smutna, L. Vorlova, Z. Svobodova, M. Flaj‰hans: Fatty Acid Composition in Diploid and Triploid Populations of Tench (Tinca tinca L.). Acta Vet. Brno 2004, 73: 235-245. The aim of the study was to determine the differences in the composition of fatty acids of intramuscular lipids between diploid (2n) and triploid (3n) Tench of identical genetic specifications and raised under the same conditions, in relation to sex (F-female vs. M-male) and age (T 3 -36 months vs. T 3+ - 42 months). A total of 137 Tench (Tinca tinca L.) siblings were analyzed. The control group consisted of 72 diploid Tench (39 F and 33 M) and the experimental group of 65 triploid Tench (38 F and 27 M). Elevated levels of fatty acids C16:0, C16:1n-9c and C18:1n-9c were found in lipids of Tench of both age groups (T3 and T3+). Among T3 Tench, significant ploidy-level related differences were ascertained in the content of specific SFA (C12:0, C13:0, C14:0, C15:0; p < 0.01) and C22:1n-9 (p < 0.05) in favour of 2n males. A significant effect of sex was found only in the diploid Tench population: C14:0, p < 0.01 and C14:1n-9c, p < 0.05 in favour of 2n male Tench and C18:1n-9c, p < 0.01 in favour of 2n female Tench. In the T3+ age group, the ploidy-level effect was apparent in both sexes (C15:0, P < 0.05 and C18:2n-9c, t11, p < 0.05 in favour of 2n female Tench, C16:1n-9c, p < 0.01 in favour of 3n male Tench, C18:2n-6c, p < 0.01 and C18:3n-3, p < 0.05 in favour of 2n male Tench). In the T 3+ age group, the effect of sex was apparent for both ploidy levels (C16:1n-9c, p < 0.01 in favour of 2n female Tench, and C14:0, p < 0.05 in favour of 3n male Tench). The qualitative as well as quantitative composition of lipids of specific fatty acids was significantly affected (p < 0.05, p < 0.01, p < 0.05) by age. The study demonstrated that the factors monitored (ploidy, sex and age) may, under specific experimental conditions, influence the composition of lipid fatty acids of the Tench. Fatty acids, diploid and triploid Tench, genome polyploidy
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enzyme treatment for elimination of egg stickiness in Tench tinca tinca l european catfish silurus glanis l and common carp cyprinus carpio l
Fish Physiology and Biochemistry, 2003Co-Authors: O Linhart, Martin Flajšhans, M Rodina, D Gela, Martin KocourAbstract:Enzyme treatment to eliminate egg stickiness in Tench, European catfish and common carp was compared with standard methodology in an attempt to decrease time consuming under hatchery conditions. Eggs of Tench and E. catfish were exposed to an alcalase enzyme MERCK EC 3.4.21.14 (0.6 AU g−1) solution 3 min after egg fertilization for 2 min. The best enzyme concentration in Tench and E. catfish was 10 and 20 ml l−1 of enzyme, respectively. The eggs of c. carp were successfully destickiness with ALCALASE DX (2.5 AU g−1) using two concentration of enzyme (2 ml l−1 and 20 ml l−1) from 8 to 20 min after fertilization.
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leukocyte profiles of diploid and triploid Tench tinca tinca l
Aquaculture, 2001Co-Authors: Zdenka Svobodova, Martin Flajšhans, J Kolařova, H Modra, M Svoboda, V VajcovaAbstract:Abstract Leukocyte profiles were compared in diploid and triploid Tench of the same origin. A total of 55 3-year-old (34 diploid and 17 triploid) and 61 4-year-old (28 diploid and 33 triploid) Tench were examined in June of 1996 and 1997, respectively. There were no significant differences in total or differential leukocyte counts between diploid and triploid 3-year-old Tench, in which lymphocytes dominated (>90%) the total leukocyte count. In the case of 4-year-old Tench, there were no significant differences in total leukocyte counts, or in differential lymphocyte, monocyte and myelocyte counts, but triploids had lower metamyelocyte counts and higher neutrophile granulocyte counts ( P
Klaus Kohlmann - One of the best experts on this subject based on the ideXlab platform.
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A novel transcriptome-derived SNPs array for Tench (Tinca tinca L.).
PloS one, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (
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a novel transcriptome derived snps array for Tench tinca tinca l
PLOS ONE, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (<0.0001) genetic differentiation between the two Tench breeds. This implies that set of validated SNPs array can be used to distinguish the Tench breeds and that it might be useful for studying a range of associations between DNA sequence and traits of importance. These genomic resources created for the Tench will provide insight into population genetics, conservation fish stock management, and aquaculture.
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sequence variability at the mitochondrial nd1 nd6 cyt b and d loop segments in Tench tinca tinca l
Journal of Applied Ichthyology, 2014Co-Authors: Lo R Presti, Klaus Kohlmann, Petra Kersten, C Lisa, L Di StasioAbstract:Summary The authors' previous PCR-RFLP studies on ND1, ND6, cyt b and D-loop segments of mtDNA in Tench revealed the existence of nine composite haplotypes, named H1-H9. As cyt b is the only mtDNA segment whose variability has been widely studied in Tench, the same four segments were sequenced in 29 individuals from 17 populations covering all nine haplotypes, with the aim of providing additional data on Tench mtDNA variation. Ninety-six polymorphic sites were identified and all differences were single nucleotide substitutions, except for six indels found in the D-loop. The observed polymorphisms gave origin to five different ND1 sequences, seven ND6 sequences, six cyt b sequences and 17 D-loop sequences. Comparison with data in GenBank revealed that none of the five ND1 sequences were as yet reported, nor the one for cyt b or sixteen for the D-loop; concerning ND6, the data were the first contribution on the variability of this segment. The combination of the haplotypes at the single segments determined 20 composite haplotypes: seven (H1a–H1g) had been classified as H1 and six (H2a–H2f) as H2 with the PCR-RFLP analysis, while for the other haplotypes previously identified (H3–H9) no additional variability was found. The analysis of phylogenetic trees showed that each segment was informative enough to clearly identify the two highly divergent haplogroups already reported in Tench, but only the D-loop gave a good resolution of the tree branching because of its high variability. The Median-Joining network, constructed using the composite haplotypes, indicated H1a as the founder node for haplogroup A and the haplotypes H2a-H2f as ancestral with respect to H7–H9. The new data on the variability of mtDNA can contribute to a better understanding of the between and within population diversity in Tench.
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growth hormone gene polymorphisms in Tench tinca tinca l
Aquaculture, 2011Co-Authors: Martin Kocour, Klaus KohlmannAbstract:Abstract Studies of the growth hormone (GH) gene have both fundamental and practical significance, but no data on intra-specific polymorphisms of the Tench, Tinca tinca , GH gene has been available. In the present study, the complete GH gene was cloned from 17 Tench individuals chosen from 10 European and two Asian populations, cultured as well as wild and sequenced from 28 recombinant plasmids (at least one per individual). The Tench GH gene was found to be 1758–1763 bp in length. Altogether 14 polymorphic sites were observed, 12 located in introns (SNPs and very short indels) and two in exons (SNPs only). In non-coding regions, the highest polymorphism was found in intron 2 (five SNPs and two indels). Intron 4 was short (137 bp) and monomorphic. In coding regions, one polymorphic site was observed in exon 3 and one in exon 5. The detected SNPs in exons were synonymous, having no effect on the amino acid composition of the GH protein. Thirteen GH gene haplotypes were observed. The Tench GH gene haplotypes clustered into two major classes with a mean genetic distance of 0.0037 ± 0.0014 and coefficient of GH gene differentiation of 0.67 ± 0.129 (mean ± S.E.). The two classes corresponded, based on phylogroup-specific PCR-RFLP, with previously determined two phylogroups, western and eastern. Although the described Tench GH gene haplotypes might not include all the existing ones, all common polymorphic sites were identified. Polymorphisms in the Tench GH gene, a representative of the five-exon type, are not as extensive as in fishes with the six-exon GH gene. However, GH gene polymorphisms in Tench can still serve as suitable markers for population studies and conservation purposes. Investigation of growth performance differences in fish of different GH gene classes and/or haplotypes may be valuable.
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Genetic variability and differentiation of wild and cultured Tench populations inferred from microsatellite loci
Reviews in Fish Biology and Fisheries, 2010Co-Authors: Klaus Kohlmann, Remigiusz Panicz, Petra Kersten, Devrim Memiş, Martin FlajšhansAbstract:Nine species-specific microsatellites were used to characterize 792 Tench, Tinca tinca (L.), from 21 wild and cultured populations. Seven loci were polymorphic expressing four to 22 alleles. A Spanish cultured strain was homozygous at all loci for all individuals studied. Low variability was also observed in a wild population from Sapanca Lake, Turkey and a Chinese cultured strain. In contrast, the highest variabilities were found in wild Tench from lake Felchowsee (average number of alleles), and the cultured strain from Königswartha (average heterozygosity), both from Germany. Genetic differentiation between populations was moderate to high. The smallest genetic distances were found between the geographically most distant populations. A Neighbor-Joining tree showed only two major clades consisting of 4 and 17 populations, respectively. Within the smaller clade the Turkish wild and Spanish and Chinese cultured Tench formed a sub-cluster with 100% bootstrap support. Possible reasons for the latter unexpected grouping are discussed.
Martin Kocour - One of the best experts on this subject based on the ideXlab platform.
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A novel transcriptome-derived SNPs array for Tench (Tinca tinca L.).
PloS one, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (
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a novel transcriptome derived snps array for Tench tinca tinca l
PLOS ONE, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (<0.0001) genetic differentiation between the two Tench breeds. This implies that set of validated SNPs array can be used to distinguish the Tench breeds and that it might be useful for studying a range of associations between DNA sequence and traits of importance. These genomic resources created for the Tench will provide insight into population genetics, conservation fish stock management, and aquaculture.
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growth hormone gene polymorphisms in Tench tinca tinca l
Aquaculture, 2011Co-Authors: Martin Kocour, Klaus KohlmannAbstract:Abstract Studies of the growth hormone (GH) gene have both fundamental and practical significance, but no data on intra-specific polymorphisms of the Tench, Tinca tinca , GH gene has been available. In the present study, the complete GH gene was cloned from 17 Tench individuals chosen from 10 European and two Asian populations, cultured as well as wild and sequenced from 28 recombinant plasmids (at least one per individual). The Tench GH gene was found to be 1758–1763 bp in length. Altogether 14 polymorphic sites were observed, 12 located in introns (SNPs and very short indels) and two in exons (SNPs only). In non-coding regions, the highest polymorphism was found in intron 2 (five SNPs and two indels). Intron 4 was short (137 bp) and monomorphic. In coding regions, one polymorphic site was observed in exon 3 and one in exon 5. The detected SNPs in exons were synonymous, having no effect on the amino acid composition of the GH protein. Thirteen GH gene haplotypes were observed. The Tench GH gene haplotypes clustered into two major classes with a mean genetic distance of 0.0037 ± 0.0014 and coefficient of GH gene differentiation of 0.67 ± 0.129 (mean ± S.E.). The two classes corresponded, based on phylogroup-specific PCR-RFLP, with previously determined two phylogroups, western and eastern. Although the described Tench GH gene haplotypes might not include all the existing ones, all common polymorphic sites were identified. Polymorphisms in the Tench GH gene, a representative of the five-exon type, are not as extensive as in fishes with the six-exon GH gene. However, GH gene polymorphisms in Tench can still serve as suitable markers for population studies and conservation purposes. Investigation of growth performance differences in fish of different GH gene classes and/or haplotypes may be valuable.
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enzyme treatment for elimination of egg stickiness in Tench tinca tinca l european catfish silurus glanis l and common carp cyprinus carpio l
Fish Physiology and Biochemistry, 2003Co-Authors: O Linhart, Martin Flajšhans, M Rodina, D Gela, Martin KocourAbstract:Enzyme treatment to eliminate egg stickiness in Tench, European catfish and common carp was compared with standard methodology in an attempt to decrease time consuming under hatchery conditions. Eggs of Tench and E. catfish were exposed to an alcalase enzyme MERCK EC 3.4.21.14 (0.6 AU g−1) solution 3 min after egg fertilization for 2 min. The best enzyme concentration in Tench and E. catfish was 10 and 20 ml l−1 of enzyme, respectively. The eggs of c. carp were successfully destickiness with ALCALASE DX (2.5 AU g−1) using two concentration of enzyme (2 ml l−1 and 20 ml l−1) from 8 to 20 min after fertilization.
Andone Estonba - One of the best experts on this subject based on the ideXlab platform.
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A novel transcriptome-derived SNPs array for Tench (Tinca tinca L.).
PloS one, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (
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a novel transcriptome derived snps array for Tench tinca tinca l
PLOS ONE, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (<0.0001) genetic differentiation between the two Tench breeds. This implies that set of validated SNPs array can be used to distinguish the Tench breeds and that it might be useful for studying a range of associations between DNA sequence and traits of importance. These genomic resources created for the Tench will provide insight into population genetics, conservation fish stock management, and aquaculture.
Darrell C. Conklin - One of the best experts on this subject based on the ideXlab platform.
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A novel transcriptome-derived SNPs array for Tench (Tinca tinca L.).
PloS one, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (
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a novel transcriptome derived snps array for Tench tinca tinca l
PLOS ONE, 2019Co-Authors: Girish Kumar, Jorge Langa, Iratxe Montes, Darrell C. Conklin, Martin Kocour, Klaus Kohlmann, Andone EstonbaAbstract:Tench (Tinca tinca L.) has great economic potential due to its high rate of fecundity and long-life span. Population genetic studies based on allozymes, microsatellites, PCR-RFLP and sequence analysis of genes and DNA fragments have revealed the presence of Eastern and Western phylogroups. However, the lack of genomic resources for this species has complicated the development of genetic markers. In this study, the Tench transcriptome and genome were sequenced by high-throughput sequencing. A total of 60,414 putative SNPs were identified in the Tench transcriptome using a computational pipeline. A set of 96 SNPs was selected for validation and a total of 92 SNPs was validated, resulting in the highest conversion and validation rate for a non-model species obtained to date (95.83%). The validated SNPs were used to genotype 140 individuals belonging to two Tench breeds (Tabor and Hungarian), showing low (FST = 0.0450) but significant (<0.0001) genetic differentiation between the two Tench breeds. This implies that set of validated SNPs array can be used to distinguish the Tench breeds and that it might be useful for studying a range of associations between DNA sequence and traits of importance. These genomic resources created for the Tench will provide insight into population genetics, conservation fish stock management, and aquaculture.
