Two unlinked loci controlling the sex of blue tilapia (Oreochromis aureus)

Lee, B-Y; Hulata, Gideon; Kocher, Thomas D.

doi:10.1038/sj.hdy.6800453

Cited by 172 publications

(165 citation statements)

References 39 publications

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“…In salmonids (male heterogamety), comparative mapping of sexlinked microsatellite markers has already shown that Arctic charr, brown trout, Atlantic salmon and rainbow trout have evolved different sex chromosomes (Woram et al, 2003). Sex-linked markers have been found in the Nile tilapia Oreochromis niloticus (XX/XY) and the blue tilapia O. aureus (ZW/ZZ) (Lee et al, 2004), and the putative sex chromosomes have been identified by synaptonemal complex analysis (for a review, Griffin et al, 2002). In the threespine stickleback, sequencing of X-and Y-specific bacterial artificial chromosome clones from the sex determination region revealed many sequence differences between X and neo-Y chromosomes .…”

Section: Transposable Elements and Speciationmentioning

confidence: 99%

Genome evolution and biodiversity in teleost fish

2004

Heredity

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Teleost fish, which roughly make up half of the extant vertebrate species, exhibit an amazing level of biodiversity affecting their morphology, ecology and behaviour as well as many other aspects of their biology. This huge variability makes fish extremely attractive for the study of many biological questions, particularly of those related to evolution. New insights gained from different teleost species and sequencing projects have recently revealed several peculiar features of fish genomes that might have played a role in fish evolution and speciation. There is now substantial evidence that a round of tetraploidization/rediploidization has taken place during the early evolution of the ray-finned fish lineage, and that hundreds of duplicate pairs generated by this event have been maintained over hundreds of millions of years of evolution. Differential loss or subfunction partitioning of such gene duplicates might have been involved in the generation of fish variability. In contrast to mammalian genomes, teleost genomes also contain multiple families of active transposable elements, which might have played a role in speciation by affecting hybrid sterility and viability. Finally, the amazing diversity of sex determination systems and the plasticity of sex chromosomes observed in teleost might have been involved in both pre-and postmating reproductive isolation. Comparison of data generated by current and future genome projects as well as complementary studies in other species will allow one to approach the molecular and evolutionary mechanisms underlying genome diversity in fish, and will certainly significantly contribute to our understanding of gene evolution and function in humans and other vertebrates. Heredity (2005) 94, 280-294.

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Section: Transposable Elements and Speciationmentioning

confidence: 99%

Genome evolution and biodiversity in teleost fish

2004

Heredity

593

430

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“…In many actual applications (e.g., Daniels et al 1998;Moritz et al 2003;Lee et al 2004), however, the actual value of population allele frequencies is not relevant; instead the main concern is the relative frequencies of alleles between two or more populations. In this situation bias may not be a concern, and we can ask how well larger DNA pools detect differences in allelic composition between populations.…”

Section: Experiments 1-variance Componentsmentioning

confidence: 99%

“…Allelic association studies, analyses of spatial population structure and effective population size, and the estimation of genetic diversity can potentially be addressed with DNA pooling. Aspects of marker development, such as the screening of many loci for polymorphisms and for sex linkage (Lee et al 2004), should be amenable to DNA pooling. The possibility of pooling certain tissues directly, such as pooling eggs, blood samples, or groups of larvae, also merits consideration.…”

Section: Experiments 1-variance Componentsmentioning

confidence: 99%

“…Increasing the number of loci in a study typically improves the performance of statistical procedures (e.g., Weir and Cockerham 1984;Waples 1989), and genomewide analyses of microsatellite loci will require many loci (e.g., Lee et al 2004). However, increasing the number of loci also increases laboratory costs, sometimes prohibitively.…”

mentioning

confidence: 99%

“…Quantitative genetic studies in human and agricultural systems have sought to find an association between a trait and a marker by pooling DNA from individuals that share a common phenotype and/or ancestry, a technique sometimes called ''bulked segregant analysis.'' Methods for comparing microsatellite DNA pools among experimental populations vary from more qualitative approaches such as counting alleles (Hillel et al 2003) or comparing measures of relative fluorescence intensity (Daniels et al 1998;Moritz et al 2003;Lee et al 2004) to more quantitative approaches such as attempting to estimate allele frequencies within a pool (Perlin et al 1995;Barcellos et al 1997;Band and Ron 1998;Lipkin et al 1998Lipkin et al , 2002Rutyer-Spira et al 1998;Kirov et al 2000;Mosig et al 2001;Schnack et al 2004). More generally, DNA pooling might be applied in any genetic study relying on allele frequency estimation, including marker screening and association mapping, analyses of population differentiation, and analyses of effective population size.…”

mentioning

confidence: 99%

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Evaluation of DNA Pooling for the Estimation of Microsatellite Allele Frequencies: A Case Study Using Striped Bass (Morone saxatilis)

et al. 2006

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Using striped bass (Morone saxatilis) and six multiplexed microsatellite markers, we evaluated procedures for estimating allele frequencies by pooling DNA from multiple individuals, a method suggested as cost-effective relative to individual genotyping. Using moment-based estimators, we estimated allele frequencies in experimental DNA pools and found that the three primary laboratory steps, DNA quantitation and pooling, PCR amplification, and electrophoresis, accounted for 23, 48, and 29%, respectively, of the technical variance of estimates in pools containing DNA from 2-24 individuals. Exact allelefrequency estimates could be made for pools of sizes 2-8, depending on the locus, by using an integervalued estimator. Larger pools of size 12 and 24 tended to yield biased estimates; however, replicates of these estimates detected allele frequency differences among pools with different allelic compositions. We also derive an unbiased estimator of Hardy-Weinberg disequilibrium coefficients that uses multiple DNA pools and analyze the cost-efficiency of DNA pooling. DNA pooling yields the most potential cost savings when a large number of loci are employed using a large number of individuals, a situation becoming increasingly common as microsatellite loci are developed in increasing numbers of taxa.

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