Moderately and Highly Polymorphic Microsatellites Provide Discordant Estimates of Population Divergence in Sockeye Salmon, Oncorhynchus nerka

Olsen, Jeffrey B.; Habicht, Chris; Reynolds, Joel H.; Seeb, James E.

doi:10.1023/b:ebfi.0000022872.84261.09

Cited by 35 publications

(39 citation statements)

References 21 publications

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“…Ironically, the loci most preferred for paternity studies (i.e., those with many alleles) might be less useful in revealing population-level effects, such as degree of relatedness (Olsen et al 2004, O'Reilly et al 2004, Carreras-Carbonell et al 2006. It seems likely that increasing the number of loci analyzed increases the probability of including loci sensitive to particular patterns of variation, and in the absence of knowledge of the utility of loci for particular analyses, this alone is a reason why the use of few loci is inappropriate.…”

Section: Discussionmentioning

confidence: 99%

“…Indeed, a number of studies have made it clear that attempts to estimate overall genomic heterozygosity (i.e., the level of inbreeding) by analyzing the heterozygosity of a relatively small number of microsatellite loci is likely to be inaccurate and misleading (Balloux et al 2004, Slate et al 2004, DeWoody and DeWoody 2005, Hansson and Westerberg 2008. Genotypic effects may also be examined through population-level measures such as relatedness or rarity within the population, but these measures are also sensitive to the number (Koskinen et al 2004) and even the types (Carreras-Carbonell et al 2006, Liu et al 2005, Olsen et al 2004, O'Reilly et al 2004) of loci used.…”

Section: Las Conclusiones Dependen De Los Loci Microsatélites Empleadosmentioning

confidence: 99%

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“Compatible Alleles“ and Extra-Pair Paternity: Conclusions Depend on the Microsatellite Loci Used

Masters¹,

Johnson²,

Johnson³

et al. 2009

Condor

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Section: Discussionmentioning

confidence: 99%

Section: Las Conclusiones Dependen De Los Loci Microsatélites Empleadosmentioning

confidence: 99%

“Compatible Alleles“ and Extra-Pair Paternity: Conclusions Depend on the Microsatellite Loci Used

Masters¹,

Johnson²,

Johnson³

et al. 2009

Condor

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“…A highly variable locus is defined as one with more than 25 alleles, greater than 85% heterozygosity, greater than 92% expected heterozygosity, or greater than 84% mean within population heterozygosity (H s ) (Selkoe & Toonen 2006;Beck et al 2003;Olsen et al 2004). Low to moderate polymorphism in a locus is defined as less than 60% mean H s (Olsen et al 2004).…”

Section: Application Of Hypervariable Locimentioning

confidence: 99%

“…Low to moderate polymorphism in a locus is defined as less than 60% mean H s (Olsen et al 2004). Highly variable loci have more power to distinguish close relatives and to assign individuals to a source population than less variable loci, but F ST estimates may likewise be dampened due to a high occurrence of allele homoplasy or higher heterozygosity (Selkoe & Toonen 2006;Olsen et al 2004). Loci of similar heterozygosity should be grouped in analyses in order to limit the negative correlation between F ST and heterozygosity (Selkoe & Toonen 2006;Olsen et al 2004).…”

Section: Application Of Hypervariable Locimentioning

confidence: 99%

“…Highly variable loci have more power to distinguish close relatives and to assign individuals to a source population than less variable loci, but F ST estimates may likewise be dampened due to a high occurrence of allele homoplasy or higher heterozygosity (Selkoe & Toonen 2006;Olsen et al 2004). Loci of similar heterozygosity should be grouped in analyses in order to limit the negative correlation between F ST and heterozygosity (Selkoe & Toonen 2006;Olsen et al 2004). Moreover, it is recommended to use F ST of binned alleles or R ST estimates to infer population genetic structure when F ST appears underestimated by highly polymorphic loci (Olsen et al 2004;Buonaccorsi et al 2001).…”

Section: Application Of Hypervariable Locimentioning

confidence: 99%

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Spatial and temporal population genetics at deep-sea hydrothermal vents along the East Pacific Rise and Galapagos Rift

Fusaro¹

2008

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Ecological processes at deep-sea hydrothermal vents on fast-spreading mid-ocean ridges are punctuated by frequent physical disturbance. Larval dispersal among disjunct vent sites facilitates the persistence of sessile invertebrate species in these geologically and chemically dynamic habitats despite local extinction events. Regional population extension and rapid recolonization by the siboglinid tubeworm Riftia pachyptila have been well documented along the East Pacific Rise and the Galápagos Rift. To analyze spatial and temporal population genetic patterns and the processes governing them at ephemeral and disjunct habitats, a suite of 12 highly variable microsatellite DNA markers were developed for this species. Eight of these loci were used to assess the regional and within-ridge genetic structure of recent colonists and resident adults collected from nine sites in the eastern Pacific Ocean over period of three to seven years. A significant seafloor eruption during the seven-year sampling period allowed investigation into the role of local extinction in population genetic diversity at the Tica vent site at 9˚N EPR, while collections within two and five years of an eruption that created the Rosebud vent field at 86˚W GAR provided insights into genetic diversity input over population establishment.For the first time, this thesis demonstrated significant genetic differences between Riftia populations on the East Pacific Rise and Galápagos Rift. Moreover, the separate treatment of colonist and resident subpopulations revealed a high potential for local larval retention at vent sites. This mechanism for recruitment likely sustains disjunct populations and supports the recolonization of locally extinct areas after disturbance events, while episodic long-distance dispersal maintains genetic coherence of the species. Temporal population genetic consideration at the Tica site on the East Pacific Rise suggests that the 2005-2006 seafloor eruption had little to no discernable effect on local population genetic composition. Yet local populations appear to exhibit a small degree of 3 genetic patchiness, with a high degree of relatedness (half-sibs) among subsets of individuals within both colonist and resident cohorts. This thesis broadens the application of recently developed molecular techniques to study the effect of ridge-crest processes and offers new perspectives into marine dispersal, gene flow, and population differentiation.Thesis Supervisor:

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Introduction to genetics of subpolar fish and invertebrates

Gharrett

Keller

Gustafson

et al. 2004

Genetics of Subpolar Fish and Invertebrates

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Moderately and Highly Polymorphic Microsatellites Provide Discordant Estimates of Population Divergence in Sockeye Salmon, Oncorhynchus nerka

Cited by 35 publications

References 21 publications

“Compatible Alleles“ and Extra-Pair Paternity: Conclusions Depend on the Microsatellite Loci Used

“Compatible Alleles“ and Extra-Pair Paternity: Conclusions Depend on the Microsatellite Loci Used

Spatial and temporal population genetics at deep-sea hydrothermal vents along the East Pacific Rise and Galapagos Rift

Introduction to genetics of subpolar fish and invertebrates

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