Isolation of nine novel tetranucleotide microsatellites in Atlantic herring (<i>Clupea harengus</i>)

McPherson, Arran A.; O’Reilly, P. T.; McParland, Tara L.; Jones, Matthew W.; Bentzen, Paul

doi:10.1046/j.1471-8278.2000.00012.x

Cited by 31 publications

(24 citation statements)

References 5 publications

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“…Year-class information, determined by age using the number (Cha1027, Cha1020, Cha1059, Cha1202, Cha1017, Cha1045, Cpa108, Cpa113, and Cpa102) were amplified via polymerase chain reaction (PCR). Amplification, electrophoresis conditions, and general locus descriptions for the Cha and Cpa loci are provided in McPherson et al (2001a) and Olsen et al (2002), respectively. DNA fragments were visualized with an FMBIO II fluorescent imaging system (Hitachi).…”

Section: Methodsmentioning

confidence: 99%

Genetic Differentiation, Temporal Stability, and the Absence of Isolation by Distance among Atlantic Herring Populations

McPherson

O’Reilly

Taggart

2004

Transactions of the American Fisheries Society

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Abstract.-The genetic variation among 17 spawning groups of Atlantic herring Clupea harengus was assessed at several temporal and spatial scales using nine tetranucleotide microsatellites. PanAtlantic samples were drawn from the Scotian Shelf, the Celtic Sea, the Baltic Sea, and coastal Iceland. Significant differentiation was observed between northeastern and northwestern Atlantic herring (F ST ϳ 0.065) and among northwestern Atlantic spawning groups (max F ST ϭ 0.014) at the spatial scale of the Scotian Shelf. Geographic distance among Scotian Shelf collections did not explain the pattern of genetic differentiation observed (e.g., lack of isolation by distance). The temporal proximity of collections (as measured by days between collections) explained 30% of the pairwise population differentiation (P ϭ 0.0025). Allele frequencies of replicate samples and year-class analyses demonstrate temporal stability at four locations.

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Section: Methodsmentioning

confidence: 99%

Genetic Differentiation, Temporal Stability, and the Absence of Isolation by Distance among Atlantic Herring Populations

McPherson

O’Reilly

Taggart

2004

Transactions of the American Fisheries Society

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“…This approach was improved by Diniz et al (2007) and McPherson et al (2001), and finally our protocol followed the double-hybridization method as outlined in Winkler & Weiss (2008), including all details of adaptor and probe design.…”

Section: Genetic Markersmentioning

confidence: 99%

Genetic evaluation of the self-sustaining status of a population of the endangered Danube salmon, Hucho hucho

Weiss

Schenekar

2016

Hydrobiologia

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A new multiplex microsatellite protocol was developed for population screening of the endangered Danube salmon (or huchen) Hucho hucho. Allelic variation was screened at five newly cloned and four previously published loci in 246 samples to help evaluate the self-sustaining status of an urban population of huchen in the framework of a controversial environmental assessment in the Mur River, Austria. The loci revealed 78 alleles (mean = 8.6), and in the Mur River an average expected heterozygosity of 0.668. We inferred that the huchen population in and around the city of Graz is self-sustaining based on the following evidence, which includes both genetic and non-genetic sources of information: (1) there is little to no current stocking; (2) presence of juvenile huchen in multiple year classes; (3) sighting of spawning events; (4) documentation of 14 spawning redds; (5) no deviation from Hardy-Weinberg equilibrium; and (6) limited number of recaptures or parental matches with presumed parent fish of stocking operations. We discuss the potential application of such an analysis in evaluating threatened huchen populations throughout their native distribution.

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“…Nine microsatellite loci, Cha1017, Cha1020, Cha1027, Cha1202 (McPherson et al, 2001), Cpa101, Cpa111, Cpa113, Cpa114 and Cpa112 (Olsen et al, 2002), were amplified and genotyped using a BaseStation (MJ Research, MJ Research, Skovlunde, Denmark, Denmark) and Pharmacia ALF express (Amersham Pharmacia, Uppsala, Sweden) automated sequencers. Scoring consistency among runs and platforms was ensured by analyzing two heterozygote control individuals spanning the anticipated allelic ranges on all gels, in addition to internal and external size ladders.…”

Section: Genetic Analysesmentioning

confidence: 99%

Detecting population structure in a high gene-flow species, Atlantic herring (Clupea harengus): direct, simultaneous evaluation of neutral vs putatively selected loci

et al. 2010

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In many marine fish species, genetic population structure is typically weak because populations are large, evolutionarily young and have a high potential for gene flow. We tested whether genetic markers influenced by natural selection are more efficient than the presumed neutral genetic markers to detect population structure in Atlantic herring (Clupea harengus), a migratory pelagic species with large effective population sizes. We compared the spatial and temporal patterns of divergence and statistical power of three traditional genetic marker types, microsatellites, allozymes and mitochondrial DNA, with one microsatellite locus, Cpa112, previously shown to be influenced by divergent selection associated with salinity, and one locus located in the major histocompatibility complex class IIA (MHC-IIA) gene, using the same individuals across analyses. Samples were collected in 2002 and 2003 at two locations in the North Sea, one location in the Skagerrak and one location in the low-saline Baltic Sea. Levels of divergence for putatively neutral markers were generally low, with the exception of single outlier locus/sample combinations; microsatellites were the most statistically powerful markers under neutral expectations. We found no evidence of selection acting on the MHC locus. Cpa112, however, was highly divergent in the Baltic samples. Simulations addressing the statistical power for detecting population divergence showed that when using Cpa112 alone, compared with using eight presumed neutral microsatellite loci, sample sizes could be reduced by up to a tenth while still retaining high statistical power. Our results show that the loci influenced by selection can serve as powerful markers for detecting population structure in high gene-flow marine fish species.

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Isolation of nine novel tetranucleotide microsatellites in Atlantic herring (Clupea harengus)

Cited by 31 publications

References 5 publications

Genetic Differentiation, Temporal Stability, and the Absence of Isolation by Distance among Atlantic Herring Populations

Genetic Differentiation, Temporal Stability, and the Absence of Isolation by Distance among Atlantic Herring Populations

Genetic evaluation of the self-sustaining status of a population of the endangered Danube salmon, Hucho hucho

Detecting population structure in a high gene-flow species, Atlantic herring (Clupea harengus): direct, simultaneous evaluation of neutral vs putatively selected loci

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