Characteristics of single- and multi-copy microsatellites from Pinus radiata

Fisher, P. J.; Richardson, Thomas E.; Gardner, Richard C.

doi:10.1007/s001220050828

Cited by 80 publications

(66 citation statements)

References 37 publications

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“…Unfortunately, the sampling design of the study prevents any inference about the origin of mutations (somatic or germline) as well as their rate of occurrence. Moreover, each of the novel alleles observed by Fisher et al (1998) was at least four repeat units different from the parental allele, and thus contradicts the expectation that mutations at microsatellite loci should involve single repeat unit changes following slippage during DNA replication (Ellegren, 2000;Schlö tterer, 2000). Such hypermutable microsatellite loci seem to be the exception rather than the rule, since mutations have never been reported in any other study conducted in P. strobus (eg Echt et al, 1996), in other pine species (eg Smith and Devey, 1994;Hicks et al, 1998;Elsik et al, 2000), and in conifers in general (eg Ven et al, 1996;Pfeiffer et al, 1997;Khasa et al, 2000;Hodgetts et al, 2001;Rajora et al, 2001).…”

Section: Discussionmentioning

confidence: 99%

“…For instance, in two separate studies of three-generation pedigrees in pine, no mutations were observed (Elsik et al, 2000;Smith and Devey, 1994). One possible exception is the study conducted by Fisher et al (1998), who reported the appearance of nonparental alleles at a single nuclear microsatellite locus in 6% of the progeny and megagametophytes from P. radiata crosses. Unfortunately, the sampling design of the study prevents any inference about the origin of mutations (somatic or germline) as well as their rate of occurrence.…”

Section: Discussionmentioning

confidence: 99%

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Somatic stability of microsatellite loci in Eastern white pine, Pinus strobus L.

et al. 2003

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Variation at nuclear-and chloroplast-encoded microsatellite loci was studied among and within clonally propagated individuals of Eastern white pine. Total DNA was extracted and assayed from gamete-bearing tissue (megagametophytes) located on six different branch positions on each of 12 individual genets. No within-individual variation was observed among 12 loci studied. Estimates of numbers of mitotic cell divisions required to produce the tissue used as the source of genomic DNA were obtained by combining tree growth and anatomical data. This allowed for the calculation of upper bound estimates of numbers of mutations per locus per somatic cell division. The estimated somatic mutation rate was found to be substantially lower than those published for genomic microsatellite mutation rates in other plant species.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Somatic stability of microsatellite loci in Eastern white pine, Pinus strobus L.

et al. 2003

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“…Microsatellite markers' null alleles were frequently observed in coniferous tree species with reported withinpopulation frequencies as high as 35% (Pinus radiata : Fisher et al, 1998;Cryptomeria japonica: Moriguchi et al, 2003;Picea abies: Yazdani et al, 2003). Null alleles also varied among populations within species indicating that their presence is population-specific rather than species-pandemic .…”

Section: Microsatellite Loci Mode Of Inheritancementioning

confidence: 99%

Pedigree and mating system analyses in a western larch (Larix occidentalis Nutt.) experimental population

et al. 2008

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. Pedigree and mating system analyses in a western larch (Larix occidentalis Nutt.) experimental population. Annals of Forest Science, Springer Verlag/EDP Sciences, 2008, 65 (7), pp.1. Ann. For. Sci. 65 (2008) Abstract•The mating pattern and gene flow in a western larch (Larix occidentalis Nutt.) experimental population was studied with the aid of microsatellite markers and a combination of paternity-mating system analysis. The commonly difficult to assess, male gametic contribution was determined with 95% confidence and its impact on genetic gain and diversity was determined.• Male fertility success rate ranged between 0 and 11%. Male reproductive output parental imbalance was observed with 50% of the pollen being produced by the top 5% of males while the lower 39% males only produced 10% of the pollen.• A significant difference was observed between male effective population size (genetic diversity) estimates from paternity assignment compared to those based on population's census number (21 vs. 41); however, this difference did not affect estimates of genetic gain.• A total of 221 full-fib families were identified (sample size range: 1-8) and were nested among the studied 14 seed-donors.• A combination of paternity-mating system analysis is recommended to provide a better insight into seed orchards' mating dynamics. While pollen flow tends to inflate mating system's outcrossing rate, the paternity analysis effectively determined the rate and magnitude of contamination across receptive females. • Le taux de succès reproductif mâle était compris entre 0 et 11 %. Un déséquilibre dans la contribution des parents mâles a été observé avec la production de 50 % du pollen par 5 % des pères alors que 39 % d'entre eux ne contribuaient que pour seulement 10 % du pollen. Mots-clés• Une différence significative a été observée entre la taille efficace de la population mâle (diversité génétique) estimée par la recherche de paternité et celle basée sur les effectifs recensés de la population (21 vs. 41) ; cependant, cette différence n'affecte pas l'estimation du gain génétique.• 221 familles de plein-frères ont été identifiées (effectifs entre 1 et 8), regroupées parmi les 14 arbresmères étudiés.• La combinaison d'une analyse de paternité et du système de reproduction est recommandée pour étudier de manière approfondie la dynamique de croisement en vergers à graines. Tandis que les flux de pollen tendent à augmenter le taux d'inter-croisements, l'analyse de paternité détermine de manière effective le taux et l'amplitude de contamination des arbres-mères.

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“…The highest transferability rates between species were observed within each tribe of the Araucaria genus: 77.3-100% and 81.3% within tribe Columbea (Araucaria) and Eutacta, respectively (Salgueiro et al, 2005 andScott et al, 2003). On the other hand, the genus Agathis (which originated during the late Jurassic/early Cretaceous) showed a higher degree of transferability (36.4% in our study, 45.5% in Scott 2004) compared to other families with lower divergence time: 22-35.3% in Quercus (Isagi and Suhandono, 1997;Steinkellner et al, 1997), 10.2% in Picea (Ven andMcNicol, 1996), 20% in Pinus (Fisher et al, 1998), 38.3% in Melaleuca (Rossetto et al, 2000 and 20% in Eucalyptus (Brondani et al, 1998).…”

Section: Discussionmentioning

confidence: 46%

Cross transferability of SSRs to five species of Araucariaceae: a useful tool for population genetic studies in Araucaria araucana

et al. 2011

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Cross-species amplification of microsatellites is a common procedure to obtain suitable markers to be used in population genetic studies. Primers designed for one (source) species are used to amplify homologous loci in related (target) species. It is expected that phylogenetically close species will share a higher proportion of markers, and genetic distance could be a useful parameter to predict successful transferability between different taxonomic groups.We analyzed twenty-two primer pairs developed for Araucaria angustifolia (Bertol.) Kuntze in five target species of the Araucariaceae family. The results were summarized in vectors of presence and absence of bands and compared through the Jaccard similarity index. Using the sequences of eight published genes, genetic distances between pairs of species were estimated and related to transferability rate using Pearson correlations.Successful transfer rate ranged from 31.8 to 77.3%, being these among the highest reported for plants. The highest transfer rate was observed between the South American species. The transferability was confirmed sequencing seven fragments amplified in A. araucana (Molina) K. Koch, and using the best five to estimate genetic diversity parameters in a natural population of this Andean coniferous.Key word: cross species amplification; pairwise genetic distance; conservation of microsatellite loci; Pehuén. ResumenTransferibilidad cruzada de microsatélites a cinco especies de Araucariaceae: una herramienta útil para estudios de genética de poblaciones en Araucaria araucana La transferencia de cebadores que amplifican loci microsatélites desde otras especies es una práctica habitual para obtener marcadores adecuados para estudios de genética poblacional. Los cebadores diseñados en una especie (fuente) son utilizados para amplificar loci homólogos en especies relacionadas (blanco). Se espera que especies cercanas filogenéticamente compartan un mayor número de marcadores y la distancia genética entre especies podría ser un parámetro útil para predecir el éxito de la transferencia entre diferentes grupos taxonómicos.Se analizó la transferencia de veintidós primers, desarrollados para Araucaria angustifolia (Bertol.) Kuntze, a cinco especies blanco de la familia Araucariaceae. Los resultados se resumieron en vectores de presencia y ausencia de bandas y fueron comparados a través del índice de similitud de Jaccard. Se estimaron las distancias genéticas de a pares entre las especies analizadas utilizando las secuencias de ocho genes, y se las relacionó con el índice de transferencia utilizando correlaciones de Pearson.El éxito de la transferencia varió entre 31,8 y 77,3%, encontrándose estos valores entre los más altos reportados en plantas. El mayor índice de transferencia se verificó entre las especies sudamericanas. La transferencia fue confirmada secuenciando siete fragmentos amplificados en Araucaria araucana (Molina) K. Koch, y utilizando los cinco mejores para estimar parámetros de diversidad genética en una población natural de esta...

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Characteristics of single- and multi-copy microsatellites from Pinus radiata

Cited by 80 publications

References 37 publications

Somatic stability of microsatellite loci in Eastern white pine, Pinus strobus L.

Somatic stability of microsatellite loci in Eastern white pine, Pinus strobus L.

Pedigree and mating system analyses in a western larch (Larix occidentalis Nutt.) experimental population

Cross transferability of SSRs to five species of Araucariaceae: a useful tool for population genetic studies in Araucaria araucana

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