Permanent Genetic Resources added to Molecular Ecology Resources Database 1 April 2010 – 31 May 2010

Abelló, Pere; Ai, Weiming; Altmann, Carolin; Bernardi, Giacomo; Bonato, Olivier; Burchhardt, Kathleen M.; Xiao, Chen; Chen, Zhijian; Čížková, Dagmar; Clouet, Cécile; Cubeta, Marc A.; Garcia-Merchan, Vh; Gauthier, Nathalie; Gibson, Shane; Halačka, Karel; Hamdi, Faten; Hankeln, Thomas; Hochkirch, Axel; Hrbek, Tomas; Jackson, Andrew; Lin, Chongwen; Lin, Si Min; Macpherson, Enrique; Macrander, Jason; Marešová, Eva; Mendel, Jan; Nowak, Małgorzata; Ortı́, Guillermo; Palero, Ferran; Papoušek, Ivo; Pascual, Marta; Schmitt, Thomas; Semmens, Brice X.; Streito, J. C.; Tian, En Wei; Tseng, Shu Ping; Veith, Michael; Vetešník, Lukáš; Wang, Hurng‐Yi; Weyer, Jessica; Willis, Stuart C.; Yu, Hui; Zhou, Zhiming

doi:10.1111/j.1755-0998.2010.02898.x

Cited by 60 publications

(17 citation statements)

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“…For each plant, leaf material was desiccated in the field with silica gel, and DNA was later extracted using a DNeasy® Plant mini kit (Qiagen, Hilden, Germany). Individuals were genotyped for 13 polymorphic microsatellite loci–namely P2G7, P1A9, P2E3, P2H10, P2G6, P2G11, P2G2, P2E12, P2D1, P1B10, P2E2, P2G4 [26], plus a new locus P2G8 (F: 5′-CAGCCGAGAGAGTGTGTGAG-3′, R: 5′-GACCATGCTGTCGGAATTTT-3′) designed during this study. PCR multiplexes with fluorescently labelled primers were performed as in [26].…”

Section: Methodsmentioning

confidence: 99%

“…Individuals were genotyped for 13 polymorphic microsatellite loci–namely P2G7, P1A9, P2E3, P2H10, P2G6, P2G11, P2G2, P2E12, P2D1, P1B10, P2E2, P2G4 [26], plus a new locus P2G8 (F: 5′-CAGCCGAGAGAGTGTGTGAG-3′, R: 5′-GACCATGCTGTCGGAATTTT-3′) designed during this study. PCR multiplexes with fluorescently labelled primers were performed as in [26]. PCR fragments were resolved by capillary electrophoresis on an automated sequencer ABI Prism 3100 Genetic Analyzer (Applied Biosystems).…”

Section: Methodsmentioning

confidence: 99%

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Evidence for Isolation-by-Habitat among Populations of an Epiphytic Orchid Species on a Small Oceanic Island

et al. 2014

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Identifying factors that promote population differentiation is of interest for understanding the early stages of speciation. Gene flow among populations inhabiting different environments can be reduced by geographical distance (isolation-by-distance) or by divergent selection resulting from local adaptation (isolation-by-ecology). Few studies have investigated the influence of these factors in small oceanic islands where the influence of geographic distance is expected to be null but where habitat diversity could have a strong effect on population differentiation. In this study, we tested for the spatial divergence of phenotypes (floral morphology and floral scent) and genotypes (microsatellites) among ten populations of Jumellea rossii, an epiphytic orchid endemic to Réunion growing in three different habitats. We found a significant genetic differentiation between populations that is structured by habitat heterogeneity rather than by geographic distance between populations. These results suggest that ecological factors might reduce gene flow among populations located in different habitats. This pattern of isolation-by-habitat may be the result of both isolation-by-ecology by habitat filtering and asynchrony in flowering phenology. Furthermore, data on floral morphology match these findings, with multivariate analysis grouping populations by habitat type but could be only due to phenotypic plasticity. Indeed floral scent compounds were not significantly different between populations indicating that specific plant-pollinator mutualism does not seem to play a major role in the population differentiation of J. rossii. In conclusion, the results from our study emphasize the importance of habitat diversity of small oceanic islands as a factor of population differentiation.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Evidence for Isolation-by-Habitat among Populations of an Epiphytic Orchid Species on a Small Oceanic Island

et al. 2014

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“…We amplified seven dinucleotide-repeat polymorphic microsatellite loci that we previously designed for D. mawii ( Dm3A-32, Dm3A-37, Dm3A-58, Dm3A-13, Dm3A-17, Dm3A-72, Dm3A-42 ) [27], and an eighth, GP96 , that was designed for Gopherus polyphemus but cross-amplifies in other turtle species [28]. The forward primers were fluorescently labeled (HEX or FAM).…”

Section: Methodsmentioning

confidence: 99%

Cryptic Population Structuring and the Role of the Isthmus of Tehuantepec as a Gene Flow Barrier in the Critically Endangered Central American River Turtle

et al. 2013

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The critically endangered Central American River Turtle (Dermatemys mawii) is the only remaining member of the Dermatemydidae family, yet little is known about its population structuring. In a previous study of mitochondrial (mt) DNA in the species, three main lineages were described. One lineage (Central) was dominant across most of the range, while two other lineages were restricted to Papaloapan (PAP; isolated by the Isthmus of Tehuantepec and the Sierra de Santa Marta) or the south-eastern part of the range (1D). Here we provide data from seven polymorphic microsatellite loci and the R35 intron to re-evaluate these findings using DNA from the nuclear genome. Based on a slightly expanded data set of a total of 253 samples from the same localities, we find that mtDNA and nuclear DNA markers yield a highly congruent picture of the evolutionary history and population structuring of D. mawii. While resolution provided by the R35 intron (sequenced for a subset of the samples) was very limited, the microsatellite data revealed pronounced population structuring. Within the Grijalva-Usumacinta drainage basin, however, many populations separated by more than 300 kilometers showed signals of high gene flow. Across the entire range, neither mitochondrial nor nuclear DNA show a significant isolation-by-distance pattern, but both genomes highlight that the D. mawii population in the Papaloapan basin is genetically distinctive. Further, both marker systems detect unique genomic signals in four individuals with mtDNA clade 1D sampled on the southeast edge of the Grijalva-Usumacinta basin. These individuals may represent a separate cryptic taxon that is likely impacted by recent admixture.

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“…For the analysis of transferability, we used 51 SSR markers (Tab. S3 in supplementary material) developed for Piper solmsianum (19) (Yoshida et al 2014), P. cordulatum (12) (Andree et al 2010), P. nigrum (9) (Menezes et al 2009), and P. polysyphonum (11) (Liao et al 2009). One DNA sample per species was used for the transferability analysis.…”

Section: Molecular Analysismentioning

confidence: 99%

“…SSR (Simple Sequence Repeats, or microsatellites) markers are available for some species of Piper of economic interest and importance for the food industry, such as P. nigrum, or of ecological interest, such as P. polysyphonum, P. cordulatum and P. solmsianum (Liao et al 2009;Menezes et al 2009;Andree et al 2010;Yoshida et al 2014). Due to their polymorphism, SSR markers have been used as an auxiliary tool to discriminate taxa by DNA fingerprinting (Duminil & Michele 2009;Nybom et al 2014) and are used in plant breeding for variety and cultivar selection (Arruda et al 2003;López-Olmos et al 2005).…”

Section: Introductionmentioning

confidence: 99%

DNA fingerprinting based on SSR amplification profiles for Piper species identification (Piperaceae)

et al. 2018

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DNA fingerprinting based on SSR amplification profiles was applied to native species of Piper from the Atlantic Forest to compare the utility of this type of molecular marker with the morphological characters traditionally applied in Piper taxonomy and identification. Fifty-one SSR markers developed for four species of Piper native to Asia and Mesoamerica were applied to 16 species, together with 63 morphological characters, for species characterization. Molecular and morphological data were analysed by cluster analysis, followed by a cluster sharpness test and the construction of a heat map to visualize the association of characters with species groups. A multivariate regression tree determined the number of loci needed for species identification. Forty-five primers were transferable to at least four species. Molecular data were more efficient in detecting sharp groups than morphological data. Species groups delimited by a set of shared morphological characters were differentiated based on molecular data. The sixteen studied species could be separated by nine primers, demonstrating the cross-species transferability of SSR markers and the usefulness of DNA fingerprinting for both the delimitation and the identification of species of Piper.

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Permanent Genetic Resources added to Molecular Ecology Resources Database 1 April 2010 – 31 May 2010

Cited by 60 publications

References 0 publications

Evidence for Isolation-by-Habitat among Populations of an Epiphytic Orchid Species on a Small Oceanic Island

Evidence for Isolation-by-Habitat among Populations of an Epiphytic Orchid Species on a Small Oceanic Island

Cryptic Population Structuring and the Role of the Isthmus of Tehuantepec as a Gene Flow Barrier in the Critically Endangered Central American River Turtle

DNA fingerprinting based on SSR amplification profiles for Piper species identification (Piperaceae)

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