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Enrichment Protocol (enrichment + protocol)
Selected AbstractsIsolation and description of eight polymorphic microsatellite loci for the winged-kelp Alaria nanaMOLECULAR ECOLOGY RESOURCES, Issue 5 2009JULIE D. COLLENSArticle first published online: 1 APR 200 Abstract Here I report on the isolation of eight microsatellites from the winged-kelp, Alaria nana, using an enrichment protocol. Using 55 individuals from Tatoosh, WA and complete data at all loci, loci displayed 6,11 alleles with observed and expected heterozygosities of 0.396,0.754, and 0.769,0.872 respectively. Using an isolated, randomly breeding subset, six of the eight loci were determined to be in Hardy,Weinberg equilibrium. These markers will be useful in assessing population structure in the intertidal and inferring patterns of dispersal. [source] Development of nine microsatellite markers for Pomacentrus amboinensisMOLECULAR ECOLOGY RESOURCES, Issue 6 2008DAVID B. JONES Abstract The relatively long pelagic larval duration of Pomacentrus amboinensis, a tropical fish, suggests the potential for long-distance dispersal; however, several nongenetic studies have found substantial self-recruitment at one location. To analyse patterns of connectivity of this species, primers for nine independent microsatellite loci were developed for P. amboinensis using a magnetic bead enrichment protocol. Twenty individuals from one location were analysed and observed heterozygosities ranged from 0.7 to 0.95. Eight of nine loci were in Hardy,Weinberg equilibrium and no evidence of linkage or null alleles were found. [source] Microsatellite markers for the red band needle blight pathogen, Dothistroma septosporumMOLECULAR ECOLOGY RESOURCES, Issue 5 2008I BARNES Abstract Twelve microsatellite markers were developed for population analyses of the fungal pathogen, Dothistroma septosporum. Intersimple sequence repeat polymerase chain reaction (ISSR-PCR) and an enrichment protocol (fast isolation by amplified fragment length polymorphism of sequences containing repeats [FIASCO]) were both used to identify 28 unique microsatellite regions in the genome. From 22 primer pairs designed, 12 were polymorphic. These markers, screened on two populations representing 42 isolates, produced 40 alleles across all loci with an allelic diversity of 0.09,0.76 per locus. Cross-species amplification showed variable success with Dothistroma rhabdoclinis and Mycosphaerella dearnessi and some sequence variation within isolates of Dothistroma pini. These markers will be used to further study the population structure and diversity of D. septosporum. [source] Isolation and characterization of polymorphic microsatellite markers from Asian malaria mosquito Anopheles sinensis (Diptera: Culicidae)MOLECULAR ECOLOGY RESOURCES, Issue 5 2008YAJUN MA Abstract Microsatellite-containing region were isolated and characterized in Anopheles sinensis, a primary vector of malaria parasites in Asia. An enrichment protocol yielded 252 microsatellite sequences. We designed primers to amplify 20 unique microsatellites, 14 of which amplify cleanly and were polymorphic. A survey of 24 individuals showed that 12 loci are highly variable with the number of alleles ranging from two to 11, and expected heterozygosity ranging from 0.116 to 0.903. These markers will be useful for population genetic studies and genome mapping in A. sinensis. [source] Isolation and characterization of microsatellite markers from the marine isopods Serolis paradoxa and Septemserolis septemcarinata (Crustacea: Peracarida)MOLECULAR ECOLOGY RESOURCES, Issue 4 2008FLORIAN LEESE Abstract This study reports the successful isolation of highly informative microsatellite marker sets for two marine serolid isopod species. For Serolis paradoxa (Fabricius, 1775), 13, and for Septemserolis septemcarinata (Miers, 1875), eight polymorphic microsatellite markers were isolated using the reporter genome enrichment protocol. The number of alleles per locus (NA) and the observed heterozygosity (HO) encompass a wide range of variation within S. paradoxa (NA 3,31, HO 6,89%) and S. septemcarinata (NA 2,18, HO 9,94%). The suitability of the newly isolated markers for population genetic studies is evaluated. [source] PERMANENT GENETIC RESOURCES: Development and characterization of 14 polymorphic microsatellite loci in the endangered tree Euptelea pleiospermum (Eupteleaceae)MOLECULAR ECOLOGY RESOURCES, Issue 2 2008J. ZHANG Abstract Fourteen polymorphic microsatellite loci were developed and characterized for the endangered and tertiary relict tree, Euptelea pleiospermum. A genomic DNA enrichment protocol was used to isolate microsatellite loci and polymorphism was explored using 32 individuals from one natural population. The observed number of alleles ranged from two to nine. The ranges of observed and expected heterozygosities were 0.25,1.00 and 0.22,0.85, respectively. These microsatellite markers provide powerful tools for the ongoing conservation genetic studies of E. pleiospermum. [source] PERMANENT GENETIC RESOURCES: Characterization of eight microsatellite loci in the woolly mouse opossum, Micoureus paraguayanus, isolated from Micoureus demeraraeMOLECULAR ECOLOGY RESOURCES, Issue 2 2008I. M. G. DIAS Abstract Eight novel microsatellite markers were isolated from the woolly mouse opossum from the Amazon Forest in Peru, Micoureus demerarae, using a partial genomic DNA library and an enrichment protocol. These loci were polymorphic in M. demerarae and Micoureus paraguayanus populations from the Atlantic Forest in Brazil with the number of alleles ranging from two to 23. Those eight loci plus another five already described for M. paraguayanus will allow for the evaluation of genetic diversity of populations from the ,Rio Doce' Park, one of the last Atlantic Forest fragments in Minas Gerais state, Brazil. [source] Polymorphic microsatellite markers for studies of the conservation and reproductive genetics of imperilled sand tiger sharks (Carcharias taurus)MOLECULAR ECOLOGY RESOURCES, Issue 6 2007KEVIN A. FELDHEIM Abstract We report on the isolation of eight microsatellites from the sand tiger shark, Carcharias taurus, using an enrichment protocol. All loci, with the exception of Cta45,183, were in Hardy,Weinberg equilibrium. Loci exhibited three to 15 alleles, and observed and expected heterozygosities of 0.095,1.000 and 0.284,0.924, respectively. An additional marker (Iox-12) developed from a shortfin mako library was variable in sand tigers. These markers will be used to examine population genetics and mating patterns of this imperilled species. [source] PRIMER NOTE: A set of polymorphic microsatellite loci for the bay scallop, Argopecten irradiansMOLECULAR ECOLOGY RESOURCES, Issue 3 2007HONGJUN LI Abstract The method of creating enriched microsatellite libraries can supply an abundant source of microsatellite sequences at a considerably reduced cost. Here we report the development of 15 polymorphic microsatellite loci from the bay scallop, Argopecten irradians, using enrichment protocol. Polymorphism was assessed in a sample of hatchery population (n = 38) revealing three to seven alleles per locus. The expected and observed heterozygosities ranged from 0.198 to 0.813 and from 0.083 to 0.833, respectively. These markers will be useful for genetic variation monitoring and parentage analysis. [source] Microsatellite loci in the Propertius duskywing, Erynnis propertius (Lepidoptera: Hesperiidae), and related speciesMOLECULAR ECOLOGY RESOURCES, Issue 2 2007EVGUENI V. ZAKHAROV Abstract Fifteen polymorphic dinucleotide microsatellite loci were characterized for Erynnis propertius using an enrichment protocol. The number of alleles varied from nine to 28 for a sample of 24 individuals. Observed heterozygosities ranged from 0.25 to 0.96. Homozygote excess was detected for 10 loci. Twelve markers successfully amplified in related Erynnis species and eight loci were polymorphic in at least one other species. [source] Development and characterization of eight new microsatellite markers for the haremic sandperch, Parapercis cylindrica (family Pinguipedidae)MOLECULAR ECOLOGY RESOURCES, Issue 4 2006C. SMITH-KEUNE Abstract Eight di-, tri- and tetranucleotide microsatellite markers were developed for the haremic sandperch Parapercis cylindrica using a linker-ligated, magnetic bead enrichment protocol. Screening of at least 17 individuals showed these markers to be polymorphic with observed heterozygosity ranging from 0.381 to 1.000 (mean = 0.742) and the numbers of alleles ranging from three to 18. The average polymorphic information content for these eight loci was 0.723. These markers may be used for parentage studies aimed at exploring the complex mating strategies employed by this haremic coral reef fish and will be valuable for population genetic studies. [source] Development and characterization of novel tetra- and dinucleotide microsatellite markers for the French Polynesia black-lipped pearl oyster, Pinctada margaritiferaMOLECULAR ECOLOGY RESOURCES, Issue 1 2006C. M. HERBINGER Abstract Ten microsatellite loci were developed for the black-lipped pearl oyster Pinctada margaritifera with a magnetic bead enrichment protocol. These tetra- and dinucleotide markers were polymorphic, with 10 to 43 alleles observed in 97 individuals from two Tuamotu atoll populations. Most loci revealed significant genic differentiation between the two populations and also exhibited some degree of heterozygote deficiencies, probably due to the presence of null alleles. These loci should be very useful to describe genetic structure, genetic variability and reproductive success in the various aquaculture and wild populations of pearl oyster in French Polynesia. [source] Isolation and characterization of microsatellite loci in the codling moth Cydia pomonella L. (Lepidoptera, Tortricidae)MOLECULAR ECOLOGY RESOURCES, Issue 1 2005PIERRE FRANCK Abstract Twenty-four microsatellite markers were isolated using an enrichment protocol in Cydia pomonella, the major Lepidopteran pest in apple orchards. Twenty-two loci turned out to be polymorphic (four to 23 alleles per loci). Only four of these loci cross-amplified and are potentially polymorphic in some other Tortricid pests such as Cydia molesta, Cydia lobarzewsky and Lobesia botrana. The description of these 24 loci makes microsatellite-based population genetic studies feasible in C. pomonella. [source] Novel microsatellite markers for Bactris gasipaes (Palmae)MOLECULAR ECOLOGY RESOURCES, Issue 4 2004D. P. RODRIGUES Abstract Ten new polymorphic microsatellites were isolated and characterized in Bactris gasipaes using a microsatellite enrichment protocol and selective hybridization with oligonucleotide probes. The loci are highly polymorphic, with a mean of 14.6 alleles per locus and a mean expected heterozygosity of 0.83 among 62 individuals of the Pampa Hermosa landrace. These microsatellites will be useful for population genetic analysis and germplasm characterization for heart-of-palm breeding. [source] Characterization of microsatellite loci in the spruce bark beetle Ips typographus (Coleoptera: Scolytinae)MOLECULAR ECOLOGY RESOURCES, Issue 3 2003A. Sallé Abstract Ips typographus is an economically important pest of Norway spruce stands. We developed five polymorphic microsatellite markers using a biotin enrichment protocol. The number of alleles ranged from three to 11 per locus and no strong evidence for null alleles was found. Heterozygosity ranged from 0.3 to 0.97. These markers could be useful tools to study the population structure and genetic consequences of I. typographus population outbreaks. [source] Isolation and characterization of dinucleotide microsatellite loci in communally breeding Guira cuckoos (Aves: Cuculidae)MOLECULAR ECOLOGY RESOURCES, Issue 2 2003L. S. B. Muniz Abstract Guira cuckoos (Guira guira) are communal nesting birds endemic to South America that show high levels of conflict between members of the group over the contribution to the clutch. Adults eject eggs and even nestlings from the communal nest, sometimes leading to the loss of the entire brood. We developed seven polymorphic microsatellites for Guira cuckoos using an enrichment protocol. The number of alleles ranged from 5 to 14 (mean 9.86) and the heterozygosity ranged from 0.41 to 0.89 for the eight to 88 individuals screened. These loci will allow parentage assignments and population analysis in this species. [source] Isolation and characterization of polymorphic microsatellites in the Trinidadian guppy (Poecilia reticulata)MOLECULAR ECOLOGY RESOURCES, Issue 4 2002S. A. Becher Abstract We isolated microsatellite loci for the Trinidadian guppy Poecilia reticulata from the Oropuche and Caroni drainages in Trinidad, using a modified enrichment protocol that provided 93% enriched libraries. The eight loci presented here are polymorphic, and have between seven and 18 alleles in 33,48 individuals initially screened. Observed heterozygosities in this sample range from 0.28 to 0.88. These loci significantly increase the number of polymorphic microsatellite markers available for paternity and population analysis in this species. [source] Isolation of eight polymorphic microsatellite loci, using an enrichment protocol, in the phytopathogenic fungus Fusarium culmorumMOLECULAR ECOLOGY RESOURCES, Issue 2 2002T. Giraud Abstract We report the development of eight microsatellite markers in the haploid filamentous fungus Fusarium culmorum, a pathogen of numerous cereal crops. An enrichment protocol was used to isolate microsatellite loci, and polymorphism was explored with isolates of Fusarium culmorum and F. graminearum from natural populations collected from several French locations. [source] Dinucleotide microsatellite loci isolated from flowering dogwood (Cornus florida L.)MOLECULAR ECOLOGY RESOURCES, Issue 2 2002Paul R. Cabe Abstract We report eight variable dinucleotide microsatellite loci cloned from flowering dogwood (Cornus florida L.) using a biotin enrichment protocol. Degenerate oligonucleotide primer-polymerase chain reaction (DOP-PCR) was used to generate a population of DNA fragments, from which adenine-cytosine dinucleotide (AC) and adenine-guanine dinucleotide (AG) repeats were captured using biotinylated probes and streptavidin coated magnetic particles. The captured fragments were cloned into plasmids, and the plasmid library was screened for microsatellites using a simple PCR technique. Selected plasmids were sequenced, and PCR primers were designed and optimized using a thermal-gradient thermocycler. The loci reported are highly variable with an average of 9.25 allele per locus and an average heterozygosity of 0.84. [source] Selective separation and enrichment of peptides for MS analysis using the microspheres composed of Fe3O4@nSiO2 core and perpendicularly aligned mesoporous SiO2 shellPROTEINS: STRUCTURE, FUNCTION AND BIOINFORMATICS, Issue 5 2010Hemei Chen Abstract In this work, we report the development of a novel enrichment protocol for peptides by using the microspheres composed of Fe3O4@nSiO2 Core and perpendicularly aligned mesoporous SiO2 shell (designated Fe3O4@nSiO2@mSiO2). The Fe3O4@nSiO2@mSiO2 microspheres possess useful magnetic responsivity which makes the process of enrichment fast and convenient. The highly ordered nanoscale pores (2,nm) and high-surface areas of the microspheres were demonstrated to have good size-exclusion effect for the adsorption of peptides. An increase of S/N ratio over 100 times could be achieved by using the microspheres to enrich a standard peptide, and the application of the microspheres to enrich universal peptides was performed by using myoglobin tryptic digest solution. The enrichment efficiency of re-used Fe3O4@nSiO2@mSiO2 microspheres was also studied. Large-scale enrichment of endogenous peptides in rat brain extract was achieved by the microspheres. Automated nano-LC-ESI-MS/MS was applied to analyze the sample after enrichment, and 60 unique peptides were identified in total. The facile and low-cost synthesis as well as the convenient and efficient enrichment process of the novel Fe3O4@nSiO2@mSiO2 microspheres makes it a promising candidate for selectively isolation and enrichment of endogenous peptides from complex biological samples. [source] Development and linkage relationships for new microsatellite markers of the sea bass (Dicentrarchus labrax L.)ANIMAL GENETICS, Issue 1 2004D. A. Chistiakov Summary Twenty-eight polymorphic microsatellites were isolated from the sea bass, Dicentrarchus labrax, using a microsatellite enrichment protocol and selective hybridization with oligonucleotide probes. Analysis for these markers and 11 recently described microsatellites of D. labrax found linkage between 26 loci and revealed eight linkage groups. [source] | ||||||||||