Search results for "amplified fragment length polymorphism"

showing 10 items of 51 documents

A population genetic study of the endangered plant speciesLimonium dufourii(Plumbaginaceae) based on amplified fragment length polymorphism (AFLP)

1999

Limonium dufourii (Plumbaginaceae) is a triploid species with obligate apomictic reproduction and is endemic to the East Mediterranean coast of Spain, where it is present in only six populations, most of which have a very low number of individuals. Genetic variation and population structure in this species was studied using amplified fragment length polymorphisms (AFLPs) as markers, using the same individuals as in a previous study with random amplified polymorphic DNA (RAPD). Three different primers provided 252 bands of which 51 were polymorphic among the 152 individuals analysed. Those polymorphic bands were able to define 65 different phenotypes, of which all but two were present in onl…

Conservation geneticsGeneticseducation.field_of_studybiologyLimoniumPopulationfood and beveragesbiology.organism_classificationRAPDDNA profilingGenetic variationGeneticsAmplified fragment length polymorphismGenetic variabilityeducationEcology Evolution Behavior and SystematicsMolecular Ecology
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Phylogenetic relationships, evolutionary origin, taxonomic status, and genetic structure of the endangered local Lower Elbe river (Germany) endemic O…

2005

Abstract Oenanthe conioides is an endangered local endemic of the Lower Elbe river region in Germany where it is found in areas with freshwater tides. Internal transcribed spacer (ITS) and amplified fragment length polymorphism (AFLP) markers were used to investigate its phylogenetic relationships, evolutionary origin, taxonomic status, and genetic structure. Oe. conioides is most closely related to Oe. aquatica and Oe. fluviatilis, and cannot be distinguished from Oe. aquatica by ITS sequence variation. Oe. aquatica is found mainly in standing or slow-flowing freshwater habitats. The AFLP analysis indicated that Oe. conioides may constitute a monophyletic lineage nested within Oe. aquatica…

Conservation geneticseducation.field_of_studyEcologyEcologyPopulationZoologySmall population sizePlant ScienceBiologySubspeciesSympatric speciationGenetic structureGenetic variationAmplified fragment length polymorphismeducationEcology Evolution Behavior and SystematicsFlora - Morphology, Distribution, Functional Ecology of Plants
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Genotyping of Legionella pneumophila serogroup 1 strains isolated in Northern Sicily, Italy.

2008

During a three-year period, from April 2002 to May 2005, one hundred-forty-seven samples, taken from technical systems of water distribution at point of use, were repeatedly collected at six different sites in Northern Sicily and assayed for the presence of Legionella pneumophila serogroup 1 and serogroups 2 to 14. At the first samplings, the water distribution systems of all the sites were heavily contaminated, and disinfection treatments by the superheat and flush method were therefore performed. Treatments were always successful against L. pneumophila sg.1, but only in a few cases against all other serogroups. Eighty-six strains of L. pneumophila sg. 1, isolated from 26 of these samples,…

DNA BacterialDisinfectionMolecular EpidemiologySettore MED/07 - Microbiologia E Microbiologia ClinicaGenotypeCluster AnalysisFresh WaterSequence Analysis DNAAmplified Fragment Length Polymorphism AnalysisLegionella pneumophila Surveillance Water distribution system Molecular typing Amplified fragment length polymorphismSicilyBacterial Typing TechniquesLegionella pneumophila
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Genotypic characterization of Bradyrhizobium strains nodulating small Senegalese legumes by 16S-23S rRNA intergenic gene spacers and amplified fragme…

2000

ABSTRACT We examined the genotypic diversity of 64 Bradyrhizobium strains isolated from nodules from 27 native leguminous plant species in Senegal (West Africa) belonging to the genera Abrus , Alysicarpus , Bryaspis , Chamaecrista , Cassia , Crotalaria , Desmodium , Eriosema , Indigofera , Moghania , Rhynchosia , Sesbania , Tephrosia , and Zornia , which play an ecological role and have agronomic potential in arid regions. The strains were characterized by intergenic spacer (between 16S and 23S rRNA genes) PCR and restriction fragment length polymorphism (IGS PCR-RFLP) and amplified fragment length polymorphism (AFLP) fingerprinting analyses. Fifty-three reference strains of the different B…

DNA BacterialGenotypeTECHNIQUE RFLPBACTERIEBiologyDNA RibosomalPolymerase Chain ReactionApplied Microbiology and BiotechnologyBradyrhizobiumPlant MicrobiologyIntergenic regionRNA Ribosomal 16SGenotypeBotanyCluster AnalysisBradyrhizobiumSYMBIOSERibosomal DNA[SDV.EE]Life Sciences [q-bio]/Ecology environmentGeneticsPlants MedicinalEcologyFIXATION BIOLOGIQUE DE L'AZOTELEGUMINEUSEfood and beveragesFabaceaeRibosomal RNAbiology.organism_classificationDNA FingerprintingAmplified Ribosomal DNA Restriction AnalysisSenegalBacterial Typing TechniquesGENOTYPERNA Ribosomal 23S[SDV.EE] Life Sciences [q-bio]/Ecology environmentNODOSITE VEGETALEPOLYMORPHISME GENETIQUEDNA IntergenicAmplified fragment length polymorphismRestriction fragment length polymorphismANALYSE GENETIQUEPolymorphism Restriction Fragment LengthFood ScienceBiotechnology
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Vibrio gallaecicus sp. nov. isolated from cultured clams in north-western Spain.

2009

Abstract A group of three motile facultative anaerobic marine bacteria were isolated from cultured Manila clams (Ruditapes philippinarum) in Galicia, north-western Spain. The strains were characterized phenotypically and genotypically. Phylogenetic analysis of the 16S rRNA gene and four housekeeping genes, RNA polymerase α-chain (rpoA), RecA protein (recA), the α-subunit of bacterial ATP synthase (atpA) and the uridine monophosphate (UMP) kinase (pyrH), indicated that these strains were closely related to the Vibrio splendidus clade. The amplified fragment length polymorphism (AFLP) fingerprints, DNA–DNA hybridizations and phylogenies of the housekeeping and 16S rRNA gene sequences showed t…

DNA BacterialMolecular Sequence DataAquacultureApplied Microbiology and BiotechnologyMicrobiologyDNA RibosomalMicrobiologyBacterial ProteinsSpecies SpecificityPhylogeneticsVibrionaceaeRNA Ribosomal 16SAnimalsEcology Evolution Behavior and SystematicsPhylogenyVibrioPhylogenetic treebiologyNucleic Acid HybridizationGenes rRNASequence Analysis DNARibosomal RNAbiology.organism_classification16S ribosomal RNAVibrioHousekeeping geneBacterial Typing TechniquesBivalviaPhenotypeSpainSpectrometry Mass Matrix-Assisted Laser Desorption-IonizationAmplified fragment length polymorphismPolymorphism Restriction Fragment LengthSystematic and applied microbiology
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An AFLP clock for the absolute dating of shallow-time evolutionary history based on the intraspecific divergence of southwestern European alpine plan…

2009

The dating of recent events in the history of organisms needs divergence rates based on molecular fingerprint markers. Here, we used amplified fragment length polymorphisms (AFLPs) of three distantly related alpine plant species co-occurring in the Spanish Sierra Nevada, the Pyrenees and the southwestern Alps/Massif Central to establish divergence rates. Within each of these species (Gentiana alpina, Kernera saxatilis and Silene rupestris), we found that the degree of AFLP divergence (D(N72)) between mountain phylogroups was significantly correlated with their time of divergence (as inferred from palaeoclimatic/palynological data), indicating constant AFLP divergence rates. As these rates d…

DNA PlantAlpine plantPopulationCaryophyllaceaeIntraspecific competitionDivergenceEvolution MolecularSpecies SpecificityGeneticsVicarianceGentianaAmplified Fragment Length Polymorphism AnalysiseducationEcology Evolution Behavior and SystematicsEcosystemPhylogenyeducation.field_of_studybiologyModels GeneticEcologySequence Analysis DNAPlantsbiology.organism_classificationSilene rupestrisEuropeGenetics PopulationMinuartiaBrassicaceaeMutationRegression AnalysisAmplified fragment length polymorphismMolecular ecology
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Differential cycles of range contraction and expansion in European high mountain plants during the Late Quaternary: insights from Pritzelago alpina (…

2003

Nuclear DNA sequence variation of the internal transcribed spacer (ITS) and amplified fragment length polymorphisms (AFLPs) were used to illuminate the evolutionary history of Pritzelago alpina, a herbaceous perennial of (sub)alpine to nival habitats of the European high mountains. Maximum likelihood analysis of ITS sequences of P. alpina, Hornungia petraea and Hymenolobus procumbens (the 'Pritzelago alliance') resolved P. alpina and H. petraea as sister taxa. ITS divergence estimates support an origin for P. alpina in the Late Tertiary, while intraspecific diversification started in the Late Quaternary (0.4-0.9 million years ago). AFLP analysis of 76 individuals of P. alpina, representing …

DNA PlantPlant geneticsPopulationMolecular Sequence DataAnalysis of molecular varianceIntraspecific competitionGeneticsVicarianceCluster AnalysisInternal transcribed spacereducationEcology Evolution Behavior and SystematicsPhylogenyDNA Primerseducation.field_of_studyLikelihood FunctionsbiologyBase SequenceGeographyEcologyGenetic Variationbiology.organism_classificationDNA FingerprintingEuropeAnthyllis montanaBrassicaceaeAmplified fragment length polymorphismMolecular ecology
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2001

Eight strains of Taylorella equigenitalis were identified by a polymerase chain reaction using a primer pair specific to the 16S rDNA of T. equigenitalis. These eight strains were chosen because they had previously been shown to represent eight distinct genotypes by pulsed-field gel electrophoresis analysis after separate digestion of the genomic DNA with ApaI or NotI. The eight strains could be classified into six or seven types by random amplified polymorphic DNA analysis using different kinds of primers. Amplified rDNA restriction analysis after separate digestion with five restriction enzymes, including AluI and MboI, of the 1500 bp fragments of rDNA amplified by polymerase chain reacti…

Gel electrophoresisGeneticsGeneral VeterinarybiologyGeneral Medicinebiology.organism_classificationMolecular biologyAmplified Ribosomal DNA Restriction AnalysisRestriction enzymeTaylorella equigenitalisCleaved amplified polymorphic sequencePulsed-field gel electrophoresisAmplified fragment length polymorphismRestriction fragment length polymorphismVeterinary Research Communications
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Recolonization after habitat restoration leads to decreased genetic variation in populations of a terrestrial orchid.

2012

Colonization is crucial to habitat restoration projects that rely on the spontaneous regeneration of the original vegetation. However, as a previously declining plant species spreads again, the likelihood of founder effects increases through recurrent population founding and associated serial bottlenecks. We related Amplified Fragment Length Polymorphism markers genetic variation and fitness to colonization history for all extant populations of the outcrossing terrestrial orchid Dactylorhiza incarnata in an isolated coastal dune complex. Around 1970, D. incarnata suffered a severe bottleneck yet ultimately persisted and gradually spread throughout the spatially segregated dune slacks, aided…

Genetic MarkersConservation of Natural ResourcesModels StatisticalAmplified Fragment Length Polymorphism markersGenetic Variationgenetic diversitydune slacksFounder EffectassignmentGenetics Populationfounding eventsBelgiumrecolonizationDactylorhiza incarnataFSTFranceGenetic FitnessAmplified Fragment Length Polymorphism AnalysisOrchidaceaeEcosystemhabitat restorationMolecular ecology
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Isolation By Distance (IBD) signals in the deep-water rose shrimp Parapenaeus longirostris (Lucas, 1846) (Decapoda, Panaeidae) in the Mediterranean S…

2013

Abstract The identification of boundaries of genetic demes is one of the major goals for fishery management, and few Mediterranean commercial species have not been studied from a genetic point of view yet. The deep-water rose shrimp Parapenaeus longirostris (Lucas, 1846) is one of the most important components of commercial landings in Mediterranean, its fishery aspects have received much attention, regrettably without any concern for the genetic architecture of its populations. The population structure in the central and eastern Mediterranean Sea (captures from six Italian and two Greek landings) has been analysed on the basis of surveys carried out with mitochondrial and AFLP markers. Dat…

Genetic MarkersMediterranean climateSettore BIO/05 - ZoologiaAquatic ScienceOceanographyDNA MitochondrialPolymerase Chain ReactionRose shrimpMediterranean BasinMediterranean seaPenaeidaeMediterranean SeaAnimalsAmplified Fragment Length Polymorphism AnalysisPhylogenyIsolation by distancebiologyDecapodaEcologyGenetic VariationSequence Analysis DNAGeneral Medicinebiology.organism_classificationDNA FingerprintingPollutionFisheryParapenaeus longirostrisFisheries managementParapenaeus longirostris Isolation By Distance AFLP mtDNAMarine Environmental Research
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