Search results for "genetic distance"
showing 10 items of 62 documents
A comparative analysis of genetic variation in rootstocks and scions of old olive trees – a window into the history of olive cultivation practices an…
2014
Background Past clonal propagation of olive trees is intimately linked to grafting. However, evidence on grafting in ancient trees is scarce, and not much is known about the source of plant material used for rootstocks. Here, the Simple Sequence Repeat (SSR) marker technique was used to study genetic diversity of rootstocks and scions in ancient olive trees from the Levant and its implications for past cultivation of olives. Leaf samples were collected from tree canopies (scions) and shoots growing from the trunk base (suckers). A total of 310 trees were sampled in 32 groves and analyzed with 14 SSR markers. Results In 82.7% of the trees in which both scion and suckers could be genotyped, t…
Body size increase in insular rodent populations: A role for predators?
2002
Insular mammalian populations living in areas of small size are often characterized by a drastic change in body mass compared to related continental populations or species. Generally, small mammals (less than 100 g) evolve into giant forms while large mammals (up to 100 g) evolve into dwarf forms. These changes, coupled with changes in other life, behavioural, physiological or demographic traits are referred to generally as the insular syndrome. We tested in this study the relative contribution of three factors - area of island, numbers of competitor species and number of predator species - to changes in body size of the woodmouse (Apodemus sylvaticus) in the Western Mediterranean Sea. Our …
Evaluation of HIV-1 integrase resistance emergence and evolution in patients treated with integrase inhibitors
2020
Abstract Objectives This study evaluated the emergence of mutations associated with integrase strand transfer inhibitors (INSTI) resistance (INSTI-RMs) and the integrase evolution in human immunodeficiency virus type 1 (HIV-1) infected patients treated with this drug class. Methods The emergence of INSTI-RMs and integrase evolution (estimated as genetic distance between integrase sequences under INSTI treatment and before INSTI treatment) were evaluated in 107 INSTI-naive patients (19 drug-naive and 88 drug-experienced) with two plasma genotypic resistance tests: one before INSTI treatment and one under INSTI treatment. A logistic regression analysis was performed to evaluate factors associ…
Major histocompatibility complex (MHC) class III genetics in two Amerindian tribes from southern Brazil: the Kaingang and the Guarani.
1997
Population genetic studies of the major histocompatibility complex (MHC) class III region, comprising C2, BF and C4 phenotypes, and molecular genetic data are rarely available for populations other than Caucasoids. We have investigated three Amerindian populations from Southern Brazil: 131 Kaingang from Ivaí (KIV), 111 Kaingang (KRC) and 100 Guarani (GRC) from Rio das Cobras. Extended MHC haplotypes were derived after standard C2, BF, C4 phenotyping and restriction fragment length polymorphism (RFLP) analysis with TaqI, together with HLA data published previously by segregation analysis. C2 and BF frequencies corresponded to other Amerindian populations. C4B*Q0 frequency was high in the GRC…
Intraspecific variation within Phlebotomus sergenti Parrot (1917) (Diptera: Psychodidae) based on mtDNA sequences in Islamic Republic of Iran.
2007
An intraspecific study on the morphological and molecular characteristics of Phlebotomus sergenti s.l., the main vector of Leishmania tropica, was performed on 28 Iranian populations from 11 provinces and a few samples from Greece, Morocco, Lebanon, Turkey, Pakistan, and Syria. Three morphotypes were identified as A, B and C, with some intermediate forms in the samples under investigation. Based on the number of setae and the width of basal lobe of coxite, differences between A and B morphotypes were highly significant. Excluding one unusual haplotype, sequence analysis of ∼439 bp of mtDNA (a fragment of cytochromeB gene, tRNA for serine gene, and a fragment of NADH1 gene) revealed a 6–7% g…
Historical biogeography in a linear system: genetic variation of Sea Rocket (Cakile maritima) and Sea Holly (Eryngium maritimum) along European coasts
2000
The exclusively coastal Cakile maritima and Eryngium maritimum represent a linear biogeographical system. Genetic variation among 25 individuals of C. maritima and 16 individuals of E. maritimum, from the coasts of Europe, North Africa and the Canary Islands, was analysed using random amplified polymorphic DNAs (RAPDs) and intersimple sequence repeats (ISSRs). Genetic distances (Dice) were calculated and used to investigate the correlation between genetic and geographical distances, to construct Neighbour Joining (NJ) trees, and to compare mean genetic distances between areas within and across species. Genetic distances and geographical distances measured along the coast are well correlated…
Allozyme Similarity in Two Morphologically Distinguishable Populations ofParacentrotus Lividus(Echinodermata) From Distinct Areas of the Mediterranea…
1998
Allozymes ofParacentrotus lividusfrom Palermo Gulf in the northern Sicilian coast (Italy) and from a small body-size population in the western Greek coast (Ionian Sea) were investigated by PAGE. Five of the twenty examined loci were polymorphic(AAT*, ADH*, ME*, PGI*andPGM*)over each population with a polymorphism value of 0–25. Average heterozygosity was equal to 0081 in the Sicilian sample and 0084 in the Greek. Deviations from Hardy-Weinberg equilibrium were significant inME*andPGI*loci (as calculated byy).Nei's (1978) genetic distance (D=0–0025) index described a close identity between the two samples. FSTvalue of polymorphic loci ranged from 0001 to 0029, its mean value (0–008) resultin…
Protein differences among the Mediterranean species of the genus Spicara.
1996
Protein electrophoresis (PAGE) was used to study the three morphologically different species of Spicara (S. flexuosa, S. maena, S. smaris). Of the 28 enzymatic and additional myogenic loci, five monomorphic loci (LDH-1*, G6PD-1*, PGI-1* and two PMMs*) were species-specific markers of S. smaris with respect to S. flexuosa and S. maena. Four of the 28 enzymatic loci were polymorphic (EST-1*, GLDH*, PEPD*, PGI-2*). Discriminating genetic markers were not identified between S. flexuosa and S. maena. Genetic distance (D) as calculated by Nei’s index (1978), between S. smaris v. S. maena and S. flexuosa showed a value, respectively of D=0·137 and 0·141. Between S. flexuosa and S. maena the value …
Mites of the genus Typhlodromus (Acari: Phytoseiidae) from Southern France: combined morphological and molecular approaches for species identification
2019
Mites of the family Phytoseiidae are important predators for biological control applications. They occur naturally in ecosystems but their overall distribution is not completely known. This study presents results of surveys carried out in the south of France. It proposes the use of a combination of morphological and molecular approaches for species diagnosis. Eighteen species of the genus Typhlodromus are reported from southern France, of which nine belong to Typhlodromus (Anthoseius) and nine to Typhlodromus (Typhlodromus). Eight of these species are new to the French fauna. The mitochondrial DNA CytB gene from 85 specimens (18 species) and the 12S rRNA gene from 30 specimens (9 species) w…
Statistical Validation of the Identification of Tuna Species: Bootstrap Analysis of Mitochondrial DNA Sequences
2002
Sequencing of the mitochondrial cytochrome b gene has been used to differentiate three tuna species: Thunnus albacares (yellowfin tuna), Thunnus obesus (bigeye tuna), and Katsuwonus pelamis (skipjack). A PCR amplified 528 bp fragment from 30 frozen samples and a 171 bp fragment from 26 canned samples of the three species were analyzed to determine the intraspecific variation and the positions with diagnostic value. Polymorphic sites between the species that did not present intraspecific variation were given a diagnostic value. The genetic distance between the sequences was calculated, and a phylogenetic tree was constructed, showing that the sequences belonging to the same species clustered…