Search results for "DNA barcoding"

DNA barcoding of the Mediterranean chondrichthyans (ELASMOMED)

2010

THE FINGERPRINT OF THE HUMAN GASTROINTESTINAL TRACT MICROBIOTA: A HYPOTHESIS OF MOLECULAR MAPPING

2017

The precise etiology of Inflammatory Bowel Disease (IDB) remains unclear and several factors are believed to play a role in its development and progression, including the composition of microbial communities resident in the gastrointestinal tract. Human intestinal microbiota are extensive with at least 15,000-36,000 bacterial species. However, thanks to the new development in sequencing and molecular taxonomic methodologies, our understanding of the microbiota population composition, dynamics, and ecology has greatly increased. Intestinal microbiota play a critical role in the maintenance of the host intestinal barrier homeostasis, while dysbiosis, which involves reduction in the microbiome…

Characterizing a hybrid zone between a cryptic species pair of freshwater snails.

2015

Characterizing hybrid zones and their dynamics is a central goal in evolutionary biology, but this is particularly challenging for morphologically cryptic species. The lack of conspicuous divergence between parental types means intermediate hybrid forms often go undetected. We aimed to detect and characterize a suspected hybrid zone between a pair of morphologically cryptic lineages of the freshwater snail, Radix. We sampled Radix from across a contact zone between two mitochondrial lineages (Radix balthica and an undescribed lineage termed 'MOTU3') and detected admixture between two nuclear genotype clusters, which were significantly but not categorically associated with the mitochondrial …

Morphological vs. molecular delineation of taxa across montane regions in Europe: the case study of Gammarus balcanicus Schäferna, (Crustacea: Amphip…

2014

Mountainous areas are characterized by substantial biodiversity and endemicity due to their complex geological history and habitat fragmentation. Hence, it can be assumed that particularly high species richness can be found in organisms with limited dispersal capabilities that inhabit mountain streams. A number of scientific papers focus on molecular phylogeography or traditional taxonomy of species or species groups inhabiting such habitats. However, there is a lack of studies that integrate morphological and molecular data to identify and delineate cryptic species. For practical reasons, uncovering cryptic diversity is crucial in taxa used in biomonitoring. Distinct species, hard to separ…

The parasitoid species complex associated with sexual and parthenogenetic Naryciinae (Lepidoptera: Psychidae): Integrating ecological and molecular a…

2011

This study describes the parasitoid species complex associated with seven closely related species of sexual (Siederia rupi- collella, S. listerella, Dahlica lazuri, D. charlottae and D. lichenella) and parthenogenetic (Dahlica fennicella and D. triquetrella) Naryciinae (Lepidoptera: Psychidae) in Central Finland. A thorough ecological analysis of all the species of parasitoids recorded was combined with analyses of molecular data. Mitochondrial and nuclear DNA data were obtained from all the species in order to (1) detect cryptic species associated with host specialization, (2) assign undescribed males to females, and (3) verify the morphological identification of closely related species. A…

<p><strong>Description and DNA barcoding of <em>Ochetostethomorpha</em> <em>secunda</em>, a new species of the So…

2014

Ochetostethomorpha secunda sp. nov. from Namibia, the second species of the South African endemic genus is described, illustrated, and compared with O. nollothensis Schumacher, 1913. The new species is the third of the subfamily Sehirinae known from Namibia. Moreover, a DNA barcode sequence was generated for this new species (827 bp of cytochrome oxidase I) and was deposited in GenBank.

The enigmatic case of the genus Argyresthia in the Azores Islands (Lepidoptera Argyresthiidae)

2020

The species composition of the genus Argyresthia Hübner, 1825 in the Azores is examined. Argyresthia brumella, sp. nov., is described and illustrated from Terceira and Flores Islands. Argyresthia minusculella Rebel, 1940, syn. nov. and Tinea poecilella Rebel, 1940, syn. nov. are synonymized with Argyresthia atlanticella Rebel, 1940. The high variability of A. atlanticella is revealed through the polymorphic wing pattern and the intraspecific genetic divergence of the DNA barcode COI in the specimens examined.  

Dichrorampha dinarica, new species, a century of confusion in European lepidopterology (Lepidoptera: Tortricidae) resolved by combining morphology an…

2012

Dichrorampha dinarica, new species, is described from the Dinaric mountains (Macedonia, Bosnia and Herzegovina). The newspecies was formerly confused with D. ligulana (Herrich-Schäffer, 1851) from the Alps and D. rilana Drenowsky, 1909 fromthe Rila mountains (Bulgaria). Therefore, a re-description of D. rilana is provided based on topotypical specimens. The diag-nostic morphological characters of the involved species, supported by significant divergence of the mtDNA barcode (COI fragment of 658 bp), are discussed in detail.

Application of an inexpensive and high-throughput genomic DNA extraction method for the molecular ecology of zooplanktonic diapausing eggs

2008

We describe the application of a simple, low-cost, and effective method of DNA extraction (hot sodium hydroxide and Tris, HotSHOT) to the diapausing propagules of continental aquatic invertebrates for its use in PCR amplification. We illustrate the use of the technique in cladocerans, rotifers, anostracans, notostracans, and copepod diapausing eggs. We compare the performance of the HotSHOT technique to the currently most widely used method for DNA extraction of zooplankton eggs and individuals, the chelating resin (or Chelex) technique. The HotSHOT technique overcomes several of the problems posed by Chelex and permits easy optimization for its use with 96-well plates for high-throughput D…

Confrontation of cryptic diversity and mate discrimination within Gammarus pulex and Gammarus fossarum species complexes.

2014

16 pages; International audience; Freshwater amphipods Gammarus fossarum and Gammarus pulex are widespread in Europe, with some evidence of cryptic diversity in the former. We used DNA barcoding to assess genetic diversity within and among amphipod populations and examined mate discrimination and pre-copulatory pair formation between genetically divergent individuals. Eight distinct G. fossarum and four distinct G. pulex molecular operational taxonomic units (MOTUs) were detected. Among the 33 amphipod populations sampled, 11 contained a single MOTU, 11 had two and 11 were composed of three sympatric MOTUs. Genetic divergences between sympatric MOTUs (G. fossarum and G. pulex MOTUs combined…