Search results for " barcoding"
showing 10 items of 85 documents
An exhaustive phylogeny of the combtooth blenny genus Salaria (Pisces, Blenniidae) shows introgressive hybridization and lack of reciprocal mtDNA mon…
2019
A comprehensive phylogeny of the genus Salaria based on mitochondrial and nuclear markers grouped the extant species of the genus in well-characterised marine and freshwater clades, thus rejecting the hypothesis of a polytypic origin of the freshwater Salaria populations and supporting the occurrence of a single invasion event of the inland waters by the genus. Based on both mitochondrial and nuclear DNA datasets, the Salaria species of the freshwater clade proved to be vicariant taxa originating from a common ancestor which could possibly spread throughout the circum-Mediterranean inland waters during the late Miocene Messinian salinity crisis, then experiencing a process of allopatric dif…
Improved sampling at the subspecies level solves a taxonomic dilemma – A case study of two enigmatic Chinese tit species (Aves, Passeriformes, Parida…
2017
Abstract A recent full species-level phylogeny of tits, titmice and chickadees (Paridae) has placed the Chinese endemic black-bibbed tit (Poecile hypermelaenus) as the sister to the Palearctic willow tit (P. montanus). Because this sister-group relationship is in striking disagreement with the traditional affiliation of P. hypermelaenus close to the marsh tit (P. palustris) we tested this phylogenetic hypothesis in a multi-locus analysis with an extended taxon sampling including sixteen subspecies of willow tits and marsh tits. As a taxonomic reference we included type specimens in our analysis. The molecular genetic study was complemented with an analysis of biometric data obtained from mu…
Italian Odonates in the Pandora’s Box: A Comprehensive DNA Barcoding Inventory Shows Taxonomic Warnings at the Holarctic Scale
2020
AbstractThe Odonata are considered among the most endangered freshwater faunal taxa. Their DNA-based monitoring relies on validated reference datasets that are often lacking or do not cover important biogeographical centres of diversification. This study presents the results of a DNA barcoding campaign on Odonata, based on the standard 658 bp 5’ end region of the mitochondrial COI gene, involving the collection of 812 specimens (409 of which barcoded) from peninsular Italy and its main islands (328 localities), belonging to all the 88 species (31 Zygoptera and 57 Anisoptera) known from the country. Additional BOLD and GenBank data from Holarctic samples expanded the dataset to 1294 DNA barc…
Molecular and morphological diversity ofTrebouxiamicroalgae in sphaerothallioidCircinariaspp. lichens1
2018
Three vagrant (Circinaria hispida, Circinaria gyrosa, and Circinaria sp. 'paramerae') and one crustose (semi-vagrant, Circinaria sp. 'oromediterranea') lichens growing in very continental areas in the Iberian Peninsula were selected to study the phycobiont diversity. Mycobiont identification was checked using nrITS DNA barcoding: Circinaria sp. 'oromediterranea' and Circinaria sp. 'paramerae' formed a new clade. Phycobiont diversity was analyzed in 50 thalli of Circinaria spp. using nrITS DNA and LSU rDNA, with microalgae coexistence being found in all the species analyzed by Sanger sequencing. The survey of phycobiont diversity showed up to four different Trebouxia spp. as the primary phyc…
First Descriptions of Larva and Pupa of Bagous claudicans Boheman, 1845 (Curculionidae, Bagoinae) and Systematic Position of the Species Based on Mol…
2019
In this paper, the mature larva and pupa of Bagous claudicans are described and illustrated for the first time. Measurements of younger larval instars are also given. The biology of the species is discussed in association with larval morphology and feeding habits. Overall larval and pupal morphological characters of the genus Bagous are presented. Confirmation of the larva identification as Bagous claudicans species was conducted by cytochrome oxidase I (COI) sequencing. DNA barcoding was useful for specimen identification of larval stages. The systematic position of the species within the Bagous collignensis-group, based on morphological and molecular results, is also discussed.
DNA barcoding the phyllosoma of Scyllarides squammosus (H. Milne Edwards, 1837) (Decapoda: Achelata: Scyllaridae)
2016
Scyllarides has the largest number of species with commercial importance within the Scyllaridae family. As for other achelate lobsters, however, little is known of the unique long-lived planktonic phyllosoma stages of any of these tropical and temperate species. Recently, a large and diverse collection of Scyllaridae phyllosoma, compiled from cruises along the Coral Sea and spanning several years, has been analysed. Molecular evidence from DNA-barcoding and phylogenetic analyses is provided here on the identity of S. squammosus phyllosoma larvae, including stages that were previously undescribed or poorly known. As a consequence, the growth and morphological changes that occur during the mi…
Looking for Hidden Enemies of Metabarcoding: Species Composition, Habitat and Management Can Strongly Influence DNA Extraction while Examining Grassl…
2021
Despite the raising preoccupation, the critical question of how the plant community is composed belowground still remains unresolved, particularly for the conservation priority types of vegetation. The usefulness of metabarcoding analysis of the belowground parts of the plant community is subjected to a considerable bias, that often impedes detection of all species in a sample due to insufficient DNA quality or quantity. In the presented study we have attempted to find environmental factors that determine the amount and quality of DNA extracted from total plant tissue from above- and belowground samples (1,000 and 10,000 cm2). We analyzed the influence of land use intensity, soil properties…
Revision of the west african species of scyllarus fabricius, 1775 (Decapoda: Achelata: Scyllaridae), with the description of three phyllosoma stages …
2020
West African species of Scyllarus Fabricius, 1775 (Achelata, Scyllaridae) are poorly known, mostly due to the difficulties of sampling Eastern Atlantic tropical waters. Recent expeditions carried out by the Universidad de Cádiz and the Instituto Español de Oceanografía collected phyllosoma larvae from Cape Verde Islands (CVI) and fresh Scyllarus adults from continental West Africa. Larval stages VII, IX, and X (final stage) of S. caparti Holthuis, 1952 are analyzed using DNA barcoding methods and described for the first time. A comprehensive identification key is provided, summarizing our current knowledge on the phyllosomas of Scyllarus. Together with a revision of museum collections, the …
Improving the conservation of Mediterranean Chondrichthyans : the ELASMOMED DNA barcode reference library
2017
Cartilaginous fish are particularly vulnerable to anthropogenic stressors and environmental change because of their K-selected reproductive strategy. Accurate data from scientific surveys and landings are essential to assess conservation status and to develop robust protection and management plans. Currently available data are often incomplete or incorrect as a result of inaccurate species identifications, due to a high level of morphological stasis, especially among closely related taxa. Moreover, several diagnostic characters clearly visible in adult specimens are less evident in juveniles. Here we present results generated by the ELASMOMED Consortium, a regional network aiming to sample …
Re-description of Orchestia stephenseni Cecchini, 1928: designation of neotype and senior synonym to Orchestia constricta A. Costa, 1853 (Crustacea: …
2016
The beach flea Orchestia stephenseni was originally described by Cecchini (1928), and successively by Karaman (1973). The description of this species will be herein revised by focusing on the variation of the g nathopod 2 in males, as detected during its growth period. An analysis of DNA Barcoding was performed to support the assignment of the taxonomic species to five morphotypes. As the type specimen has not yet been designated, a neotype is assigned. The name of the species is here presented as a valid name as it satisfies the requirements of a Reversal of the Principle of Priority: Orchestia stephenseni takes precedence over the objective synonym Orchestia constricta A. Costa, 1853, in …