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https://www.readbyqxmd.com/read/28336134/evaluation-of-matrix-assisted-laser-desorption-ionization-time-of-fight-mass-spectrometry-for-identification-of-345-clinical-isolates-of-aspergillus-species-from-11-korean-hospitals-comparison-with-molecular-identification
#1
Ju Heon Park, Jong Hee Shin, Min Ji Choi, Jin Un Choi, Yeon-Joon Park, Sook Jin Jang, Eun Jeong Won, Soo Hyun Kim, Seung Jung Kee, Myung Geun Shin, Soon Pal Suh
We evaluated the ability of the Filamentous Fungi Library 1.0 of the MALDI-TOF MS Biotyper system to identify 345 clinical Aspergillus isolates from 11 Korean hospitals. Compared with results of the internal transcribed spacer region sequencing, the frequencies of correct identification at the species-complex level were 94.5% and 98.8% with cutoff values of 2.0 and 1.7, respectively. Compared with results of β-tubulin gene sequencing, the frequencies of correct identification at the species level were 96.0% (cutoff 2...
January 2017: Diagnostic Microbiology and Infectious Disease
https://www.readbyqxmd.com/read/28335716/human-mfap1-is-a-cryptic-ortholog-of-the-saccharomyces-cerevisiae-spp381-splicing-factor
#2
Alexander K C Ulrich, Markus C Wahl
BACKGROUND: Pre-mRNA splicing involves the stepwise assembly of a pre-catalytic spliceosome, followed by its catalytic activation, splicing catalysis and disassembly. Formation of the pre-catalytic spliceosomal B complex involves the incorporation of the U4/U6.U5 tri-snRNP and of a group of non-snRNP B-specific proteins. While in Saccharomyces cerevisiae the Prp38 and Snu23 proteins are recruited as components of the tri-snRNP, metazoan orthologs of Prp38 and Snu23 associate independently of the tri-snRNP as members of the B-specific proteins...
March 24, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28331802/molecular-epidemiology-and-pathology-of-spirorchiid-infection-in-green-sea-turtles-chelonia-mydas
#3
Phoebe A Chapman, Helen Owen, Mark Flint, Ricardo J Soares Magalhães, Rebecca J Traub, Thomas H Cribb, Myat T Kyaw-Tanner, Paul C Mills
Spirorchiid blood fluke infections affect endangered turtle populations globally, and are reported as a common cause of mortality in Queensland green sea turtles. Both the flukes and their ova are pathogenic and can contribute to the stranding or death of their host. Of particular interest are ova-associated brain lesions, which have been associated with host neurological deficits. Accurate estimations of disease frequency and the relative effect of infection relating to different spirorchiid species are made difficult by challenges in morphological identification of adults of some genera, and a lack of species-level identifying features for ova...
April 2017: International Journal for Parasitology. Parasites and Wildlife
https://www.readbyqxmd.com/read/28331599/species-distribution-modeling-and-molecular-markers-suggest-longitudinal-range-shifts-and-cryptic-northern-refugia-of-the-typical-calcareous-grassland-species-hippocrepis-comosa-horseshoe-vetch
#4
Martin Leipold, Simone Tausch, Peter Poschlod, Christoph Reisch
Calcareous grasslands belong to the most diverse, endangered habitats in Europe, but there is still insufficient information about the origin of the plant species related to these grasslands. In order to illuminate this question, we chose for our study the representative grassland species Hippocrepis comosa (Horseshoe vetch). Based on species distribution modeling and molecular markers, we identified the glacial refugia and the postglacial migration routes of the species to Central Europe. We clearly demonstrate that H...
March 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28331585/phylogenetics-and-biogeography-of-the-two-wing-flyingfish-exocoetidae-exocoetus
#5
Eric A Lewallen, Andrew J Bohonak, Carolina A Bonin, Andre J van Wijnen, Robert L Pitman, Nathan R Lovejoy
Two-wing flyingfish (Exocoetus spp.) are widely distributed, epipelagic, mid-trophic organisms that feed on zooplankton and are preyed upon by numerous predators (e.g., tunas, dolphinfish, tropical seabirds), yet an understanding of their speciation and systematics is lacking. As a model of epipelagic fish speciation and to investigate mechanisms that increase biodiversity, we studied the phylogeny and biogeography of Exocoetus, a highly abundant holoepipelagic fish taxon of the tropical open ocean. Morphological and molecular data were used to evaluate the phylogenetic relationships, species boundaries, and biogeographic patterns of the five putative Exocoetus species...
March 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28323834/selection-and-validation-of-reference-genes-for-qrt-pcr-analysis-during-biological-invasions-the-thermal-adaptability-of-bemisia-tabaci-med
#6
Tian-Mei Dai, Zhi-Chuang Lü, Wan-Xue Liu, Fang-Hao Wan
The Bemisia tabaci Mediterranean (MED) cryptic species has been rapidly invading to most parts of the world owing to its strong ecological adaptability, which is considered as a model insect for stress tolerance studies under rapidly changing environments. Selection of a suitable reference gene for quantitative stress-responsive gene expression analysis based on qRT-PCR is critical for elaborating the molecular mechanisms of thermotolerance. To obtain accurate and reliable normalization data in MED, eight candidate reference genes (β-act, GAPDH, β-tub, EF1-α, GST, 18S, RPL13A and α-tub) were examined under various thermal stresses for varied time periods by using geNorm, NormFinder and BestKeeper algorithms, respectively...
2017: PloS One
https://www.readbyqxmd.com/read/28318131/hydrologic-refugia-plants-and-climate-change
#7
REVIEW
Blair C McLaughlin, David D Ackerly, P Zion Klos, Jennifer Natali, Todd E Dawson, Sally E Thompson
Climate, physical landscapes, and biota interact to generate heterogeneous hydrologic conditions in space and over time, which are reflected in spatial patterns of species distributions. As these species distributions respond to rapid climate change, microrefugia may support local species persistence in the face of deteriorating climatic suitability. Recent focus on temperature as a determinant of microrefugia insufficiently accounts for the importance of hydrologic processes and changing water availability with changing climate...
March 20, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28317541/mating-type-genes-in-the-genus-neofusicoccum-mating-strategies-and-usefulness-in-species-delimitation
#8
Anabela Lopes, Alan J L Phillips, Artur Alves
The genus Neofusicoccum includes species with wide geographical and plant host distribution, some of them of economic importance. The genus currently comprises 27 species that are difficult to identify based on morphological features alone. Thus, species differentiation is based on phylogenetic species recognition using multigene genealogies. In this study, we characterised the mating type genes of Neofusicoccum species. Specific primers were designed to amplify and sequence MAT genes in several species and a PCR-based mating type diagnostic assay was developed...
April 2017: Fungal Biology
https://www.readbyqxmd.com/read/28317537/diversity-in-the-botryosphaeriales-looking-back-looking-forward
#9
REVIEW
Bernard Slippers, Pedro Willem Crous, Fahimeh Jami, Johannes Zacharias Groenewald, Michael John Wingfield
The Botryosphaeriales are amongst the most widespread, common and important fungal pathogens of woody plants. Many are also known to exist as endophytes in healthy plant tissues. This special issue highlights a number of key themes in the study of this group of fungi. In particular, there have been dramatic taxonomic changes over the past decade; from one family to nine (including two in this special issue) and from 10 to 33 genera known from culture. It is also clear from many studies that neither morphology nor single locus sequence data are sufficient to define taxa...
April 2017: Fungal Biology
https://www.readbyqxmd.com/read/28315859/heteromorphism-of-homomorphic-sex-chromosomes-in-two-anole-species-squamata-dactyloidae-revealed-by-synaptonemal-complex-analysis
#10
Artem P Lisachov, Vladimir A Trifonov, Massimo Giovannotti, Malcolm A Ferguson-Smith, Pavel M Borodin
Iguanians (Pleurodonta) are one of the reptile lineages that, like birds and mammals, have sex chromosomes of ancient origin. In most iguanians these are microchromosomes, making a distinction between the X and Y as well as between homeologous sex chromosomes in other species difficult. Meiotic chromosome analysis may be used to elucidate their differentiation, because meiotic prophase chromosomes are longer and less condensed than metaphase chromosomes, and the homologues are paired with each other, revealing minor heteromorphisms...
March 18, 2017: Cytogenetic and Genome Research
https://www.readbyqxmd.com/read/28296890/re-establishment-of-species-from-synonymies-based-on-dna-barcoding-and-phylogenetic-analysis-using-diplopterygium-simulans-gleicheniaceae-as-an-example
#11
Jiang-Ping Shu, Hui Shang, Dongmei Jin, Hong-Jin Wei, Xi-Le Zhou, Hong-Mei Liu, Yu-Feng Gu, Ying Wang, Fa-Guo Wang, Hui Shen, Rui Zhang, Bayu Adjie, Yue-Hong Yan
Because synonymy treatment traditionally relies on morphological judgments, it usually causes many problems in species delimitation and in the biodiversity catalogue. For example, Diplopterygium simulans, which belongs to the Gleicheniaceae family, has been considered to be synonymous with D. glaucum or D. giganteum based mainly on the morphology of its pinna rachis and blade. In the absence of molecular evidence, these revisions remain doubtful. DNA barcoding, which is considered to be a powerful method for species-level identification, was employed to assess the genetic distance among 9 members of the Diplopterygium genus...
2017: PloS One
https://www.readbyqxmd.com/read/28295812/hybridization-between-two-cryptic-filamentous-brown-seaweeds-along-the-shore-analysing-pre-and-post-zygotic-barriers-in-populations-of-individuals-with-varying-ploidy-levels
#12
Alejandro E Montecinos, Marie-Laure Guillemin, Lucia Couceiro, Akira F Peters, Solenn Stoeckel, Myriam Valero
We aimed to study the importance of hybridization between two cryptic species of the genus Ectocarpus, a group of filamentous algae with haploid-diploid life cycles that include the principal genetic model organism for the brown algae. In haploid-diploid species, the genetic structure of the two phases of the life cycle can be analysed separately in natural populations. Such life cycles provide a unique opportunity to estimate the frequency of hybrid genotypes in diploid sporophytes and meiotic recombinant genotypes in haploid gametophytes allowing the effects of reproductive barriers preventing fertilization or preventing meiosis to be untangle...
March 12, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28291600/evidence-of-multiple-species-of-chilodonella-protozoa-ciliophora-infecting-australian-farmed-freshwater-fishes
#13
Giana Bastos Gomes, Terrence L Miller, David B Vaughan, Dean R Jerry, Christina McCowan, Tracey L Bradley, Kate S Hutson
Parasitic Chilodonella species, Chilodonella piscicola and Chilodonella hexasticha, cause considerable economic losses globally to freshwater farmed fish production. Some genetic studies of Chilodonella spp. have indicated that many species within the genus may form cryptic species complexes. To understand the diversity of Chilodonella spp. infecting Australian freshwater farmed fish, specimens were isolated from infected barramundi (Lates calcarifer) and Murray cod (Maccullochella peelii) from fish farms in tropical north Queensland (QLD), temperate Victoria (Vic) and New South Wales (NSW) for genetic and morphological analysis...
March 6, 2017: Veterinary Parasitology
https://www.readbyqxmd.com/read/28286707/molecular-phylogenies-confirm-the-presence-of-two-cryptic-hemimycale-species-in-the-mediterranean-and-reveal-the-polyphyly-of-the-genera-crella-and-hemimycale-demospongiae-poecilosclerida
#14
Maria J Uriz, Leire Garate, Gemma Agell
BACKGROUND: Sponges are particularly prone to hiding cryptic species as their paradigmatic plasticity often favors species phenotypic convergence as a result of adaptation to similar habitat conditions. Hemimycale is a sponge genus (Family Hymedesmiidae, Order Poecilosclerida) with four formally described species, from which only Hemimycale columella has been recorded in the Atlanto-Mediterranean basin, on shallow to 80 m deep bottoms. Contrasting biological features between shallow and deep individuals of Hemimycale columella suggested larger genetic differences than those expected between sponge populations...
2017: PeerJ
https://www.readbyqxmd.com/read/28286223/historical-introgression-drives-pervasive-mitochondrial-admixture-between-two-species-of-pelagic-sharks
#15
Shannon Corrigan, Pierpaolo Maisano Delser, Corey Eddy, Clinton Duffy, Lei Yang, Chenhong Li, Adam L Bazinet, Stefano Mona, Gavin J P Naylor
We use a genomic sampling of both nuclear and mitochondrial DNA markers to examine a pattern of genetic admixture between Carcharhinus galapagensis (Galapagos sharks) and Carcharhinus obscurus (dusky sharks), two well-known and closely related sharks that have been recognized as valid species for more than 100years. We describe widespread mitochondrial-nuclear discordance in which these species are readily distinguishable based on 2152 nuclear single nucleotide polymorphisms from 910 independent autosomal regions, but show pervasive mitochondrial admixture...
March 10, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28281309/bayesian-species-identification-under-the-multispecies-coalescent-provides-significant-improvements-to-dna-barcoding-analyses
#16
Ziheng Yang, Bruce Rannala
DNA barcoding methods use a single locus (usually the mitochondrial COI gene) to assign unidentified specimens to known species in a library based on a genetic distance threshold that distinguishes between-species divergence from within-species diversity. Recently developed species delimitation methods based on the multispecies coalescent (MSC) model offer an alternative approach to individual assignment using either single-locus or multi-loci sequence data. Here we use simulations to demonstrate three features of an MSC method implemented in the program bpp...
March 9, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28279810/madagascar-sheds-new-light-on-the-molecular-systematics-and-biogeography-of-grammitid-ferns-new-unexpected-lineages-and-numerous-long-distance-dispersal-events
#17
Lucie Bauret, Myriam Gaudeul, Michael A Sundue, Barbara S Parris, Tom A Ranker, France Rakotondrainibe, Sabine Hennequin, Jaona Ranaivo, Marc-André Selosse, Germinal Rouhan
Based on a worldwide phylogenetic framework filling the taxonomic gap of Madagascar and surrounding islands of the Western Indian Ocean (WIO), we revisited the systematics of grammitid fern species (Polypodiaceae). We also investigated the biogeographic origin of the extant diversity in Madagascar and estimated the relative influence of vicariance, long-distance dispersals (LDD) and in situ diversification. Phylogenetic inferences were based on five plastid DNA regions (atpB, rbcL, rps4-trnS, trnG-trnR, trnL-trnF) and the most comprehensive taxonomic sampling ever assembled (224 species belonging to 31 out of 33 recognized grammitids genera)...
March 6, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28279191/effectiveness-of-autodissemination-stations-containing-pyriproxyfen-in-reducing-immature-aedes-albopictus-populations
#18
Isik Unlu, Devi S Suman, Yi Wang, Kim Klingler, Ary Faraji, Randy Gaugler
BACKGROUND: Aedes albopictus, the Asian tiger mosquito, is an aggressive, highly anthropophilic, day-biting mosquito with an expanding geographic range. Suppression of Ae. albopictus is difficult because of the abundance and prevalence of larval habitats within peridomestic environments, particularly cryptic habitats such as corrugated extension spouts, fence post openings, discarded food containers, etc. Because of the challenges of eliminating or treating larval habitats of this species, we tested an autodissemination concept to contaminate these habitats with the insect growth regulator pyriproxyfen...
March 9, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28278695/dna-barcoding-and-genetic-diversity-analyses-of-fishes-of-kaladan-river-of-indo-myanmar-biodiversity-hotspot
#19
Anindya Sundar Barman, Mamta Singh, Pramod Kumar Pandey
Species are considered as a fundamental unit of biodiversity. Therefore, the prerequisite for biodiversity management and conservation is to know the number of species one is dealing with. Consequently, the need of the present study was conceptualized, which dealt with the comprehensive molecular appraisal of Kaladan's Fish fauna. A total of 291 specimens representing 49 species, 28 genera, 11 families, and 4 orders, were collected from 11 sampling stations situated along the main Kaladan River and its four major tributaries, i...
February 16, 2017: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://www.readbyqxmd.com/read/28274285/intra-and-interspecific-genetic-diversity-of-new-zealand-hairworms-nematomorpha
#20
Zachary J C Tobias, Arun K Yadav, Andreas Schmidt-Rhaesa, Robert Poulin
Hairworms (Nematomorpha) are a little-known group of parasites, and despite having been represented in the taxonomic literature for over a century, the implementation of molecular genetics in studies of hairworm ecology and evolution lags behind that of other parasitic taxa. In this study, we characterize the genetic diversity of the New Zealand nematomorph fauna and test for genetic structure within the most widespread species found. We provide new mitochondrial and nuclear ribosomal sequence data for three previously described species from New Zealand: Gordius paranensis, Parachordodes diblastus and Euchordodes nigromaculatus...
March 9, 2017: Parasitology
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