Search results for "sequence"
showing 10 items of 4987 documents
Pleistocene Glaciations in Latvia
2011
Abstract During the Pleistocene the territory of Latvia was repeatedly overridden by Scandinavian ice sheets, at least from the Elsterian onwards. Extent limit of all glaciations was located far outside of Latvia. Due to vigorous erosion by subsequent glaciations the Pleistocene record is incomplete. Radiocarbon, cosmogenic nuclide and radiation exposure dating methods have been mainly used only for age determination of the upper part of the Pleistocene sequence. Decay of the Late Weichselian glaciation in Latvia is marked by five major ice-marginal zones
Nearshore, temperate, carbonate depositional systems (lower Tortonian, Agua Amarga Basin, southern Spain): implications for carbonate sequence strati…
1997
Abstract The bryozoan-rich lower Tortonian carbonates of the Agua Amarga Basin in southern Spain (Province of Almeria) provide an example of sediments formed in a nearshore, non-tropical depositional setting. Based on data derived from logging of sections and from field mapping, these lower Tortonian carbonates form a depositional sequence, which is subdivided into several depositional systems. A lowstand systems tract, which consists of volcaniclastic fan deltas and washover deposits, formed on the leeward side of a basement shoal which delimited the basin towards the south. A transgressive systems tract, which is characterised by a landward encroachment of deposits, is represented by subm…
Lowstand carbonates, highstand sandstones?
2003
The sedimentary facies, sediment dynamics and sequence architecture of modern high-energy shelves in the mid and high latitudes are largely governed by wave abrasion processes. Cool-water carbonates may form there, if the influx and/or net accretion of siliciclastics is kept at a minimum. Little dilution of the carbonate produced in situ is generally promoted by a wide "epicontinental" shelf, subdued topography of the adjacent mainland, the predominance of limestone outcrops, and an arid climate. The aforementioned requirements are rarely met, and thus will automatically lead to the formation of mixed siliciclastic-cool-water carbonates. Such an example is found in the Early to Mid-Miocene …
Ice age at the Middle–Late Jurassic transition?
2003
A detailed record of sea surface temperatures in the Northern Hemisphere based on migration of marine invertebrate fauna (ammonites) and isotopic thermometry (δ18O values of shark tooth enamel) indicates a severe cooling at the Middle–Late Jurassic transition (MLJT), about 160 Ma ago. The magnitude of refrigeration (1–3°C for lower middle latitudes) and its coincidence in time with an abrupt global-scale fall of sea level documented through sequence stratigraphy are both suggestive of continental ice formation at this time. Ice sheets may have developed over the high-latitude mountainous regions of Far-East Russia. The drastic cooling just post-dated the Middle–Late Callovian widespread dep…
Microbial succession of nitrate-reducing bacteria in the rhizosphere of Poa alpina across a glacier foreland in the Central Alps
2006
International audience; Changes in community structure and activity of the dissimilatory nitrate-reducing community were investigated across a glacier foreland in the Central Alps to gain insight into the successional pattern of this functional group and the driving environmental factors. Bulk soil and rhizosphere soil of Poa alpina was sampled in five replicates in August during the flowering stage and in September after the first snowfalls along a gradient from 25 to 129 years after deglaciation and at a reference site outside the glacier foreland (> 2000 years deglaciated). In a laboratory-based assay, nitrate reductase activity was determined colorimetrically after 24 h of anaerobic inc…
AMPA Receptor Auxiliary Proteins of the CKAMP Family
2019
α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors are assembled of four core subunits and several additional interacting proteins. Cystine-knot AMPA receptor-modulating proteins (CKAMPs) constitute a family of four proteins that influence the trafficking, subcellular localization and function of AMPA receptors. The four CKAMP family members CKAMP39/shisa8, CKAMP44/shisa9, CKAMP52/shisa6 and CKAMP59/shisa7 differ in their expression profile and their modulatory influence on AMPA receptor function. In this review, I report about recent findings on the differential roles of CKAMP family members.
CUDA-BLASTP: Accelerating BLASTP on CUDA-enabled graphics hardware
2011
Scanning protein sequence database is an often repeated task in computational biology and bioinformatics. However, scanning large protein databases, such as GenBank, with popular tools such as BLASTP requires long runtimes on sequential architectures. Due to the continuing rapid growth of sequence databases, there is a high demand to accelerate this task. In this paper, we demonstrate how GPUs, powered by the Compute Unified Device Architecture (CUDA), can be used as an efficient computational platform to accelerate the BLASTP algorithm. In order to exploit the GPU's capabilities for accelerating BLASTP, we have used a compressed deterministic finite state automaton for hit detection as wel…
Genetic Determinants in a Critical Domain of NS5A Correlate with Hepatocellular Carcinoma in Cirrhotic Patients Infected with HCV Genotype 1b
2021
HCV is an important cause of hepatocellular carcinoma (HCC). HCV NS5A domain-1 interacts with cellular proteins inducing pro-oncogenic pathways. Thus, we explore genetic variations in NS5A domain-1 and their association with HCC, by analyzing 188 NS5A sequences from HCV genotype-1b infected DAA-naïve cirrhotic patients: 34 with HCC and 154 without HCC. Specific NS5A mutations significantly correlate with HCC: S3T (8.8% vs. 1.3%, p = 0.01), T122M (8.8% vs. 0.0%, p <
easyPAC: A Tool for Fast Prediction, Testing and Reference Mapping of Degenerate PCR Primers from Alignments or Consensus Sequences
2012
Video abstract A video abstract by the authors of this paper is available. video-abstract8870.mov
Antifungal activity improved by coproduction of cyclodextrins and anabaenolysins in Cyanobacteria
2015
Department of Chemistry, Nanoscience Center, University of Jyväskylä, FI-40014, Jyväskylä, Finland Cyclodextrins are cyclic oligosaccharides widely used in the pharmaceutical industry to improve drug delivery and to increase the solubility of hydrophobic compounds. Anabaenolysins are lipopeptides produced by cyanobacteria with potent lytic activity in cholesterolcontaining membranes. Here, we identified the 23- To 24-kb gene clusters responsible for the production of the lipopeptide anabaenolysin. The hybrid nonribosomal peptide synthetase and polyketide synthase biosynthetic gene cluster is encoded in the genomes of three anabaenolysin-producing strains of Anabaena.We detected previously u…