Acoustic cues to tonal contrasts in Mandarin: Implications for cochlear implants

The present study systematically manipulated three acoustic cues-fundamental frequency (f0), amplitude envelope, and duration-to investigate their contributions to tonal contrasts in Mandarin. Simplified stimuli with all possible combinations of these three cues were presented for identification to eight normal-hearing listeners, all native speakers of Mandarin from Taiwan. The f0 information was conveyed either by an f0-controlled sawtooth carrier or a modulated noise so as to compare the performance achievable by a clear indication of voice f0 and what is possible with purely temporal coding of f0. Tone recognition performance with explicit f0 was much better than that with any combination of other acoustic cues (consistently greater than 90% correct compared to 33%-65%; chance is 25%). In the absence of explicit f0, the temporal coding of f0 and amplitude envelope both contributed somewhat to tone recognition, while duration had only a marginal effect. Performance based on these secondary cues varied greatly across listeners. These results explain the relatively poor perception of tone in cochlear implant users, given that cochlear implants currently provide only weak cues to f0, so that users must rely upon the purely temporal (and secondary) features for the perception of tone. (c) 2008 Acoustical Society of America

STITCH 4: integration of protein-chemical interactions with user data

STITCH is a database of protein-chemical interactions that integrates many sources of experimental and manually curated evidence with text-mining information and interaction predictions. Available at http://stitch.embl.de, the resulting interaction network includes 390 000 chemicals and 3.6 million proteins from 1133 organisms. Compared with the previous version, the number of high-confidence protein-chemical interactions in human has increased by 45%, to 367 000. In this version, we added features for users to upload their own data to STITCH in the form of internal identifiers, chemical structures or quantitative data. For example, a user can now upload a spreadsheet with screening hits to easily check which interactions are already known. To increase the coverage of STITCH, we expanded the text mining to include full-text articles and added a prediction method based on chemical structures. We further changed our scheme for transferring interactions between species to rely on orthology rather than protein similarity. This improves the performance within protein families, where scores are now transferred only to orthologous proteins, but not to paralogous proteins. STITCH can be accessed with a web-interface, an API and downloadable files

Deep-sea benthic habitats and the impacts of trawling on them in the offshore Greenland halibut fishery, Davis Strait, west Greenland

The offshore Greenland halibut (Reinhardtius hippoglossoides) fishery, west Greenland, employs demersal trawl gear at depths of 800–1400 m. In contrast to many deep-sea fisheries, the target stock appears stable and the fishery is of significant economic importance. Recent Marine Stewardship Council certification of this fishery highlighted the paucity of knowledge of benthic habitats and trawling impacts, which this study aimed to address using a towed benthic video sled. The spatially discrete northern and southern areas of the fishery were found to be distinct in terms of the communities present, which non-metric multidimensional scaling suggests is primarily driven by temperature. Extensive physical evidence of trawling was observed. Trawling effort was significantly linked with community composition, with a negative association between trawling effort and abundance of some taxa, including some vulnerable marine ecosystem (VME) indicator species. Three potential VMEs are identified: (i) Flabellum alabastrum cup coral meadows; (ii) a Halipteris finmarchica sea pen field; and (iii) areas exhibiting mixed assemblages of VME indicators. Of immediate conservation concern is a H. finmarchica field, which seems to be at least regionally rare, is situated within the fringes of existing trawling effort and is currently afforded no protection by management measures

Food supply confers calcifiers resistance to ocean acidification

Invasion of ocean surface waters by anthropogenic CO emitted to the atmosphere is expected to reduce surface seawater pH to 7.8 by the end of this century compromising marine calcifiers. A broad range of biological and mineralogical mechanisms allow marine calcifiers to cope with ocean acidification, however these mechanisms are energetically demanding which affect other biological processes (trade-offs) with important implications for the resilience of the organisms against stressful conditions. Hence, food availability may play a critical role in determining the resistance of calcifiers to OA. Here we show, based on a meta-analysis of existing experimental results assessing the role of food supply in the response of organisms to OA, that food supply consistently confers calcifiers resistance to ocean acidification.This work was funded by grants from the Danish Environmental Protection Agency within the Danish 486 Cooperation for Environment in the Arctic (DANCEA), ASSEMBLE grant agreement no. 227799 from European Community and from the Spanish Ministry of Economy and Competitiveness (ESTRESX, number CTM2012-32603). N.A.L. acknowledges support from grants Fondecyt 1140938 and NC 1200286 (Millennium Nucleus Project MUSELS) and L.R. was supported by BECAS CHILE fellowship program from Comisión Nacional de Investigación Científica y Tecnológica de Chile (CONICYT)Peer Reviewe

First record of the whip-lash squid, Mastigoteuthis agassizii verrill, 1881 (Mollusca: Cephalopoda: Mastigoteuthidae) in the subarctic atlantic, with notes on its morphology and biology

© 2018 Informa UK Limited, trading as Taylor & Francis Group. Cephalopods are an important, abundant and taxonomically diverse component of the bathypelagic realm. However, their biology, ecology and distribution are poorly known. Specimens of Mastigoteuthis agassizii (Mastigoteuthidae) have been captured in the southern part of the Denmark Strait, which is at approximately 65°N. This site is approximately 550 km north of the previously most northern known border of the Mastigoteuthidae range. The main goal of this paper is to provide an extended morphological description and biological analysis of M. agassizii, the first species of the Mastigoteuthidae caught in the Subarctic Atlantic. Despite sample collection at 534 deep-water stations in the area, only two specimens were captured, indicating the rarity of this species in the northern part of its range. We suggest that the typical range of this species is bathyal depths throughout the North Atlantic to the Subarctic, but not through the Denmark and Davis Straits to the Arctic. These findings coincide with the geographic border of the Northern Atlantic boreal bathyal province, which is warmer and more saline compared to the Arctic province further to the north. We also provide the first descriptions of the radula and reproductive system of M. agassizii. The female had synchronous ovulation, fecundity of approximately 23,000 oocytes, oocyte resorption having not been found, most likely due to the early maturity stage of the female. The males, as proven by our sample and additional photo in other source, were found to have the distal part of the penis enlarged, divided into two valves and pigmented, possibly indicating they can protrude outside the mantle cavity. This enlarged valved part, as it is supposed in the literature for other deep-water squid families having it, may be used as an analogue to the lacking hectocotylus

Phase transitions in biological membranes

Native membranes of biological cells display melting transitions of their lipids at a temperature of 10-20 degrees below body temperature. Such transitions can be observed in various bacterial cells, in nerves, in cancer cells, but also in lung surfactant. It seems as if the presence of transitions slightly below physiological temperature is a generic property of most cells. They are important because they influence many physical properties of the membranes. At the transition temperature, membranes display a larger permeability that is accompanied by ion-channel-like phenomena even in the complete absence of proteins. Membranes are softer, which implies that phenomena such as endocytosis and exocytosis are facilitated. Mechanical signal propagation phenomena related to nerve pulses are strongly enhanced. The position of transitions can be affected by changes in temperature, pressure, pH and salt concentration or by the presence of anesthetics. Thus, even at physiological temperature, these transitions are of relevance. There position and thereby the physical properties of the membrane can be controlled by changes in the intensive thermodynamic variables. Here, we review some of the experimental findings and the thermodynamics that describes the control of the membrane function.Comment: 23 pages, 15 figure

Evolution reveals a glutathione-dependent mechanism of 3-hydroxypropionic acid tolerance

Biologically produced 3-hydroxypropionic acid (3HP) is a potential source for sustainable acrylates and can also find direct use as monomer in the production of biodegradable polymers. For industrial scale production there is a need for robust cell factories tolerant to high concentration of 3HP, preferably at low pH. Through adaptive laboratory evolution we selected S. cerevisiae strains with improved tolerance to 3HP at pH 3.5. Genome sequencing followed by functional analysis identified the causal mutation in SFA1 gene encoding S-(hyclroxymerhyl)glutathione dehydrogenase. Based on our findings, we propose that 3HP toxicity is mediated by 3-hydroxypropionic aldehyde (reuterin ) and that glutathione-dependent reactions are used for reuterin detoxification. The identified molecular response to 3HP and reuterin may well be a general mechanism for handling resistance to organic acid and aldehydes by living cells. (C) 2014 International Metabolic Engineering Society Published by Elsevier Inc. On behalf of International Metabolic Engineering Society. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/3.0/

Benthos

Currently, > 4,000 Arctic macro- and megabenthic species are known, representing the majority of Arctic marine faunal diversity. This estimate is expected to increase. • Benthic invertebrates are food to shes, marine mammals, seabirds and humans, and are commercially harvested. • Traditional Knowledge (TK) emphasizes the link between the benthic species and their predators, such as walrus, and their signi cance to culture. • Decadal changes in benthos biodiversity are observed in some well-studied regions, such as the Barents Sea and Chukchi Sea. • Drivers related to climate-change such as warming, ice decline and acidification are affecting the benthic community on a pan-Arctic scale, while drivers such as trawling, river/glacier discharge and invasive species have signficant impact on regional or local scales. • Increasing numbers of species are moving into, or shifting, their distributions in Arctic waters. These species will outcompete, prey on or offer less nutritious value as prey for Arctic species. • Current monitoring efforts have focused on macro- and megabenthic species, but have been confined to the Chukchi Sea and the Barents Sea. Efforts are increasing in waters of Greenland, Iceland, the Canadian Arctic, and in the Norwegian Sea. All other Arctic Marine Areas are lacking long-term benthic monitoring. • As a first step towards an international collaborative monitoring framework, we recommend to develop a time- and cost-effective, long-term and standardized monitoring of megabenthic communities in all Arctic regions with regular annual groundfish assessment surveys. Expanding monitoring on micro-, meio- and macrobenthic groups is encouraged

Training American listeners to perceive Mandarin tones

This is the publisher's version, also available electronically from http://scitation.aip.org/content/asa/journal/jasa/106/6/10.1121/1.428217.Auditory training has been shown to be effective in the identification of non-native segmental distinctions. In this study, it was investigated whether such training is applicable to the acquisition of non-native suprasegmentalcontrasts, i.e., Mandarin tones. Using the high-variability paradigm, eight American learners of Mandarin were trained in eight sessions during the course of two weeks to identify the four tones in natural words produced by native Mandarin talkers. The trainees’ identification accuracy revealed an average 21% increase from the pretest to the post-test, and the improvement gained in training was generalized to new stimuli (18% increase) and to new talkers and stimuli (25% increase). Moreover, the six-month retention test showed that the improvement was retained long after training by an average 21% increase from the pretest. The results are discussed in terms of non-native suprasegmental perceptual modification, and the analogies between L2 acquisition processes at the segmental and suprasegmental levels

Effect of intonation on Cantonese lexical tones

In tonal languages, there are potential conflicts between the F0-based changes due to the coexistence of intonation and lexical tones. In the present study, the interaction of tone and intonation in Cantonese was examined using acoustic and perceptual analyses. The acoustic patterns of tones at the initial, medial, and final positions of questions and statements were measured. Results showed that intonation affects both the F0 level and contour, while the duration of the six tones varied as a function of positions within intonation contexts. All six tones at the final position of questions showed rising F0 contour, regardless of their canonical form. Listeners were overall more accurate in the identification of tones presented within the original carrier than of the same tones in isolation. However, a large proportion of tones 33, 21, 23, and 22 at the final position of questions were misperceived as tone 25 both within the original carrier and as isolated words. These results suggest that although the intonation context provided cues for correct tone identification, the intonation-induced changes in F0 contour cannot always be perceptually compensated for, resulting in some erroneous perception of the identity of Cantonese tone. © 2006 Acoustical Society of America.published_or_final_versio