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101.
Maxime Policarpo Julien Fumey Philippe Lafargeas Delphine Naquin Claude Thermes Magali Naville Corentin Dechaud Jean-Nicolas Volff Cedric Cabau Christophe Klopp Peter Rask Mller Louis Bernatchez Erik García-Machado Sylvie Rtaux Didier Casane 《Molecular biology and evolution》2021,38(2):589
Evolution sometimes proceeds by loss, especially when structures and genes become dispensable after an environmental shift relaxes functional constraints. Subterranean vertebrates are outstanding models to analyze this process, and gene decay can serve as a readout. We sought to understand some general principles on the extent and tempo of the decay of genes involved in vision, circadian clock, and pigmentation in cavefishes. The analysis of the genomes of two Cuban species belonging to the genus Lucifuga provided evidence for the largest loss of eye-specific genes and nonvisual opsin genes reported so far in cavefishes. Comparisons with a recently evolved cave population of Astyanax mexicanus and three species belonging to the Chinese tetraploid genus Sinocyclocheilus revealed the combined effects of the level of eye regression, time, and genome ploidy on eye-specific gene pseudogenization. The limited extent of gene decay in all these cavefishes and the very small number of loss-of-function mutations per pseudogene suggest that their eye degeneration may not be very ancient, ranging from early to late Pleistocene. This is in sharp contrast with the identification of several vision genes carrying many loss-of-function mutations in ancient fossorial mammals, further suggesting that blind fishes cannot thrive more than a few million years in cave ecosystems. 相似文献
102.
Peña Claudia Civit Bárbara Gallego-Schmid Alejandro Druckman Angela Pires Armando Caldeira- Weidema Bo Mieras Eric Wang Feng Fava Jim Canals Llorenç Milà i Cordella Mauro Arbuckle Peter Valdivia Sonia Fallaha Sophie Motta Wladmir 《The International Journal of Life Cycle Assessment》2021,26(2):215-220
The International Journal of Life Cycle Assessment - The current global interest in circular economy (CE) opens an opportunity to make society’s consumption and production patterns more... 相似文献
103.
Bobby G. Ng Paulina Sosicka François Fenaille Annie Harroche Sandrine Vuillaumier-Barrot Mindy Porterfield Zhi-Jie Xia Shannon Wagner Michael J. Bamshad Marie-Christine Vergnes-Boiteux Sophie Cholet Stephen Dalton Anne Dell Thierry Dupré Mathieu Fiore Stuart M. Haslam Yohann Huguenin Tadahiro Kumagai Hudson H. Freeze 《American journal of human genetics》2021,108(6):1040-1052
104.
Ahmed Hamraoui Océane Sénépart Maxime Schneider Sophie Malaquin Emmanuel Péronne Loïc Becerra Fannie Semprez Claire Legay Laurent Belliard 《Biophysical journal》2021,120(3):402-408
Because of their role of information transmitter between the spinal cord and the muscle fibers, motor neurons are subject to physical stimulation and mechanical property modifications. We report on motoneuron elasticity investigated by time-resolved pump and probe spectroscopy. A dual picosecond geometry simultaneously probing the acoustic impedance mismatch at the cell-titanium transducer interface and acoustic wave propagation inside the motoneuron is presented. Such noncontact and nondestructive microscopy, correlated to standard atomic force microscopy or a fluorescent labels approach, has been carried out on a single cell to address some physical properties such as bulk modulus of elasticity, dynamical longitudinal viscosity, and adhesion. 相似文献
105.
During clathrin-mediated endocytosis, a patch of flat plasma membrane is deformed into a vesicle. In walled cells, such as plants and fungi, the turgor pressure is high and pushes the membrane against the cell wall, thus hindering membrane internalization. In this work, we study how a patch of membrane is deformed against turgor pressure by force and by curvature-generating proteins. We show that a large amount of force is needed to merely start deforming the membrane and an even larger force is needed to pull a membrane tube. The magnitude of these forces strongly depends on how the base of the membrane is constrained and how the membrane is coated with curvature-generating proteins. In particular, these forces can be reduced by partially, but not fully, coating the membrane patch with curvature-generating proteins. Our theoretical results show excellent agreement with experimental data. 相似文献
106.
Rupert A. Collins Giulia Trauzzi Katherine M. Maltby Thomas I. Gibson Frances C. Ratcliffe Jane Hallam Sophie Rainbird James Maclaine Peter A. Henderson David W. Sims Stefano Mariani Martin J. Genner 《Journal of fish biology》2021,99(4):1446-1454
The accuracy and reliability of DNA metabarcoding analyses depend on the breadth and quality of the reference libraries that underpin them. However, there are limited options available to obtain and curate the huge volumes of sequence data that are available on public repositories such as NCBI and BOLD. Here, we provide a pipeline to download, clean and annotate mitochondrial DNA sequence data for a given list of fish species. Features of this pipeline include (a) support for multiple metabarcode markers; (b) searches on species synonyms and taxonomic name validation; (c) phylogeny assisted quality control for identification and removal of misannotated sequences; (d) automatically generated coverage reports for each new GenBank release update; and (e) citable, versioned DOIs. As an example we provide a ready-to-use curated reference library for the marine and freshwater fishes of the U.K. To augment this reference library for environmental DNA metabarcoding specifically, we generated 241 new MiFish-12S sequences for 88 U.K. marine species, and make available new primer sets useful for sequencing these. This brings the coverage of common U.K. species for the MiFish-12S fragment to 93%, opening new avenues for scaling up fish metabarcoding across wide spatial gradients. The Meta-Fish-Lib reference library and pipeline is hosted at https://github.com/genner-lab/meta-fish-lib . 相似文献
107.
Natasha D. Phillips Amy Garbett Daniel Wise Sophie L. Loca Olivia Daly Lawrence E. Eagling Jonathan D. R. Houghton Peter Verhoog James Thorburn Patrick C. Collins 《Journal of fish biology》2021,99(4):1492-1496
Essential fish habitats (EFHs) are critical for fish life-history events, including spawning, breeding, feeding or growth. This study provides evidence of EFHs for the critically endangered flapper skate (Dipturus intermedius) in the waters around the Orkney Isles, Scotland, based on citizen-science observation data. The habitats of potential egg-laying sites were parametrised as >20 m depth, with boulders or exposed bedrock, in moderate current flow (0.3–2.8 knots) with low sedimentation. This information provides a significant contribution to the understanding of EFHs for flapper skate. 相似文献
108.
Julien Cucherousset Line E. Sundt-Hansen Mathieu Buoro Libor Závorka Rémy Lassus Knut A. E. Bækkelie Ian A. Fleming Björn Thrandur Björnsson Jörgen I. Johnsson Kjetil Hindar 《Journal of fish biology》2021,99(6):1978-1989
Use of fast-growing domesticated and/or genetically modified strains of fish is becoming increasingly common in aquaculture, increasing the likelihood of deliberate or accidental introductions into the wild. To date, their ecological impacts on ecosystems remain to be quantified. Here, using a controlled phenotype manipulation by implanting growth hormone in juvenile Atlantic salmon (Salmo salar), we found that growth-enhanced fish display changes in several phenotypic traits known to be important for ecosystem functioning, such as habitat use, morphology and excretion rate. Furthermore, these phenotypic changes were associated with significant impacts on the invertebrate community and key stream ecosystem functions such as primary production and leaf-litter decomposition. These findings provide novel evidence that introductions of growth-enhanced fish into the wild can affect the functioning of natural ecosystems and represent a form of intraspecific invasion. Consequently, environmental impact assessments of growth-enhanced organisms need to explicitly consider ecosystem-level effects. 相似文献
109.
Michael A.P. Bloomfield Tinya Chang Maximillian J. Woodl Laura M. Lyons Zhen Cheng Clarissa Bauer‐Staeb Catherine Hobbs Sophie Bracke Helen Kennerley Louise Isham Chris Brewin Jo Billings Talya Greene Glyn Lewis 《World psychiatry》2021,20(1):107-123
Experiencing psychological trauma during childhood and/or adolescence is associated with an increased risk of psychosis in adulthood. However, we lack a clear knowledge of how developmental trauma induces vulnerability to psychotic symptoms. Understanding the psychological processes involved in this association is crucial to the development of preventive interventions and improved treatments. We sought to systematically review the literature and combine findings using meta‐analytic techniques to establish the potential roles of psychological processes in the associations between developmental trauma and specific psychotic experiences (i.e., hallucinations, delusions and paranoia). Twenty‐two studies met our inclusion criteria. We found mediating roles of dissociation, emotional dysregulation and post‐traumatic stress disorder (PTSD) symptoms (avoidance, numbing and hyperarousal) between developmental trauma and hallucinations. There was also evidence of a mediating role of negative schemata, i.e. mental constructs of meanings, between developmental trauma and delusions as well as paranoia. Many studies to date have been of poor quality, and the field is limited by mostly cross‐sectional research. Our findings suggest that there may be distinct psychological pathways from developmental trauma to psychotic phenomena in adulthood. Clinicians should carefully ask people with psychosis about their history of developmental trauma, and screen patients with such a history for dissociation, emotional dysregulation and PTSD symptoms. Well conducted research with prospective designs, including neurocognitive assessment, is required in order to fully understand the biopsychosocial mechanisms underlying the association between developmental trauma and psychosis. 相似文献
110.
Andr Gomes-dos-Santos Manuel Lopes-Lima Andr M Machado Antnio Marcos Ramos Ana Usi Ivan N Bolotov Ilya V Vikhrev Sophie Breton L Filipe C Castro Rute R da Fonseca Juergen Geist Martin E
sterling Vincent Pri Amílcar Teixeira Han Ming Gan Oleg Simakov Elsa Froufe 《DNA research》2021,28(2)
Since historical times, the inherent human fascination with pearls turned the freshwater pearl mussel Margaritifera margaritifera (Linnaeus, 1758) into a highly valuable cultural and economic resource. Although pearl harvesting in M. margaritifera is nowadays residual, other human threats have aggravated the species conservation status, especially in Europe. This mussel presents a myriad of rare biological features, e.g. high longevity coupled with low senescence and Doubly Uniparental Inheritance of mitochondrial DNA, for which the underlying molecular mechanisms are poorly known. Here, the first draft genome assembly of M. margaritifera was produced using a combination of Illumina Paired-end and Mate-pair approaches. The genome assembly was 2.4 Gb long, possessing 105,185 scaffolds and a scaffold N50 length of 288,726 bp. The ab initio gene prediction allowed the identification of 35,119 protein-coding genes. This genome represents an essential resource for studying this species’ unique biological and evolutionary features and ultimately will help to develop new tools to promote its conservation. 相似文献