scholarly journals Large‐scale molecular barcoding of prey DNA reveals predictors of intrapopulation feeding diversity in a marine predator

2020 ◽  
Vol 10 (18) ◽  
pp. 9867-9885
Author(s):  
Madelyn R. Voelker ◽  
Dietmar Schwarz ◽  
Austen Thomas ◽  
Benjamin W. Nelson ◽  
Alejandro Acevedo‐Gutiérrez
Keyword(s):  
Large Scale ◽  
Molecular Barcoding ◽  
Marine Predator

scholarly journals Large scale molecular barcoding of prey DNA reveals environmental predictors of intrapopulation feeding diversity in a marine predator

Authorea ◽  
2020 ◽  
Author(s):  
Madelyn Voelker ◽  
Dietmar Schwarz ◽  
Austen Thomas ◽  
Benjamin Nelson ◽  
Alejandro Acevedo Guti rrez
Keyword(s):  
Large Scale ◽  
Environmental Predictors ◽  
Molecular Barcoding ◽  
Marine Predator

scholarly journals Large-scale climatic anomalies affect marine predator foraging behaviour and demography

2015 ◽  
Vol 6 (1) ◽  
Author(s):  
Charles A. Bost ◽  
Cedric Cotté ◽  
Pascal Terray ◽  
Christophe Barbraud ◽  
Cécile Bon ◽  
...  
Keyword(s):  
Large Scale ◽  
Foraging Behaviour ◽  
Marine Predator ◽  
Predator Foraging

scholarly journals Dusky sharks (Carcharhinus obscurus) undertake large-scale migrations between tropical and temperate ecosystems

2018 ◽  
Vol 75 (9) ◽  
pp. 1525-1533 ◽  
Author(s):  
Matias Braccini ◽  
Simon de Lestang ◽  
Rory McAuley
Keyword(s):  
Large Scale ◽  
Fork Length ◽  
Austral Summer ◽  
Seasonal Migration ◽  
Marine Predator ◽  
Marine Predators ◽  
The North ◽  
Large Scale Network ◽  
Carcharhinus Obscurus ◽  
Scale Network

Understanding the large-scale migrations of marine predators can allow better representation of their population dynamics. The migration biology of dusky sharks (Carcharhinus obscurus), a cosmopolitan large marine predator with very low resilience to fishing, was quantified using a large-scale network of acoustic receivers deployed across Western Australia. Time-series plotting of individual shark detections and modified logistic modelling were used to determine the timing of acoustically tagged sharks’ seasonal migration, the proportion of the population migrating, and the size at which sharks start to migrate. Large (>200 cm fork length) dusky sharks migrated between areas closed (north) and open (south) to commercial shark fishing. There was limited evidence that smaller sharks occurred in the northern study area, whereas several larger individuals of both sexes undertook repeated north–south displacements, moving between disparate ecosystems within the Indian Ocean (21.7°S–35.4°S) and covering round-trip distances of 2000–3000 km per migratory event. For migrating individuals, the probability of occurring in the north was high in the austral winter–spring and low (males) to moderate (females) during the austral summer–autumn.

scholarly journals Increasing the efficiency of long-read sequencing for hybrid assembly with k-mer-based multiplexing

2019 ◽  
Author(s):  
Alexander Dilthey ◽  
Sebastian A. Meyer ◽  
Achim J. Kaasch
Keyword(s):  
Large Scale ◽  
Bacterial Genome ◽  
Labor Cost ◽  
Hybrid Assembly ◽  
Molecular Barcoding ◽  
Hybrid Genome ◽  
Illumina Data ◽  
Sequencing Cost ◽  
Long Read ◽  
Labor Requirements

AbstractHybrid genome assembly has emerged as an important technique in bacterial genomics, but cost and labor requirements limit large-scale application. We present Ultraplexing, a method to improve per-sample sequencing cost and hands-on-time of Nanopore sequencing for hybrid assembly by at least 50%, compared to molecular barcoding while maintaining high assembly quality (Quality Value; QV ≥ 42). Ultraplexing requires the availability of Illumina data and uses inter-sample genetic variability to assign reads to isolates, which obviates the need for molecular barcoding. Thus, Ultraplexing can enable significant sequencing and labor cost reductions in large-scale bacterial genome projects.

scholarly journals DeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2

2021 ◽  
Author(s):  
Alexander Yermanos ◽  
Kai-Lin Hong ◽  
Andreas Agrafiotis ◽  
Jiami Han ◽  
Sarah Nadeau ◽  
...  
Keyword(s):  
Deep Sequencing ◽  
Large Scale ◽  
Viral Evolution ◽  
Diagnostic Testing ◽  
Population Level ◽  
Genomic Diversity ◽  
Molecular Barcoding ◽  
Highly Sensitive ◽  
Targeted Deep Sequencing ◽  
Diagnostic Detection

AbstractThe continued spread of SARS-CoV-2 and emergence of new variants with higher transmission rates and/or partial resistance to vaccines has further highlighted the need for large-scale testing and genomic surveillance. However, current diagnostic testing (e.g., PCR) and genomic surveillance methods (e.g., whole genome sequencing) are performed separately, thus limiting the detection and tracing of SARS-CoV-2 and emerging variants. Here, we developed DeepSARS, a high-throughput platform for simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2 by the integration of molecular barcoding, targeted deep sequencing, and computational phylogenetics. DeepSARS enables highly sensitive viral detection, while also capturing genomic diversity and viral evolution. We show that DeepSARS can be rapidly adapted for identification of emerging variants, such as alpha, beta, gamma, and delta strains, and profile mutational changes at the population level. DeepSARS sets the foundation for quantitative diagnostics that capture viral evolution and diversity.Abstract FigureGraphical abstractDeepSARS uses molecular barcodes (BCs) and multiplexed targeted deep sequencing (NGS) to enable simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2.

Barcoding of mygalomorph spiders (Araneae : Mygalomorphae) in the Pilbara bioregion of Western Australia reveals a highly diverse biota

2014 ◽  
Vol 28 (4) ◽  
pp. 375 ◽  
Author(s):  
Mark A. Castalanelli ◽  
Roy Teale ◽  
Michael G. Rix ◽  
W. Jason Kennington ◽  
Mark S. Harvey
Keyword(s):  
Western Australia ◽  
Large Scale ◽  
Sequence Data ◽  
Sequence Divergence ◽  
Coi Gene ◽  
Mineral Deposits ◽  
Environment Impact ◽  
Molecular Barcoding ◽  
Minimal Impact ◽  
Environment Impact Assessment

The Pilbara bioregion of Western Australia is an area that contains vast mineral deposits and unique ecosystems. To ensure that mineral deposits are mined with minimal impact on the natural environment, impact assessment surveys are required to determine what fauna and flora species are located within proposed development areas, in particular, by determining the distributions of short-range endemic species (SREs). One infraorder of Arachnida, the Mygalomorphae (trapdoor spiders and their kin), are frequently identified as SREs. These identifications are traditionally performed using morphological techniques; however, only males can be reliably identified to species. Furthermore, the majority of species have not been formally described and males comprise only ~5% of specimens collected. To assess mygalomorph diversity and the distribution of species in the Pilbara, we employed a molecular barcoding approach. Sequence data from the mitochondrial DNA cytochrome c oxidase subunit I (COI) gene were obtained from 1134 specimens, and analysed using Bayesian methods. Only a fraction of the total mygalomorph fauna of the Pilbara has been documented, and using a species boundary cut-off of 9.5% sequence divergence, we report an increase in species richness of 191%. Barcoding provides a rapid, objective method to help quantify mygalomorph species identifications and their distributions, and these data, in turn, provide crucial information that regulatory authorities can use to assess the environmental impacts of large-scale developments.

Some comments about observations and image processing of comet 29P/Schwassmann-Wachmann 1

1999 ◽  
Vol 173 ◽  
pp. 243-248
Author(s):  
D. Kubáček ◽  
A. Galád ◽  
A. Pravda
Keyword(s):  
Image Processing ◽  
Large Scale ◽  
Harvard College ◽  
Oak Ridge ◽  
Large Scale Structures ◽  
Short Period Comet ◽  
Short Period ◽  
Scale Structures ◽  
Harvard College Observatory ◽  
Period Comet

AbstractUnusual short-period comet 29P/Schwassmann-Wachmann 1 inspired many observers to explain its unpredictable outbursts. In this paper large scale structures and features from the inner part of the coma in time periods around outbursts are studied. CCD images were taken at Whipple Observatory, Mt. Hopkins, in 1989 and at Astronomical Observatory, Modra, from 1995 to 1998. Photographic plates of the comet were taken at Harvard College Observatory, Oak Ridge, from 1974 to 1982. The latter were digitized at first to apply the same techniques of image processing for optimizing the visibility of features in the coma during outbursts. Outbursts and coma structures show various shapes.

Evolution of Large-Scale Coronal Structures

1994 ◽  
Vol 144 ◽  
pp. 29-33
Author(s):  
P. Ambrož
Keyword(s):  
Magnetic Field ◽  
Field Line ◽  
Large Scale ◽  
Coronal Magnetic Field ◽  
Source Surface ◽  
Solar Cycles ◽  
Characteristic Relationship ◽  
The Magnetic Field ◽  
Coronal Structures

AbstractThe large-scale coronal structures observed during the sporadically visible solar eclipses were compared with the numerically extrapolated field-line structures of coronal magnetic field. A characteristic relationship between the observed structures of coronal plasma and the magnetic field line configurations was determined. The long-term evolution of large scale coronal structures inferred from photospheric magnetic observations in the course of 11- and 22-year solar cycles is described.Some known parameters, such as the source surface radius, or coronal rotation rate are discussed and actually interpreted. A relation between the large-scale photospheric magnetic field evolution and the coronal structure rearrangement is demonstrated.

Large-scale Motion of Solar Filaments

2000 ◽  
Vol 179 ◽  
pp. 205-208
Author(s):  
Pavel Ambrož ◽  
Alfred Schroll
Keyword(s):  
Magnetic Flux ◽  
Proper Motion ◽  
Time Scale ◽  
Large Scale ◽  
Accuracy Of Measurements ◽  
Solar Filaments ◽  
General Movement ◽  
Scale Motion ◽  
Velocity Scatter

AbstractPrecise measurements of heliographic position of solar filaments were used for determination of the proper motion of solar filaments on the time-scale of days. The filaments have a tendency to make a shaking or waving of the external structure and to make a general movement of whole filament body, coinciding with the transport of the magnetic flux in the photosphere. The velocity scatter of individual measured points is about one order higher than the accuracy of measurements.

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