Deep convolutional filtering for spatio-temporal denoising and artifact removal in arterial spin labelling MRI

Arterial spin labelling (ASL) is a noninvasive imaging modality, used in the clinic and in research, which can give quantitative measurements of perfusion in the brain and other organs. However, because the signal-to-noise ratio is inherently low and the ASL acquisition is particularly prone to corruption by artifact, image processing methods such as denoising and artifact filtering are vital for generating accurate measurements of perfusion. In this work, we present a new simultaneous approach to denoising and artifact removal, using a novel deep convolutional joint filter architecture to learn and exploit spatio-temporal properties of the ASL signal. We proceed to show, using data from 15 healthy subjects, that our approach achieves state of the art performance in both denoising and artifact removal, improving peak signal-to-noise ratio by up to 50%. By allowing more accurate estimation of perfusion, even in challenging datasets, this technique offers an exciting new approach for ASL pipelines, and might be used both for improving individual images and to increase the power of research studies using ASL

Climate change impacts on polar marine ecosystems: Toward robust approaches for managing risks and uncertainties

The Polar Regions chapter of the Intergovernmental Panel on Climate Change's Special Report on the Ocean and Cryosphere in a Changing Climate (SROCC) provides a comprehensive assessment of climate change impacts on polar marine ecosystems and associated consequences for humans. It also includes identification of confidence for major findings based on agreement across studies and weight of evidence. Sources of uncertainty, from the extent of available datasets, to resolution of projection models, to the complexity and understanding of underlying social-ecological linkages and dynamics, can influence confidence. Here we, marine ecosystem scientists all having experience as lead authors of IPCC reports, examine the evolution of confidence in observed and projected climate-linked changes in polar ecosystems since SROCC. Further synthesis of literature on polar marine ecosystems has been undertaken, especially within IPCC's Sixth Assessment Report (AR6) Working Group II; for the Southern Ocean also the Marine Ecosystem Assessment for the Southern Ocean (MEASO). These publications incorporate new scientific findings that address some of the knowledge gaps identified in SROCC. While knowledge gaps have been narrowed, we still find that polar region assessments reflect pronounced geographical skewness in knowledge regarding the responses of marine life to changing climate and associated literature. There is also an imbalance in scientific focus; especially research in Antarctica is dominated by physical oceanography and cryosphere science with highly fragmented approaches and only short-term funding to ecology. There are clear indications that the scientific community has made substantial progress in its ability to project ecosystem responses to future climate change through the development of coupled biophysical models of the region facilitated by increased computer power allowing for improved resolution in space and time. Lastly, we point forward—providing recommendations for future advances for IPCC assessments.publishedVersio

Decades of dietary data demonstrate regional food web structures in the Southern Ocean

Understanding regional‐scale food web structure in the Southern Ocean is critical to informing fisheries management and assessments of climate change impacts on Southern Ocean ecosystems and ecosystem services. Historically, a large component of Southern Ocean ecosystem research has focused on Antarctic krill, which provide a short, highly efficient food chain, linking primary producers to higher trophic levels. Over the last 15 years, the presence of alternative energy pathways has been identified and hypotheses on their relative importance in different regions raised. Using the largest circumpolar dietary database ever compiled, we tested these hypotheses using an empirical circumpolar comparison of food webs across the four major regions/sectors of the Southern Ocean (defined as south of 40°S) within the austral summer period. We used network analyses and generalizations of taxonomic food web structure to confirm that while Antarctic krill are dominant as the mid‐trophic level for the Atlantic and East Pacific food webs (including the Scotia Arc and Western Antarctic Peninsula), mesopelagic fish and other krill species are dominant contributors to predator diets in the Indian and West Pacific regions (East Antarctica and the Ross Sea). We also highlight how tracking data and habitat modeling for mobile top predators in the Southern Ocean show that these species integrate food webs over large regional scales. Our study provides a quantitative assessment, based on field observations, of the degree of regional differentiation in Southern Ocean food webs and the relative importance of alternative energy pathways between regions

Developing Priority Variables (“ecosystem Essential Ocean Variables” — eEOVs) for Observing Dynamics and Change in Southern Ocean Ecosystems

Reliable statements about variability and change in marine ecosystems and their underlying causes are needed to report on their status and to guide management. Here we use the Framework on Ocean Observing (FOO) to begin developing ecosystem Essential Ocean Variables (eEOVs) for the Southern Ocean Observing System (SOOS). An eEOV is a defined biological or ecological quantity, which is derived from field observations, and which contributes significantly to assessments of Southern Ocean ecosystems. Here, assessments are concerned with estimating status and trends in ecosystem properties, attribution of trends to causes, and predicting future trajectories. eEOVs should be feasible to collect at appropriate spatial and temporal scales and are useful to the extent that they contribute to direct estimation of trends and/or attribution, and/or development of ecological (statistical or simulation) models to support assessments. In this paper we outline the rationale, including establishing a set of criteria, for selecting eEOVs for the SOOS and develop a list of candidate eEOVs for further evaluation. Other than habitat variables, nine types of eEOVs for Southern Ocean taxa are identified within three classes: state (magnitude, genetic/species, size spectrum), predator–prey (diet, foraging range), and autecology (phenology, reproductive rate, individual growth rate, detritus). Most candidates for the suite of Southern Ocean taxa relate to state or diet. Candidate autecological eEOVs have not been developed other than for marine mammals and birds. We consider some of the spatial and temporal issues that will influence the adoption and use of eEOVs in an observing system in the Southern Ocean, noting that existing operations and platforms potentially provide coverage of the four main sectors of the region — the East and West Pacific, Atlantic and Indian. Lastly, we discuss the importance of simulation modelling in helping with the design of the observing system in the long term. Regional boundary: south of 30°S