Human Immunodeficiency Virus (HIV) 2 Superinfection in a Patient Receiving Antiretroviral Therapy With Longstanding HIV-1 Viral Load Suppression

Dual human immunodeficiency virus (HIV) 1 and HIV-2 superinfections are rare but challenging. A HIV-1–infected patient receiving effective antiretroviral therapy was investigated for a severe CD4+ cell count decline. HIV-2 superinfection was diagnosed and genotypic test revealed mutations conferring resistance to most drug class, limiting options for treatment

The cephalopod prey of the Weddell seal, Leptonychotes weddellii, a biological sampler of the Antarctic marine ecosystem

Weddell seals, Leptonychotes weddellii, are important apex predators in the food web of the Antarctic marine ecosystem. However, detailed information on their trophic relationships with cephalopods is scarce. Moreover, cephalopods play a key role in the marine environment, but knowledge of their feeding habits is limited by lack of data. Here, we have combined the use of this seal as a biological sampler together with measurements of the stable isotopic signature of the beaks of their cephalopod prey. Thus, the aims of the present study were: (1) to examine in detail the cephalopod portion of the diet of Weddell seals by means of scat analysis and (2) to assess the habitat use and trophic level of the different cephalopod prey taxa identified. From January to February 2009, a total of 48 faecal droppings were collected at Hope Bay, Antarctic Peninsula. Cephalopods were mainly represented by beaks (n = 83) which were identified to the lowest possible taxonomic level. Furthermore, subsamples of beaks were separated for further isotopic analysis. Relative abundance of stable isotopes of carbon (δ13C) and nitrogen (δ15N) was determined by continuous-flow isotope-ratio mass spectrometry. Cephalopods were represented uniquely by octopods of the subfamily Eledoninae. Pareledone turqueti was the dominant prey species followed by the papillated Pareledone species group and Adelieledone polymorpha. We conclude that Weddell seals preyed primarily on benthic prey resources. Furthermore, the relatively similar δ13C and δ15N values in beaks of the three octopod prey taxa suggest that these share the same type of habitat and occupy similar trophic level positions

Stable Isotope Dynamics (δ13C and δ15N) in Neritic and Oceanic Waters of the North Atlantic Inferred From GPS-Tracked Cory’s Shearwaters

Intrinsic markers, such as stable isotopes, are a powerful approach to trace wildlife movements because they do not require initial marking of the organism. The main limitation of the isotopic method is the lack of knowledge in spatio-temporal patterns and dynamics of stable isotopes in marine environments, especially at local scales. Here, we combine GPS-tracks and isotopic signatures from Cory’s shearwaters as a model species to define isoscapes in the North Atlantic, and assess δ13C and δ15N dynamics, from local to regional spatial scales. Tracking data and blood samples were collected seasonally (during pre-laying and chick-rearing periods) across 6 years (2010–2015) from a total of 191 birds breeding at both neritic and oceanic environments. Tracked birds encompassed a large latitudinal and longitudinal area of the mid-North Atlantic, from the Eastern to Central North Atlantic. Overall, the δ13C and δ15N values of birds’ plasma over the region ranged from -20.2 to -16.2‰, and from 10.8 to 15.5‰, respectively. As expected, strong biogeographic isotopic patterns were found in δ13C values at a regional scale, mostly driven by an inshore/offshore gradient and chlorophyll a concentration. Although a moderate expression of spatial isotopic gradients on δ15N values (i.e., latitudinal and inshore/offshore) in the whole region, these were primarily influenced by temporal drivers (i.e., annual variability). At a local scale (i.e., in a radius of 100 km around the colony, within the neritic environment), both δ13C and δ15N values were very influenced by temporal drivers, suggesting that wide-ranging top consumers are hard to trace locally. This study shows that the δ13C values of marine top consumers are good indicators of the foraging habitat at a regional scale in the mid-North Atlantic, especially in terms of inshore/offshore gradients and areas of higher productivity

Drivers of Insect Community Change along the Margins of Mountain Streams in Serra da Estrela Natural Park (Portugal)

Mountain ecosystems are important biodiversity hotspots and valuable natural laboratories to study community assembly processes. Here, we analyze the diversity patterns of butterflies and odonates in a mountainous area of high conservation value—Serra da Estrela Natural Park (Portugal)—and we assess the drivers of community change for each of the two insect groups. The butterflies and odonates were sampled along 150 m transects near the margins of three mountain streams, at three elevation levels (500, 1000, and 1500 m). We found no significant differences in odonate species richness between elevations, but marginal differences (p = 0.058) were found for butterflies due to the lower number of species at high altitudes. Both insect groups showed significant differences in beta diversity (βtotal) between elevations, with species richness differences being the most important component for odonates (βrich = 55.2%), while species replacement drove the changes between butterfly assemblages (βrepl = 60.3%). Climatic factors, particularly those depicting harsher conditions of temperature and precipitation, were the best predictors of total beta diversity (βtotal) and its components (βrich, βrepl) for the two study groups. The study of insect biodiversity patterns in mountain ecosystems and of the role played by different predictors contribute to further our understanding on the community assembly processes and may help to better predict environmental change impacts on mountain biodiversity.FUNDING: This work benefited the support from Energias de Portugal (EDP) Fund for Biodiversity 2011 and Fundação para a Ciência e a Tecnologia (FCT) through project PTDC/BIA-BIC/1013/2014 and contract DL57/2016/CP1375/CT0001 to MB. PAVB and MB are currently also funded by the project Azores DRCT Pluriannual Funding (M1.1.A/FUNC.UI&D/010/2021-2024). The APC was funded by FCT project UIDB/00329/2020–2024 (Thematic Line 1—integrated ecological assessment of environmental change on biodiversity).info:eu-repo/semantics/publishedVersio

The CLIMALERT project: Climate alert smart system for sustainable water and agriculture

The vulnerability of sensitive European regions to hydro-meteorological extremes has increased dramatically over the past few decades. Extreme weather and climate events are increasingly happening worldwide due to ongoing climate change. As a consequence, hydro- meteorological disaster events are affecting the European economy, environment and society, with impacts on food production, food distribution infrastructure, livelihood assets and human health, in both rural and urban areas. Meanwhile, climate services have started to be developed to further anticipate the impacts of climate variability and to apply climate forecasts in different sectors, such as agriculture and water management. However, connections between climate information users and providers are still weak. The CLIMALERT project emerges to provide climate information in a format that prospective users find it easy to understand and/or incorporate into decision-making. The project main goals are: i) strengthen the link between climate research, water resources and the agriculture sector to assist the management of natural resources, enhance agricultural livelihoods and reduce underlying causes of vulnerability, ii) improve the techniques and tools currently used to incorporate weather and climate information into risk assessment and decision making in agriculture and water sectors, and, iii) contribute to assist decision- makers in the implementation of adaptation and mitigation strategies. In this talk, we will present the project framework, the study areas, the engagement with stakeholders, the selection of climate and hydrological indicators, and the development of an alert system platform that aims to contribute to reduce the risks and vulnerabilities for the agriculture and water management sectors, providing economically valuable services and long-term benefits to farmers and societyERA4CS/0004/2016 - CLIMALER

Habitat and trophic ecology of Southern Ocean cephalopods from stable isotope analyses

Although cephalopods play a critical role in marine food webs both as predators and prey, there is a limited knowledge of several basic aspects of their ecology, including their habitat and trophic level, in the Southern Ocean. We examined the ecological role of several Southern Ocean cephalopod species by analyzing δ13C and δ15N values in lower cephalopod beaks obtained from diet samples of wandering albatross Diomedea exulans from South Georgia (Atlantic Ocean), and from Crozet and Kerguelen Islands (Indian Ocean). Beak δ13C values ranged from -25.7 to -17.9‰, and were used to assign different cephalopod species to the subtropical, sub-Antarctic or Antarctic Zones. Beak δ15N values were more variable among species, ranging from 2.4 to 13.3‰, a difference of ~11‰ that represents approx. 3 trophic levels. Differences among islands in isotope ratios in the same cephalopod species (higher δ15N and lower δ13C values in South Georgia) were attributed to regional oceanographic processes. Antarctic cephalopods occupy niches similar to those found in some pelagic fish, seabirds and marine mammals. As cephalopods are key components in Southern Ocean food webs, these results greatly advance our understanding of the structure, energy and carbon flows in this polar ecosystem

Sexual and individual foraging segregation in Gentoo penguins Pygoscelis papua from the Southern Ocean during an abnormal winter

Knowledge about sexual segregation and gender-specific, or indeed individual specialization, in marine organisms has improved considerably in the past decade. In this context, we tested the “Intersexual Competition Hypothesis” for penguins by investigating the feeding ecology of Gentoo penguins during their austral winter non-breeding season. We considered this during unusual environmental conditions (i.e. the year 2009 had observations of high sea surface and air temperatures) in comparison with the long term average at Bird Island, South Georgia. Through conventional (i.e. stomach contents) and stable isotopic values from red blood cells, plasma and feathers of both male and female Gentoo penguins, we showed that there were significant differences between sexes, with males feeding mainly on fish (54% by mass) followed by crustaceans (38%) whereas females fed mainly on crustaceans (89% by mass) followed by fish (4%). Themisto gaudichaudii was the most important crustacean prey for males (64% by mass; 82% by number; 53% by frequency of occurrence) and females (63% by mass; 77% by number; 89% by frequency of occurrence), contrasting with all previous studies that found Antarctic krill Euphausia superba were generally the main prey. Stable isotopic data showed that, in terms of habitat use (based on δ 13C), there were significant differences in short-term carbon signatures between males and females (based on plasma and red blood cells), suggesting that both sexes explored different habitats, with females exploring more offshore pelagic waters and males feeding more in coastal benthic waters. Based on δ 15N, males fed on significantly higher trophic level than females (based on plasma and red blood cells), in agreement with our diet results., Thus, Gentoo penguins behave in a similar manner to other non-breeding penguins species (e.g. king, macaroni and rockhopper penguins), albeit at a smaller spatial scale (as they do not disperse as these other penguins do), in that they have a wider habitat and trophic niche during the Antarctic Winter (in comparison to Summer). We also detected individual specialization in feeding/trophic levels for each gender, with certain males feeding mainly on fish and certain females mainly on crustaceans, which may be driven the prevailing environmental conditions that lead individuals to search for alternative prey, and cause sexual diet segregation. Our results provide further information to help improve understanding about sexual segregation and individual specialization of marine organisms, while contributing valuable information on the winter diet for Antarctic monitoring programs and for modelling Antarctic marine food webs

Distribution, habitat and trophic ecology of Antarctic squid Kondakovia longimana and Moroteuthis knipovitchi: inferences from predators and stable isotopes

Cephalopods have a key role in the marine environment though knowledge of their distribution and trophic ecology is limited by a lack of observations. This is particularly true for Antarctic species. Toothfish species are key predators of cephalopods and may be viewed as ideal biological samplers of these species. A total of 256 cephalopod lower beaks were identified from the stomachs of Patagonian toothfish (Dissostichus eleginoides) and Antarctic toothfish (Dissostichus mawsoni), captured in fisheries of South Georgia and the South Sandwich Islands in the South Atlantic between March and April 2009. Long-armed octopus squid (Kondakovia longimana) and smooth-hooked squid (Moroteuthis knipovitchi) were the main cephalopod prey and both were predated upon wherever toothfish were captured, though this cephalopod species appear to inhabit deeper waters at the South Sandwich Islands than at South Georgia. Measurements of δ13C from beak material indicated a clear segregation of habitat use comparing adult and sub-adult sized K. longimana. Variation in δ15N with size indicated an ontogenetic shift in the diet of cephalopods and also suggested some trophic plasticity among years. This study provides new insights into the private life of some elusive Antarctic cephalopods in an underexplored region of the South Atlantic

Dynamics of a Dual SARS-CoV-2 Lineage Co-Infection on a Prolonged Viral Shedding COVID-19 Case: Insights into Clinical Severity and Disease Duration

A few molecularly proven severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) cases of symptomatic reinfection are currently known worldwide, with a resolved first infection followed by a second infection after a 48 to 142-day intervening period. We report a multiple-component study of a clinically severe and prolonged viral shedding coronavirus disease 2019 (COVID-19) case in a 17-year-old Portuguese female. She had two hospitalizations, a total of 19 RT-PCR tests, mostly positive, and criteria for releasing from home isolation at the end of 97 days. The viral genome was sequenced in seven serial samples and in the diagnostic sample from her infected mother. A human genome-wide array (>900 K) was screened on the seven samples, and in vitro culture was conducted on isolates from three late samples. The patient had co-infection by two SARS-CoV-2 lineages, which were affiliated in distinct clades and diverging by six variants. The 20A lineage was absolute at the diagnosis (shared with the patient's mother), but nine days later, the 20B lineage had 3% frequency, and two months later, the 20B lineage had 100% frequency. The 900 K profiles confirmed the identity of the patient in the serial samples, and they allowed us to infer that she had polygenic risk scores for hospitalization and severe respiratory disease within the normal distributions for a Portuguese population cohort. The early-on dynamic co-infection may have contributed to the severity of COVID-19 in this otherwise healthy young patient, and to her prolonged SARS-CoV-2 shedding profile.The authors acknowledge the support of the i3S Scientific Platforms BioSciences Screening and Genomics, members of the national infrastructure PPBI-Portuguese Platform of Bioimaging (PPBI-POCI-01-0145-FEDER-022122), PT-OPENSCREEN, GenomePT project (POCI-01-0145-FEDER-022184)

Show your beaks and we tell you what you eat: Different ecology in sympatric Antarctic benthic octopods under a climate change context

Sympatry can lead to higher competition under climate change and other environmental pressures, including in South Georgia, Antarctica, where the two most common octopod species, Adelieledone polymorpha and Pareledone turqueti, occur side by side. Since cephalopods are typically elusive animals, the ecology of both species is poorly known. As beaks of cephalopods are recurrently found in top predator's stomachs, we studied the feeding ecology of both octopods through the evaluation of niche overlapping and specific beak adaptations that both species present. A multidisciplinary approach combining carbon (δ13C) and nitrogen (δ15N) stable isotope signatures, mercury (Hg) analysis and biomaterials' engineering techniques was applied to investigate the beaks. An isotopic niche overlap of 95.6% was recorded for the juvenile stages of both octopod species, dropping to 19.2% for the adult stages. Both A. polymorpha and P. turqueti inhabit benthic ecosystems around South Georgia throughout their lifecycles (δ13C: −19.21 ± 1.87‰, mean ± SD for both species) but explore trophic niches partially different during adult life stages (δ15N: 7.01 ± 0.40‰, in A. polymorpha, and 7.84 ± 0.65‰, in P. turqueti). The beaks of A. polymorpha are less dense and significantly less stiff than in P. turqueti. Beaks showed lower mercury concentration relative to muscle (A. polymorpha - beaks: 0.052 ± 0.009  μg g−1, muscle: 0.322 ± 0.088  μg g−1; P. turqueti - beaks: 0.038 ± 0.009  μg g−1; muscle: 0.434 ± 0.128  μg g−1). Overall, both octopods exhibit similar habitats but different trophic niches, related to morphology/function of beaks. The high Hg concentrations in both octopods can have negative consequences on their top predators and may increase under the present climate change context.British Antarctic Survey for assisting in the collection of the specimens for this work. Many thanks to 3B's Research Group (University of Minho) and MAREFOZ who were responsible for analysing the physical properties of beaks and stable isotope signatures. A special thank you to our colleague José Queirós from MARE-UC (Coimbra, Portugal) for his suggestions and guidance. A debt of gratitude is also owed to Dr. A. Louise Allcock (NUI Galway) for her useful guidelines. This work is an international effort under the Scientific Committee on Antarctic Research (SCAR) associated programs, expert and action groups, namely SCAR AnT-ERA, SCAR EGBAMM and ICED. J.C. Xavier was supported by the Investigator Programme (IF/00616/2013) of the Foundation for Science and Technology (FCT-Portugal) and PROPOLAR, and F.R. Ceia was supported by a postdoctoral fellowship (SFRH/BPD/95372/2013) attributed by FCT-Portugal and the European Social Fund (POPH, EU). This study benefited from the strategic program of MARE, financed by FCT-Portugal (MARE- UID/MAR/04292/2019). We also acknowledge FCT-Portugal through a PhD grant to J. Seco (SRFH/PD/BD/113487