Organic matter contents and degradation in a highly trawled area during fresh particle inputs (Gulf of Castellammare, southwestern Mediterranean)

Bottom trawling in the deep sea is one of the main drivers of sediment resuspension, eroding the seafloor and altering the content and composition of sedimentary organic matter (OM). The physical and biogeochemical impacts of bottom trawling were studied on the continental slope of the Gulf of Castellammare, Sicily (southwestern Mediterranean), through the analysis of two triplicate sediment cores collected at trawled and untrawled sites (∼550 m water depth) during the summer of 2016. Geochemical and sedimentological parameters (excess 210Pb, excess 234Th, 137Cs, dry bulk density, and grain size), elemental (organic carbon and nitrogen) and biochemical composition of sedimentary OM (proteins, carbohydrates, lipids), as well as its freshness (phytopigments) and degradation rates were determined in both coring locations. The untrawled site had a sedimentation rate of 0.15 cm yr−1 and presented a 6 cm thick surface mixed layer that contained siltier sediment with low excess 210Pb concentrations, possibly resulting from the resuspension, posterior advection, and eventual deposition of coarser and older sediment from adjacent trawling grounds. In contrast, the trawled site was eroded and presented compacted century-old sediment highly depleted in OM components, which were between 20 % and 60 % lower than those in the untrawled site. However, the upper 2 cm of the trawled site consisted of recently accumulated sediments enriched in excess 234Th, excess 210Pb, and phytopigments, while OM contents were similar to those from the untrawled core. This fresh sediment supported protein turnover rates of 0.025 d−1, which doubled those quantified in surface sediments of the untrawled site. The enhancement of remineralization rates in surface sediment of the trawled site was associated with the arrival of fresh particles on a chronically trawled deep-sea region that is generally deprived of OM. We conclude that the detrimental effects of bottom trawling can be temporarily and partially abated by the arrival of fresh and nutritionally rich OM, which stimulate the response of benthic communities. However, these ephemeral deposits are likely to be swiftly eroded due to the high trawling frequency over fishing grounds, highlighting the importance of establishing science-based management strategies to mitigate the impacts of bottom trawling

Evidence of large increases in sedimentation rates due to fish trawling in submarine canyons of the Gulf of Palermo (SW Mediterranean)

Bottom trawling in submarine canyons can affect their natural sedimentation rates, but studies addressing this issue are still scarce. In the Gulf of Palermo (SW Mediterranean), bottom trawling occurs on the slope around Oreto, Arenella and Eleuterio canyons. Analyses of excess 210Pb concentrations and grain size fractions in sediment cores from their canyon axes revealed that sedimentation rates and silt contents increased in all canyons in the 1980s, due to the expansion of more powerful trawlers ( \u3e 500 HP) to deeper fishing grounds. In Eleuterio and Arenella canyons, sedimentation rates increased by an order of magnitude (0.1-1.4 cm·yr-1), whereas they increased less (0.1-0.7 cm·yr-1) in Oreto Canyon, since the enhanced trawling-derived sediment fluxes into this canyon are affected by sediment resuspension from trawling along its axis. Considering the global expansion of bottom trawling, we anticipate similar alterations in other trawled canyons, with ecological consequences that should be addressed by management strategies

Vor den Toren von Vindonissa. Wohnen und Arbeiten in einem Handwerkerquartier in den canabae des Legionslagers (Windisch Zivilsiedlung West 2006 – 2008)

Erstmals erlaubt die Teilauswertung einer grossflächigen Ausgrabung einen vertieften Einblick in Entwicklung und Struktur der canabae legionis von Vindonissa. Im Westen des Lagers wurde um 30/40 n. Chr. ein römisches Gräberfeld aufgehoben, das Gelände wird neu parzelliert und zügig überbaut. Ein Grossbrand um 70 n. Chr zerstört das gesamte Quartier. Die Gebäude werden kurz nach 106 n. Chr. verlassen – annähernd gleichzeitig mit der Ankunft der XI. Legion in ihrem neuen Lager in Durostorum. Die Bewohner sind Handwerker – etwa Schmiede und Gerber. Sie dürften vorwiegend für das Lager produziert haben. Die von Legionsstandorten sonst bekannte Siedlungsdualität mit canabae legionis und vicus scheint für Vindonissa nicht zu existieren – die Zivilsiedlung ist insgesamt als canabae anzusprechen

„stercus ex latrinis" - Die unappetitliche Nachnutzung von Schacht MR6/MR 32 in der Region 17C der Unterstadt von Augusta Raurica

Im vorliegenden Aufsatz werden die Ergebnisse der interdisziplinären Auswertung der Verfüllung von Schacht MR 6/MR 32 vorgestellt, der anlässlich der Lehrgrabung «Kaiseraugst-Auf der Wacht» (2011–2013. 001) in der westlichen Unterstadt von Augusta Raurica (Region 17C) entdeckt wurde. Der rund 4,2 m tiefe, trocken gemauerte Schacht MR 6/MR 32, dessen primäre Verwendung (cella promptuaria? fossa nivalis?) nicht hinreichend geklärt ist, wurde wahrscheinlich in flavischer Zeit errichtet und bereits zu Beginn des 2. Jahrhunderts wieder aufgegeben und verfüllt (vgl. Schneider/Schwarz 2017 [in diesem Band]). Die archäologischen und mikromorphologischen Analysen haben gezeigt, dass es sich bei den unteren Füllschichten (Schichtpaket A) unter anderem um stercus, also um Fäkalien handelt, die wahrscheinlich in kurzem zeitlichem Abstand nacheinander eingebracht worden sind. Die Latrinensedimente sind nicht in situ entstanden, sondern stam-men aus ausgeschöpften Latrinengruben, die sich vermutlich in der näheren Umgebung von Schacht MR 6/MR 32 befanden. Zu einem geringeren Teil fanden sich in Schichtpaket A auch gewöhnliche Haus-haltabfälle, wobei ungeklärt bleibt, ob sich darin separate Entsorgungsvorgänge widerspiegeln oder ob diese zusammen mit den Latrinensedimenten in den Schacht gelangt sind. Das Fundmaterial aus den unteren Füllschichten (Ensemble A) datiert nach Aussage der Keramik, der Kleinfunde sowie der Fundmünzen in die Zeit zwischen 70/80 und 120/140 n. Chr. Ensemble A um-fasst folglich Fundmaterial, das während der ersten (ältesten) zivilen Siedlungsphase der Unterstadt von Augusta Raurica in der Region 17C in den Boden gekommen ist. Wichtigstes Ergebnis ist die Feststellung, dass sich die von der älteren Forschung vertretene Unterscheidung in eine «reiche» Oberstadtund eine «arme» Unterstadt im archäo(bio)logischen Fundmaterial aus Schacht MR 6/MR 32 nicht widerspiegelt. Im Gegenteil: Die Analyse des keramischen Fundmaterials, der Klein- und Grosstierknochen sowie der botanischen Makroreste hat gezeigt, dass die in der Umgebung von Schacht MR 6/MR 32 lebende Bevölkerung weitgehend romanisiert war und sich auch relativ vielseitig ernährt hat. Für eine gehobene Ernährung sprechen unter anderem die hohen Anteile von Schwein und Huhn bzw. von Jungtieren sowie die nachgewiesenen Fischarten und die botanischen Makroreste. Unter letztgenannten fanden sich zahlreiche in Augusta Raurica auch sonst belegte Gemüse-, Obst- und Gewürzarten. Besonders hervorzuheben sind im vorliegenden Fall die eher seltenen Nachweise von Gurke, Gartenkresse und Schwarzkümmel. Dass zwei «klassische Luxusindikatoren» – Austern und Mittelmeermakrelen – in Ensemble A fehlen, ist zwar erstaunlich, spricht aber nicht gegen eine Interpretation der Latrinensedimente als Relikte einer sozial gut gestellten Bevölkerung. Konkrete und weiterführende Hinweise zum Gesundheitszustand der in der Region 17C lebenden Bevölkerung lieferte eine aus Schichtpaket A entnommene Sedimentprobe. Darin fanden sich zahlreiche Eier sowohl des Peitschen- als auch des Spulwurms; diese Würmer verursachen unter anderem chronische Durchfallerkrankungen, die in der römischen Epoche weit verbreitet waren, und zwar – wie das vorliegende Beispiel zeigt – offensichtlich auch bei sozial besser gestellten Bevölkerungsschichten

Antimicrobial resistance among migrants in Europe: a systematic review and meta-analysis

BACKGROUND: Rates of antimicrobial resistance (AMR) are rising globally and there is concern that increased migration is contributing to the burden of antibiotic resistance in Europe. However, the effect of migration on the burden of AMR in Europe has not yet been comprehensively examined. Therefore, we did a systematic review and meta-analysis to identify and synthesise data for AMR carriage or infection in migrants to Europe to examine differences in patterns of AMR across migrant groups and in different settings. METHODS: For this systematic review and meta-analysis, we searched MEDLINE, Embase, PubMed, and Scopus with no language restrictions from Jan 1, 2000, to Jan 18, 2017, for primary data from observational studies reporting antibacterial resistance in common bacterial pathogens among migrants to 21 European Union-15 and European Economic Area countries. To be eligible for inclusion, studies had to report data on carriage or infection with laboratory-confirmed antibiotic-resistant organisms in migrant populations. We extracted data from eligible studies and assessed quality using piloted, standardised forms. We did not examine drug resistance in tuberculosis and excluded articles solely reporting on this parameter. We also excluded articles in which migrant status was determined by ethnicity, country of birth of participants' parents, or was not defined, and articles in which data were not disaggregated by migrant status. Outcomes were carriage of or infection with antibiotic-resistant organisms. We used random-effects models to calculate the pooled prevalence of each outcome. The study protocol is registered with PROSPERO, number CRD42016043681. FINDINGS: We identified 2274 articles, of which 23 observational studies reporting on antibiotic resistance in 2319 migrants were included. The pooled prevalence of any AMR carriage or AMR infection in migrants was 25·4% (95% CI 19·1-31·8; I2 =98%), including meticillin-resistant Staphylococcus aureus (7·8%, 4·8-10·7; I2 =92%) and antibiotic-resistant Gram-negative bacteria (27·2%, 17·6-36·8; I2 =94%). The pooled prevalence of any AMR carriage or infection was higher in refugees and asylum seekers (33·0%, 18·3-47·6; I2 =98%) than in other migrant groups (6·6%, 1·8-11·3; I2 =92%). The pooled prevalence of antibiotic-resistant organisms was slightly higher in high-migrant community settings (33·1%, 11·1-55·1; I2 =96%) than in migrants in hospitals (24·3%, 16·1-32·6; I2 =98%). We did not find evidence of high rates of transmission of AMR from migrant to host populations. INTERPRETATION: Migrants are exposed to conditions favouring the emergence of drug resistance during transit and in host countries in Europe. Increased antibiotic resistance among refugees and asylum seekers and in high-migrant community settings (such as refugee camps and detention facilities) highlights the need for improved living conditions, access to health care, and initiatives to facilitate detection of and appropriate high-quality treatment for antibiotic-resistant infections during transit and in host countries. Protocols for the prevention and control of infection and for antibiotic surveillance need to be integrated in all aspects of health care, which should be accessible for all migrant groups, and should target determinants of AMR before, during, and after migration. FUNDING: UK National Institute for Health Research Imperial Biomedical Research Centre, Imperial College Healthcare Charity, the Wellcome Trust, and UK National Institute for Health Research Health Protection Research Unit in Healthcare-associated Infections and Antimictobial Resistance at Imperial College London

The impact of immediate breast reconstruction on the time to delivery of adjuvant therapy: the iBRA-2 study

Background: Immediate breast reconstruction (IBR) is routinely offered to improve quality-of-life for women requiring mastectomy, but there are concerns that more complex surgery may delay adjuvant oncological treatments and compromise long-term outcomes. High-quality evidence is lacking. The iBRA-2 study aimed to investigate the impact of IBR on time to adjuvant therapy. Methods: Consecutive women undergoing mastectomy ± IBR for breast cancer July–December, 2016 were included. Patient demographics, operative, oncological and complication data were collected. Time from last definitive cancer surgery to first adjuvant treatment for patients undergoing mastectomy ± IBR were compared and risk factors associated with delays explored. Results: A total of 2540 patients were recruited from 76 centres; 1008 (39.7%) underwent IBR (implant-only [n = 675, 26.6%]; pedicled flaps [n = 105,4.1%] and free-flaps [n = 228, 8.9%]). Complications requiring re-admission or re-operation were significantly more common in patients undergoing IBR than those receiving mastectomy. Adjuvant chemotherapy or radiotherapy was required by 1235 (48.6%) patients. No clinically significant differences were seen in time to adjuvant therapy between patient groups but major complications irrespective of surgery received were significantly associated with treatment delays. Conclusions: IBR does not result in clinically significant delays to adjuvant therapy, but post-operative complications are associated with treatment delays. Strategies to minimise complications, including careful patient selection, are required to improve outcomes for patients

An explainable model of host genetic interactions linked to COVID-19 severity

We employed a multifaceted computational strategy to identify the genetic factors contributing to increased risk of severe COVID-19 infection from a Whole Exome Sequencing (WES) dataset of a cohort of 2000 Italian patients. We coupled a stratified k-fold screening, to rank variants more associated with severity, with the training of multiple supervised classifiers, to predict severity based on screened features. Feature importance analysis from tree-based models allowed us to identify 16 variants with the highest support which, together with age and gender covariates, were found to be most predictive of COVID-19 severity. When tested on a follow-up cohort, our ensemble of models predicted severity with high accuracy (ACC = 81.88%; AUCROC = 96%; MCC = 61.55%). Our model recapitulated a vast literature of emerging molecular mechanisms and genetic factors linked to COVID-19 response and extends previous landmark Genome-Wide Association Studies (GWAS). It revealed a network of interplaying genetic signatures converging on established immune system and inflammatory processes linked to viral infection response. It also identified additional processes cross-talking with immune pathways, such as GPCR signaling, which might offer additional opportunities for therapeutic intervention and patient stratification. Publicly available PheWAS datasets revealed that several variants were significantly associated with phenotypic traits such as "Respiratory or thoracic disease", supporting their link with COVID-19 severity outcome.A multifaceted computational strategy identifies 16 genetic variants contributing to increased risk of severe COVID-19 infection from a Whole Exome Sequencing dataset of a cohort of Italian patients

Carriers of ADAMTS13 Rare Variants Are at High Risk of Life-Threatening COVID-19

Thrombosis of small and large vessels is reported as a key player in COVID-19 severity. However, host genetic determinants of this susceptibility are still unclear. Congenital Thrombotic Thrombocytopenic Purpura is a severe autosomal recessive disorder characterized by uncleaved ultra-large vWF and thrombotic microangiopathy, frequently triggered by infections. Carriers are reported to be asymptomatic. Exome analysis of about 3000 SARS-CoV-2 infected subjects of different severities, belonging to the GEN-COVID cohort, revealed the specific role of vWF cleaving enzyme ADAMTS13 (A disintegrin-like and metalloprotease with thrombospondin type 1 motif, 13). We report here that ultra-rare variants in a heterozygous state lead to a rare form of COVID-19 characterized by hyper-inflammation signs, which segregates in families as an autosomal dominant disorder conditioned by SARS-CoV-2 infection, sex, and age. This has clinical relevance due to the availability of drugs such as Caplacizumab, which inhibits vWF-platelet interaction, and Crizanlizumab, which, by inhibiting P-selectin binding to its ligands, prevents leukocyte recruitment and platelet aggregation at the site of vascular damage

Gain- and Loss-of-Function CFTR Alleles Are Associated with COVID-19 Clinical Outcomes

Carriers of single pathogenic variants of the CFTR (cystic fibrosis transmembrane conductance regulator) gene have a higher risk of severe COVID-19 and 14-day death. The machine learning post-Mendelian model pinpointed CFTR as a bidirectional modulator of COVID-19 outcomes. Here, we demonstrate that the rare complex allele [G576V;R668C] is associated with a milder disease via a gain-of-function mechanism. Conversely, CFTR ultra-rare alleles with reduced function are associated with disease severity either alone (dominant disorder) or with another hypomorphic allele in the second chromosome (recessive disorder) with a global residual CFTR activity between 50 to 91%. Furthermore, we characterized novel CFTR complex alleles, including [A238V;F508del], [R74W;D1270N;V201M], [I1027T;F508del], [I506V;D1168G], and simple alleles, including R347C, F1052V, Y625N, I328V, K68E, A309D, A252T, G542*, V562I, R1066H, I506V, I807M, which lead to a reduced CFTR function and thus, to more severe COVID-19. In conclusion, CFTR genetic analysis is an important tool in identifying patients at risk of severe COVID-19

The polymorphism L412F in TLR3 inhibits autophagy and is a marker of severe COVID-19 in males

The polymorphism L412F in TLR3 has been associated with several infectious diseases. However, the mechanism underlying this association is still unexplored. Here, we show that the L412F polymorphism in TLR3 is a marker of severity in COVID-19. This association increases in the sub-cohort of males. Impaired macroautophagy/autophagy and reduced TNF/TNFα production was demonstrated in HEK293 cells transfected with TLR3L412F-encoding plasmid and stimulated with specific agonist poly(I:C). A statistically significant reduced survival at 28 days was shown in L412F COVID-19 patients treated with the autophagy-inhibitor hydroxychloroquine (p = 0.038). An increased frequency of autoimmune disorders such as co-morbidity was found in L412F COVID-19 males with specific class II HLA haplotypes prone to autoantigen presentation. Our analyses indicate that L412F polymorphism makes males at risk of severe COVID-19 and provides a rationale for reinterpreting clinical trials considering autophagy pathways. Abbreviations: AP: autophagosome; AUC: area under the curve; BafA1: bafilomycin A1; COVID-19: coronavirus disease-2019; HCQ: hydroxychloroquine; RAP: rapamycin; ROC: receiver operating characteristic; SARS-CoV-2: severe acute respiratory syndrome coronavirus 2; TLR: toll like receptor; TNF/TNF-α: tumor necrosis factor