Nouvelles gravures rupestres au Pla de Vall en So (Conflent, P.-O.)

Le Pla de Vall en So est un vieux relief érodé dominant la ville de Prades, en Conflent, entre 700 et 900 m d’altitude. Les recherches de Jean Abélanet ont permis d’y reconnaître plusieurs dolmens associés aux nombreuses roches à cupules et à rigoles, mais aussi les exceptionnelles figurations animalières du rocher de Fornols-Haut, témoignant d’un art paléolithique en plein air. En suivant cette trace, les prospections collectives conduites par la suite sur ce vaste secteur ont montré la rareté des gravures et la difficulté de les dater. Essentiellement géométriques, des incisions linéaires, des piquetages et des graffiti schématiques sur les schistes, parfois associés à des gisements archéologiques, ont cependant été découverts sur quelques roches et sont présentés pour partie iciEl Pla de Vall de So és un veil relleu erosionat que domina la vila de Prada, al Conflent, entre 700 i 900 m d’altura. Les recerques de Jean Abélanet hi han fit conèixer diversos dòlmens associats a les roques amb cúpules i reguerons, així com les excepcionals figuracions animalístiques de la roca de Fornols-Alt, que donen fe d’un art paleolític a l’aire lliure. Les prospeccions metòdiques efectuades després en aquell vast sector, han evidenciat l’escassedat dels gravats i les dificultats de datació que comporten. Tanmateix, s’han descobert incisions linears, puntejats i grafits esquemàtics, essencialment geomètrics, sobre diverses roques associades algunes a jaciments arqueològicsPla de Vall en So is an old eroded relief overlooking the Conflent town of Prades, at an altitude of between 700 - and 900 metres. The research carriedout by Jean Abélanet enabled the discovery of many dolmens associated with rocks carved with cupules and rigoles as well as the remarkable engraved Fornols Haut rock proving the presence of open-air Palaeolithic art. Further collective prospecting revealed the scarcity of engravings in this area, and the difficulty of dating them. However, schist rocks carved with linear incisions, spots, and schematic graffiti were found sometimes close to archaeological sites, examples of which are presented her

Improving the Detection of Epidemic Clones in Candida parapsilosis Outbreaks by Combining MALDI-TOF Mass Spectrometry and Deep Learning Approaches

International audienceIdentifying fungal clones propagated during outbreaks in hospital settings is a problem that increasingly confronts biologists. Current tools based on DNA sequencing or microsatellite analysis require specific manipulations that are difficult to implement in the context of routine diagnosis. Using deep learning to classify the mass spectra obtained during the routine identification of fungi by MALDI-TOF mass spectrometry could be of interest to differentiate isolates belonging to epidemic clones from others. As part of the management of a nosocomial outbreak due to Candida parapsilosis in two Parisian hospitals, we studied the impact of the preparation of the spectra on the performance of a deep neural network. Our purpose was to differentiate 39 otherwise fluconazole-resistant isolates belonging to a clonal subset from 56 other isolates, most of which were fluconazole-susceptible, collected during the same period and not belonging to the clonal subset. Our study carried out on spectra obtained on four different machines from isolates cultured for 24 or 48 h on three different culture media showed that each of these parameters had a significant impact on the performance of the classifier. In particular, using different culture times between learning and testing steps could lead to a collapse in the accuracy of the predictions. On the other hand, including spectra obtained after 24 and 48 h of growth during the learning step restored the good results. Finally, we showed that the deleterious effect of the device variability used for learning and testing could be largely improved by including a spectra alignment step during preprocessing before submitting them to the neural network. Taken together, these experiments show the great potential of deep learning models to identify spectra of specific clones, providing that crucial parameters are controlled during both culture and preparation steps before submitting spectra to a classifier

Fungal infections in mechanically ventilated patients with COVID-19 during the first wave: the French multicentre MYCOVID study

International audienceBACKGROUND: Patients with severe COVID-19 have emerged as a population at high risk of invasive fungal infections (IFIs). However, to our knowledge, the prevalence of IFIs has not yet been assessed in large populations of mechanically ventilated patients. We aimed to identify the prevalence, risk factors, and mortality associated with IFIs in mechanically ventilated patients with COVID-19 under intensive care. METHODS: We performed a national, multicentre, observational cohort study in 18 French intensive care units (ICUs). We retrospectively and prospectively enrolled adult patients (aged ≥18 years) with RT-PCR-confirmed SARS-CoV-2 infection and requiring mechanical ventilation for acute respiratory distress syndrome, with all demographic and clinical and biological follow-up data anonymised and collected from electronic case report forms. Patients were systematically screened for respiratory fungal microorganisms once or twice a week during the period of mechanical ventilation up to ICU discharge. The primary outcome was the prevalence of IFIs in all eligible participants with a minimum of three microbiological samples screened during ICU admission, with proven or probable (pr/pb) COVID-19-associated pulmonary aspergillosis (CAPA) classified according to the recent ECMM/ISHAM definitions. Secondary outcomes were risk factors of pr/pb CAPA, ICU mortality between the pr/pb CAPA and non-pr/pb CAPA groups, and associations of pr/pb CAPA and related variables with ICU mortality, identified by regression models. The MYCOVID study is registered with ClinicalTrials.gov, NCT04368221. FINDINGS: Between Feb 29 and July 9, 2020, we enrolled 565 mechanically ventilated patients with COVID-19. 509 patients with at least three screening samples were analysed (mean age 59·4 years [SD 12·5], 400 [79%] men). 128 (25%) patients had 138 episodes of pr/pb or possible IFIs. 76 (15%) patients fulfilled the criteria for pr/pb CAPA. According to multivariate analysis, age older than 62 years (odds ratio [OR] 2·34 [95% CI 1·39-3·92], p=0·0013), treatment with dexamethasone and anti-IL-6 (OR 2·71 [1·12-6·56], p=0·027), and long duration of mechanical ventilation (\textgreater14 days; OR 2·16 [1·14-4·09], p=0·019) were independently associated with pr/pb CAPA. 38 (7%) patients had one or more other pr/pb IFIs: 32 (6%) had candidaemia, six (1%) had invasive mucormycosis, and one (\textless1%) had invasive fusariosis. Multivariate analysis of associations with death, adjusted for candidaemia, for the 509 patients identified three significant factors: age older than 62 years (hazard ratio [HR] 1·71 [95% CI 1·26-2·32], p=0·0005), solid organ transplantation (HR 2·46 [1·53-3·95], p=0·0002), and pr/pb CAPA (HR 1·45 [95% CI 1·03-2·03], p=0·033). At time of ICU discharge, survival curves showed that overall ICU mortality was significantly higher in patients with pr/pb CAPA than in those without, at 61·8% (95% CI 50·0-72·8) versus 32·1% (27·7-36·7; p\textless0·0001). INTERPRETATION: This study shows the high prevalence of invasive pulmonary aspergillosis and candidaemia and high mortality associated with pr/pb CAPA in mechanically ventilated patients with COVID-19. These findings highlight the need for active surveillance of fungal pathogens in patients with severe COVID-19. FUNDING: Pfizer

Roches ornées, roches dressées

Jean Abélanet peut être considéré comme le pionnier de l'archéologie actuelle sur les terres nord-catalanes. Ce rôle de précurseur dans la découverte de sites majeurs, mais aussi sa contribution savante à l'avancée des études préhistoriques, tant sur le mégalithisme en Pyrénées que sur l'art rupestre post-glaciaire en Europe occidentale, justifient l'hommage qui lui est rendu par la communauté des chercheurs. Cet hommage a pris la forme d'un colloque placé sous l'égide de l'Association Archéologique des Pyrénées-Orientales, dont il fut membre fondateur, et de l'Université de Perpignan, dont il fut le premier enseignant en Préhistoire. Sont rassemblées dans cet ouvrage les contributions de 74 auteurs et co-auteurs. Ces 576 pages, abondamment illustrées par près de 300 figures, abordent des sujets très divers qui reflètent les différents champs d'études balayés par son insatiable et humaniste curiosité. Une première partie, remontant aux sources des arts et des mythes, éclaire certains aspects de l'art rupestre et du mégalithisme, depuis leurs origines jusqu'à nos jours, à partir de recherches récentes menées dans l'Ancien monde, des terres australes d'Afrique jusqu'en Europe de l'Ouest. Le second thème, tout en laissant une large place à l'étude des arts et des traditions funéraires, rassemble des travaux pluridisciplinaires menés à l'orient des Pyrénées, travaux d'historiographie, de palynologie, de géologie, d'archéologie préhistorique et historique, d'histoire ou d'ethnologie