Signatures of Life Detected in Images of Rocks Using Neural Network Analysis Demonstrate New Potential for Searching for Biosignatures on the Surface of Mars

Microorganisms play a role in the construction or modulation of various types of landforms. They are especially notable for forming microbially induced sedimentary structures (MISS). Such microbial structures have been considered to be among the most likely biosignatures that might be encountered on the martian surface. Twenty-nine algorithms have been tested with images taken during a laboratory experiment for testing their performance in discriminating mat cracks (MISS) from abiotic mud cracks. Among the algorithms, neural network types produced excellent predictions with similar precision of 0.99. Following that step, a convolutional neural network (CNN) approach has been tested to see whether it can conclusively detect MISS in images of rocks and sediment surfaces taken at different natural sites where present and ancient (fossil) microbial mat cracks and abiotic desiccation cracks were observed. The CNN approach showed excellent prediction of biotic and abiotic structures from the images (global precision, sensitivity, and specificity, respectively, 0.99, 0.99, and 0.97). The key areas of interest of the machine matched well with human expertise for distinguishing biotic and abiotic forms (in their geomorphological meaning). The images indicated clear differences between the abiotic and biotic situations expressed at three embedded scales: texture (size, shape, and arrangement of the grains constituting the surface of one form), form (outer shape of one form), and pattern of form arrangement (arrangement of the forms over a few square meters). The most discriminative components for biogenicity were the border of the mat cracks with their tortuous enlarged and blistered morphology more or less curved upward, sometimes with thin laminations. To apply this innovative biogeomorphological approach to the images obtained by rovers on Mars, the main physical and biological sources of variation in abiotic and biotic outcomes must now be further considered.

Climate change threatens olive oil production in the Levant

The olive tree (Olea europaea L.) is one of the species best adapted to a Mediterranean-type climate^1-8. Nonetheless, the Mediterranean Basin is deemed to be a climate change 'hotspot' by the Intergovernmental Panel on Climate Change^9,10 because future model projections suggest considerable warming and drying^11,12. Within this context, new environmental challenges will arise in the coming decades, which will both weaken and threaten olive-growing areas, leading to a loss of productivity and changes in fruit and oil quality^13-15. Olive growing, a core of the Mediterranean economy, might soon be under stress. To probe the link between climate and olive trees, we here report 5,400 years of olive tree dynamics from the ancient city of Tyre, Lebanon. We show that optimal fruiting scales closely with temperature. Present-day and palaeo data define an optimal annual average temperature of 16.9 ± 0.3 °C for olive flowering that has existed at least since the Neolithic period. According to our projections, during the second half of the twenty-first century, temperature increases in Lebanon will have detrimental consequences on olive tree growth and olive oil production, especially in the country's southern regions, which will become too hot for optimal flowering and fruiting. These data provide a template to understand present and future thresholds of olive production under climate change.

Single cell atlas of cd45+ cells in angiotensin II-induced hypertension

 

Hypertension has been recently identified as an inflammatory disease. Immune cell infiltration is a characteristic feature in the vasculature and the kidneys in experimental hypertension, but the unique nature of such inflammatory infiltrates has not yet been comprehensively characterised.

Accordingly, we aimed to provide in-depth characteristics of immune cells in the vasculature and the kidneys in experimental hypertension.

To achieve this, we used single-cell RNA-sequencing of leukocytes (CD45+ cells were sorted) using the 10x Genomics platform in the aortas and the kidneys of male 12-week-old C57BL/6J mice (n=16–17/group) upon AngII (490 ng/min/kg) or sham buffer 14-day infusion, using osmotic minipumps. Samples were pooled to analyse three independent replicates. Bioinformatics analysis used Seurat/R to identify immune cell subpopulations and characterise differentially expressed genes (DEGs), pathways, and interactions signatures.

Ang II infusion increases the total number of CD45+ leukocytes in the aorta (346.7±89.1 vs. 1210±214.3; p=0,048), while in the kidneys, this was much less pronounced (1.1±0.5 fold vs. sham). Fifteen leukocyte populations/clusters were identified in the aorta and kidney based on their unique markers. In the aorta, shifts in numerous populations were evident, with the most significant differences in tissue-resident macrophages and activated tissue-resident macrophages, monocyte-derived dendritic cells and NK cells (Figure 1). Kidneys did not display such profound changes. The transcriptomic profile analysis showed 767 significant DEGs in the aorta and only 35 in the kidney. CellChat analysis also indicated more robust interactions between the immune cells in the aorta than in kidneys. These included Ifitm1, Apoe, Il1b, and C1q a/b/c, which were shared between aorta and kidney and may play an immunoregulatory role, affecting smooth muscle cell proliferation and arterial vascular remodelling. Top up-regulated leukocyte genes in the aorta included Ccl8, Ccl3, Cxcl2, Lyz2, and Spp1, while in the kidney, Cd74, Cst3, Fos, Fcer1g, Tyrobp, and Ccl4. GO pathway signatures of aortic leukocyte DEGs revealed pathways related to leukocyte migration, cytokine production, T cell activation, and leukocyte activation and adhesion. Cell-specific analysis showed that macrophage subpopulations most strongly increased in Ang II-induced hypertension displayed the most pronounced changes in the transcriptome profiles and cell-cell interactions.

Comprehensive single-cell RNA sequencing identifies tissue-resident macrophages, monocyte-derived dendritic cells, and NK cells as most affected leukocyte subpopulations in hypertensive vasculature. Differentially expressed genes support the role of these cells in vascular remodelling and propagation of inflammation, further supporting the identification of these cells as potential future targets for therapeutic interventions in hypertension.

Funding Acknowledgement

Type of funding sources: Public grant(s) – EU funding. Main funding source(s): European Research Council

Characterization of Xanthomonas arboricola pv. juglandis Bacteriophages against Bacterial Walnut Blight and Field Evaluation

Xanthomonas arboricola pv. juglandis (hereafter X. juglandis) is the etiological agent of walnut blight, the most important bacterial disease affecting walnut production worldwide. Currently, the disease is treated mainly with copper-derived compounds (e.g., CuSO4) despite the evidence of genetic resistance in these strains. Regarding the effectiveness and sustainability, the use of a bacteriophage appears to be a biocontrol alternative to reduce X. juglandis load and symptomatology of walnut blight. Here, the phages f20-Xaj, f29-Xaj, and f30-Xaj were characterized, and their effectiveness in walnut orchards against walnut blight was determined. These bacteriophages showed a specific lytic infection in X. juglandis strains isolated from Chile and France. Phylogenetic analysis of the complete genome of f20-Xaj and f30-Xaj indicates that these phages belong to the Pradovirus genus. In the field, the cocktail of these bacteriophages showed similar effectivity to CuSO4 in the reduction of incidence and severity in walnut tissue. Moreover, the bacterial load of X. juglandis was significantly reduced in the presence of bacteriophages in contrast to a CuSO4 treatment. These results show that the use of bacteriophages can be an alternative to combat the symptoms of walnut blight caused by X. juglandis.

The first use of olives in Africa around 100,000 years ago

The olive tree was an iconic plant for most of the past Mediterranean civilizations, for which it had important economic value. Here we report the earliest use of fruits and wood from olive trees in Africa so far, around 100,000 years ago. These findings suggest the presence of olive trees on the Atlantic coast of Morocco during most of the last glacial period, and the use of olives by the early Homo sapiens for fuel management and most probably for consumption.

Task-induced subjective fatigue and resting-state striatal connectivity following traumatic brain injury

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Fatigue is a very frequent and disabling symptom in traumatic brain injury (TBI).

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Effects of task-induced fatigue on resting-state functional connectivity (rsFC).

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Striatal rsFC relates differently to subjective fatigue in TBI compared to controls.

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Default mode network rsFC relates similar to subjective fatigue in TBI and controls.

Background

People with traumatic brain injury (TBI) often experience fatigue, but an understanding of the neural underpinnings of fatigue following TBI is still lacking. This study used resting-state functional magnetic resonance imaging (rs-fMRI) to examine associations between functional connectivity (FC) changes and task-induced changes in subjective fatigue in people with moderate-severe TBI.

Methods

Sixteen people with moderate-severe TBI and 17 matched healthy controls (HC) performed an adaptive N-back task (working memory task) to induce cognitive fatigue. Before and after the task they rated their state fatigue level and underwent rs-fMRI. Seed-to-voxel analyses with seeds in areas involved in cognitive fatigue, namely the striatum and default mode network (DMN) including, medial prefrontal cortex and posterior cingulate cortex, were performed.

Results

The adaptive N-back task was effective in inducing fatigue in both groups. Subjective task-induced fatigue was positively associated with FC between striatum and precuneus in people with TBI, while there was a negative association in HC. In contrast, subjective task-induced fatigue was negatively associated with FC between striatum and cerebellum in the TBI group, while there was no association in HC. Similar associations between task-induced subjective fatigue and DMN FC were found across the groups.

Conclusions

Our results suggest that the subjective experience of fatigue was linked to DMN connectivity in both groups and was differently associated with striatal connectivity in people with moderate-severe TBI compared to HC. Defining fatigue-induced neuronal network changes is pertinent to the development of treatments that target abnormal neuronal activity after TBI.

[Urinary bladder microbiome analysis and probiotic treatment options for women with recurrent urinary tract infections]

Novel preventive measures and therapeutic approaches are needed to reduce the frequency of recurrent urinary tract infections (rUTI) and the associated emergence of multidrug-resistant uropathogens. The aim of this review is to systematically present the available evidence on the urinary bladder microbiome of healthy women and those with rUTIs. In addition, relevant studies on the efficacy of probiotics in rUTIs are presented in a structured manner. This will provide an overview on the current state of research and an outlook on treatment strategies beyond the usual antimicrobial options.

Impact of new operational dosimetric quantities on individual monitoring services

The new operational dosimetric quantities framework, proposed in the ICRU95 report, has stimulated the scientific community to start investigations that aim to assess its impact on radiation protection practices. As part of this effort, the present study describes an inter-comparison exercise among individual monitoring services (IMSs) on passive whole-body dosimetry. The inter-comparison is performed in terms of both the existing operational dose quantityHp(10)and its proposed replacementHp, to allow an evaluation of the actions that may be necessary to adapt dosimetry systems to the proposed quantity. For two of the tested IMSs, simple modifications to the detector response function, or the dose calculation algorithm, were sufficient to obtain results within acceptable limits. However, these approaches are not sufficient to give a level of performance comparable to that achieved in terms ofHp(10). This may require a modification to dosemeter design.

The Search for a Signature of Life on Mars: A Biogeomorphological Approach

Geological evidence shows that life on Earth evolved in line with major concomitant changes in Earth surface processes and landforms. Biogeomorphological characteristics, especially those involving microorganisms, are potentially important facets of biosignatures on Mars and are generating increasing interest in astrobiology. Using Earth as an analog provides reasons to suspect that past or present life on Mars could have resulted in recognizable biogenic landforms. Here, we discuss the potential for, and limitations of, a biogeomorphological approach to identifying the subsets of landforms that are modulated or created through biological processes and thus present signatures of life on Mars. Subsets especially involving microorganisms that are potentially important facets of biosignatures on Mars are proposed: (i) weathering features, biocrusts, patinas, and varnishes; (ii) microbialites and microbially induced sedimentary structures (MISS); (iii) bioaccumulations of skeletal remains; (iv) degassing landforms; (v) cryoconites; (vi) self-organized patterns; (vii) unclassified non-analog landforms. We propose a biogeomorphological frequency histogram approach to identify anomalies/modulations in landform properties. Such detection of anomalies/modulations will help track a biotic origin and lead to the development of an integrative multiproxy and multiscale approach combining morphological, structural, textural, and geochemical expertise. This perspective can help guide the choice of investigation sites for future missions and the types and scales of observations to be made by orbiters and rovers.

The ICRU Proposal for New Operational Quantities for External Radiation

Report Committee 26 of the ICRU proposes a set of operational quantities for radiation protection for external radiation, directly based on effective dose and for an extended range of particles and energies. It is accompanied by quantities for estimating deterministic effects to the eye lens and the local skin. The operational quantities are designed to overcome the conceptual and technical shortcomings of those presently in use. This paper describes the proposed operational quantities, and highlights the improvements with respect to the present, legal monitoring quantities.

Clinical performance of chairside CAD/CAM feldspathic ceramic posterior shoulder crowns and endocrowns up to 12 years

In 55 patients, 25 endocrowns (test) and 40 shoulder crowns (control) were produced chairside in a private practice using the Cerec 3 (CAD/CAM) method and Vita Mark II feldspathic ceramic. The crowns were examined at baseline and after up to 12 years using modified USPHS criteria. The survival estimate was assessed by Kaplan-Meier analysis. The 12 years survival estimate of the shoulder crowns was 95% on molars and 94.7% on premolars. Endocrowns showed 90.5% survival on molars and 75% on premolars. Statistically, the differences between the survival estimates were not significant (P > 0.05). The longevity of Vita Mark II Cerec 3 shoulder crowns on molars and premolars, as well as of endocrowns on molars, proved to be--for private practice--a very acceptable result, while the premolar endocrowns tended to show a higher risk for failure.

Vulnerability of Mediterranean ecosystems to long-term changes along the coast of Israel

Although human activity is considered to be a major driving force affecting the distribution and dynamics of Mediterranean ecosystems, the full consequences of projected climate variability and relative sea-level changes on fragile coastal ecosystems for the next century are still unknown. It is unclear how these waterfront ecosystems can be sustained, as well as the services they provide, when relative sea-level rise and global warming are expected to exert even greater pressures in the near future (drought, habitat degradation and accelerated shoreline retreat). Haifa Bay, northern Israel, has recorded a landward sea invasion, with a maximum sea penetration 4,000 years ago, during an important period of urban development and climate instability. Here, we examine the cumulative pressure of climate shifts and relative sea-level changes in order to investigate the patterns and mechanisms behind forest replacement by an open-steppe. We provide a first comprehensive and integrative study for the southern Levant that shows that (i) human impact, through urbanization, has been the main driver behind ecological erosion in the past 4,000 years; (ii) climate pressures have reinforced this impact; and (iii) local coastal changes have played a decisive role in eroding ecosystem resilience. These three parameters, which have closely interacted during the last 4,000 years in Haifa Bay, clearly indicate that for an efficient management of the coastal habitats, anthropogenic pressures linked to urban development must be reduced in order to mitigate the predicted effects of Global Change.

Short-latency single unit processing in olfactory cortex

Abstract Single-unit recording of layer II-III cells in olfactory (piriform) cortex was performed on awake, unrestrained rats actively engaged in learning novel odors in an olfactory discrimination task. Five of the 67 cells tested had very brief monophasic action potentials and high spontaneous firing rates (30-80 Hz); it is suggested that these units were interneurons. The remainder of the neurons had broader spikes and did not discharge for prolonged periods. Thirty-nine percent of the broad spike cells responded to at least one and usually more of the odors presented to the rats during either of the first two trials on which that odor was present, but, in most cases, these responses occurred only very infrequently over the course of subsequent trials. Six percent of the broad-spike group, how ever, continued firing robustly to a single odor but not to others. From these results it appears that most cells in piriform cortex do not respond to most odors, i.e., coding is exceedingly sparse. A subgroup of the predominant broad-spike cell type does react to several odors but this response drops out with repeated exposure, perhaps because of training. However, a few members of this class (a small fraction of the total cell population) do go on responding to a particular odor, thus exhibiting a form of odor specificity. The results are discussed with regard to predictions from recently developed models of the olfactory cortex.

First assessment of water and carbon cycles in two tropical coastal rivers of south-west India: an isotopic approach

RATIONALE

The contribution of tropical coastal rivers to the global carbon budget remains unmeasured, despite their high water dynamics, i.e. higher run-off with their basin characteristic of warm temperature. Two rivers draining the western part of the Western Ghats, the Swarna (length 80 km) and Nethravati (147 km) Rivers, were studied for water and carbon cycles.

METHODS

The stable isotope ratios of oxygen (δ(18) O values), hydrogen (δ(2) H values) and carbon (δ(13) C values) were used to understand the water circulation, the weathering processes and the carbon biogeochemical cycle. The river water samples were collected during the dry post-monsoonal season (November 2011).

RESULTS

The δ(18) O and δ(2) H values of river water suggested that the monsoonal vapour source and its high recycling have a dominant role because of the orographical and tropical conditions. The absence of calcareous rocks has led to dissolved inorganic carbon (DIC) mainly originating from atmospheric/soil CO2 , via rock-weathering processes, and the low soil organic matter combined with high run-off intensity has led to low riverine dissolved organic carbon (DOC) contents. The δ(13) C values increase from upstream to downstream and decrease with increasing pCO2 . There is a positive relationship between the δ(13) CDIC values and the DOC concentrations in these two rivers that is contrary to that in most of the studied rivers of the world.

CONCLUSIONS

The higher evapotranspiration supported by tropical conditions suggests that there are higher vapour recycling process in the Swarna and Nethravati basins as studied from the water δ(18) O and δ(2) H values. The basin characteristics of higher rainfall/run-off accompanied by warm temperature suggest that the δ(13) C value of riverine DIC is mainly controlled by the weathering of source rocks (silicates) with variation along the river course by CO2 degassing from the river water to the atmosphere and is less dominated by the oxidation of DOC.

Environmental roots of the late bronze age crisis

The Late Bronze Age world of the Eastern Mediterranean, a rich linkage of Aegean, Egyptian, Syro-Palestinian, and Hittite civilizations, collapsed famously 3200 years ago and has remained one of the mysteries of the ancient world since the event's retrieval began in the late 19(th) century AD/CE. Iconic Egyptian bas-reliefs and graphic hieroglyphic and cuneiform texts portray the proximate cause of the collapse as the invasions of the "Peoples-of-the-Sea" at the Nile Delta, the Turkish coast, and down into the heartlands of Syria and Palestine where armies clashed, famine-ravaged cities abandoned, and countrysides depopulated. Here we report palaeoclimate data from Cyprus for the Late Bronze Age crisis, alongside a radiocarbon-based chronology integrating both archaeological and palaeoclimate proxies, which reveal the effects of abrupt climate change-driven famine and causal linkage with the Sea People invasions in Cyprus and Syria. The statistical analysis of proximate and ultimate features of the sequential collapse reveals the relationships of climate-driven famine, sea-borne-invasion, region-wide warfare, and politico-economic collapse, in whose wake new societies and new ideologies were created.

Construction of a penoid after penectomy using a transpositioned testicle

Total penectomy results in a disfiguring anatomic situation which may have a devastating effect on the patient's psychologic health. Here we report our experience with construction of a penoid by covering a transpositioned testicle with remaining penile skin after radical penectomy in 2 patients with malignant underlying disease.

Muscle-derived cells for treatment of iatrogenic sphincter damage and urinary incontinence in men

Introduction. Aim of this study was to assess the safety and efficacy of injection of autologous muscle-derived cells into the urinary sphincter for treatment of postprostatectomy urinary incontinence in men and to characterize the injected cells prior to transplantation. Methods. 222 male patients with stress urinary incontinence and sphincter damage after uroloical procedures were treated with transurethral injection of autologous muscle-derived cells. The transplanted cells were investigated after cultivation and prior to application by immunocytochemistry using different markers of myogenic differentiation. Feasibility and functionality assessment was achieved with a follow-up of at least 12 months. Results. Follow-up was at least 12 months. Of the 222 treated patients, 120 responded to therapy of whom 26 patients (12%) were continent, and 94 patients (42%) showed improvement. In 102 (46%) patients, the therapy was ineffective. Clinical improvement was observed on average 4.7 months after transplantation and continued in all improved patients. The cells injected into the sphincter were at least ~50% of myogenic origin and representative for early stages of muscle cell differentiation. Conclusions. Transurethral injection of muscle-derived cells into the damaged urethral sphincter of male patients is a safe procedure. Transplanted cells represent different phases of myogenic differentiation.

Isotopic values of the Amazon headwaters in Peru: comparison of the wet upper Río Madre de Dios watershed with the dry Urubamba-Apurimac river system

RATIONALE

The Amazon River is a huge network of long tributaries, and little is known about the headwaters. Here we present a study of one wet tropical Amazon forest side, and one dry and cold Atiplano plateau, originating from the same cordillera. The aim is to see how this difference affects the water characteristics.

METHODS

Different kind of water (spring, lake, river, rainfall) were sampled to determine their stable isotopes ratios (oxygen 18/16 and hydrogen 2/1) by continuous flow isotope ratio mass spectrometry (IRMS). These ratios coupled with chemical analysis enabled us to determine the origin of the water, the evaporation process and the water recycling over the Amazon plain forest and montane cloud forest.

RESULTS

Our study shows that the water flowing in the upper Madre de Dios basin comes mainly from the foothill humid forest, with a characteristic water recycling process signature, and not from higher glacier melt. On the contrary, the water flowing in the Altiplano Rivers is mainly from glacier melts, with a high evaporation process. This snow and glacier are fed mainly by Atlantic moisture which transits over the large Amazon forest.

CONCLUSIONS

The Atlantic moisture and its recycling over this huge tropical forest display a progressive isotopic gradient, as a function of distance from the ocean. At the level of the montane cloud forest and on the altiplano, respectively, additional water recycling and evaporation occur, but they are insignificant in the total water discharge.

The Sea Peoples, from cuneiform tablets to carbon dating

The 13(th) century BC witnessed the zenith of the Aegean and Eastern Mediterranean civilizations which declined at the end of the Bronze Age, ∼3200 years ago. Weakening of this ancient flourishing Mediterranean world shifted the political and economic centres of gravity away from the Levant towards Classical Greece and Rome, and led, in the long term, to the emergence of the modern western civilizations. Textual evidence from cuneiform tablets and Egyptian reliefs from the New Kingdom relate that seafaring tribes, the Sea Peoples, were the final catalyst that put the fall of cities and states in motion. However, the lack of a stratified radiocarbon-based archaeology for the Sea People event has led to a floating historical chronology derived from a variety of sources spanning dispersed areas. Here, we report a stratified radiocarbon-based archaeology with anchor points in ancient epigraphic-literary sources, Hittite-Levantine-Egyptian kings and astronomical observations to precisely date the Sea People event. By confronting historical and science-based archaeology, we establish an absolute age range of 1192-1190 BC for terminal destructions and cultural collapse in the northern Levant. This radiocarbon-based archaeology has far-reaching implications for the wider Mediterranean, where an elaborate network of international relations and commercial activities are intertwined with the history of civilizations.