Postharvest control of Rhizopus stolonifer on blackberry (Rubus fruticosus) by blackberry native crop bacteria

The potential of four native bacterial strains of blackberries cv. Brazos (Rubus fruticosus): Bacillus subtilis (BSS), Bacillus subtilis (BSL), Bacillus licheniformis (BLI) and Leifsonia aquatica (LAQ), was evaluated for the postharvest control of soft rot caused by Rhizopus stolonifer in blackberry fruits. The fruits were treated with cell suspensions (CS) and cell-free supernatants (CFE) from each bacterial strain and were infected with two strains of R. stolonifer (RSA and RSC). The severity and inhibition percentage of the disease were determined. Additionally, the inhibition by siderophores and the inhibition percentage of R. stolonifer spore germination were analyzed as possible control mechanisms. The CS of BSS inhibited RSA by 45.8%, followed by CFE of LAQ which controlled the same strain by 39.7%. The CS of BLI inhibited RSC by 37.7%, whereas the CFE of BSS and LAQ controlled it by 47.7 and 41.8%, respectively. All bacterial strains inhibited RSA and RSC by siderophores production (38.7 to 48.6 %) and the inhibition of spore germination of RSC was higher than 93% after 48 h. This work is one of the first to report R. stolonifer control by native bacteria CS and CFE, particularly LAQ in postharvested blackberry fruits. These results show the combination of mechanisms used by bacteria to control both R. stolonifer strains.The potential of four native bacterial strains of blackberries cv. Brazos (Rubus fruticosus): Bacillus subtilis (BSS), Bacillus subtilis (BSL), Bacillus licheniformis (BLI) and Leifsonia aquatica (LAQ), was evaluated for the postharvest control of soft rot caused by Rhizopus stolonifer in blackberry fruits. The fruits were treated with cell suspensions (CS) and cell-free supernatants (CFE) from each bacterial strain and were infected with two strains of R. stolonifer (RSA and RSC). The severity and inhibition percentage of the disease were determined. Additionally, the inhibition by siderophores and the inhibition percentage of R. stolonifer spore germination were analyzed as possible control mechanisms. The CS of BSS inhibited RSA by 45.8%, followed by CFE of LAQ which controlled the same strain by 39.7%. The CS of BLI inhibited RSC by 37.7%, whereas the CFE of BSS and LAQ controlled it by 47.7 and 41.8%, respectively. All bacterial strains inhibited RSA and RSC by siderophores production (38.7 to 48.6 %) and the inhibition of spore germination of RSC was higher than 93% after 48 h. This work is one of the first to report R. stolonifer control by native bacteria CS and CFE, particularly LAQ in postharvested blackberry fruits. These results show the combination of mechanisms used by bacteria to control both R. stolonifer strains

Predictive model for bacterial co-infection in patients hospitalized for COVID-19: a multicenter observational cohort study

Objective: The aim of our study was to build a predictive model able to stratify the risk of bacterial co-infection at hospitalization in patients with COVID-19. Methods: Multicenter observational study of adult patients hospitalized from February to December 2020 with confirmed COVID-19 diagnosis. Endpoint was microbiologically documented bacterial co-infection diagnosed within 72 h from hospitalization. The cohort was randomly split into derivation and validation cohort. To investigate risk factors for co-infection univariable and multivariable logistic regression analyses were performed. Predictive risk score was obtained assigning a point value corresponding to β-coefficients to the variables in the multivariable model. ROC analysis in the validation cohort was used to estimate prediction accuracy. Results: Overall, 1733 patients were analyzed: 61.4% males, median age 69 years (IQR 57-80), median Charlson 3 (IQR 2-6). Co-infection was diagnosed in 110 (6.3%) patients. Empirical antibiotics were started in 64.2 and 59.5% of patients with and without co-infection (p = 0.35). At multivariable analysis in the derivation cohort: WBC ≥ 7.7/mm3, PCT ≥ 0.2 ng/mL, and Charlson index ≥ 5 were risk factors for bacterial co-infection. A point was assigned to each variable obtaining a predictive score ranging from 0 to 5. In the validation cohort, ROC analysis showed AUC of 0.83 (95%CI 0.75-0.90). The optimal cut-point was ≥2 with sensitivity 70.0%, specificity 75.9%, positive predictive value 16.0% and negative predictive value 97.5%. According to individual risk score, patients were classified at low (point 0), intermediate (point 1), and high risk (point ≥ 2). CURB-65 ≥ 2 was further proposed to identify patients at intermediate risk who would benefit from early antibiotic coverage. Conclusions: Our score may be useful in stratifying bacterial co-infection risk in COVID-19 hospitalized patients, optimizing diagnostic testing and antibiotic use

Global, regional, and national comparative risk assessment of 79 behavioural, environmental and occupational, and metabolic risks or clusters of risks, 1990-2015: a systematic analysis for the Global Burden of Disease Study 2015

SummaryBackground The Global Burden of Diseases, Injuries, and Risk Factors Study 2015 provides an up-to-date synthesis of the evidence for risk factor exposure and the attributable burden of disease. By providing national and subnational assessments spanning the past 25 years, this study can inform debates on the importance of addressing risks in context. Methods We used the comparative risk assessment framework developed for previous iterations of the Global Burden of Disease Study to estimate attributable deaths, disability-adjusted life-years (DALYs), and trends in exposure by age group, sex, year, and geography for 79 behavioural, environmental and occupational, and metabolic risks or clusters of risks from 1990 to 2015. This study included 388 risk-outcome pairs that met World Cancer Research Fund-defined criteria for convincing or probable evidence. We extracted relative risk and exposure estimates from randomised controlled trials, cohorts, pooled cohorts, household surveys, census data, satellite data, and other sources. We used statistical models to pool data, adjust for bias, and incorporate covariates. We developed a metric that allows comparisons of exposure across risk factors—the summary exposure value. Using the counterfactual scenario of theoretical minimum risk level, we estimated the portion of deaths and DALYs that could be attributed to a given risk. We decomposed trends in attributable burden into contributions from population growth, population age structure, risk exposure, and risk-deleted cause-specific DALY rates. We characterised risk exposure in relation to a Socio-demographic Index (SDI). Findings Between 1990 and 2015, global exposure to unsafe sanitation, household air pollution, childhood underweight, childhood stunting, and smoking each decreased by more than 25%. Global exposure for several occupational risks, high body-mass index (BMI), and drug use increased by more than 25% over the same period. All risks jointly evaluated in 2015 accounted for 57·8% (95% CI 56·6–58·8) of global deaths and 41·2% (39·8–42·8) of DALYs. In 2015, the ten largest contributors to global DALYs among Level 3 risks were high systolic blood pressure (211·8 million [192·7 million to 231·1 million] global DALYs), smoking (148·6 million [134·2 million to 163·1 million]), high fasting plasma glucose (143·1 million [125·1 million to 163·5 million]), high BMI (120·1 million [83·8 million to 158·4 million]), childhood undernutrition (113·3 million [103·9 million to 123·4 million]), ambient particulate matter (103·1 million [90·8 million to 115·1 million]), high total cholesterol (88·7 million [74·6 million to 105·7 million]), household air pollution (85·6 million [66·7 million to 106·1 million]), alcohol use (85·0 million [77·2 million to 93·0 million]), and diets high in sodium (83·0 million [49·3 million to 127·5 million]). From 1990 to 2015, attributable DALYs declined for micronutrient deficiencies, childhood undernutrition, unsafe sanitation and water, and household air pollution; reductions in risk-deleted DALY rates rather than reductions in exposure drove these declines. Rising exposure contributed to notable increases in attributable DALYs from high BMI, high fasting plasma glucose, occupational carcinogens, and drug use. Environmental risks and childhood undernutrition declined steadily with SDI; low physical activity, high BMI, and high fasting plasma glucose increased with SDI. In 119 countries, metabolic risks, such as high BMI and fasting plasma glucose, contributed the most attributable DALYs in 2015. Regionally, smoking still ranked among the leading five risk factors for attributable DALYs in 109 countries; childhood underweight and unsafe sex remained primary drivers of early death and disability in much of sub-Saharan Africa. Interpretation Declines in some key environmental risks have contributed to declines in critical infectious diseases. Some risks appear to be invariant to SDI. Increasing risks, including high BMI, high fasting plasma glucose, drug use, and some occupational exposures, contribute to rising burden from some conditions, but also provide opportunities for intervention. Some highly preventable risks, such as smoking, remain major causes of attributable DALYs, even as exposure is declining. Public policy makers need to pay attention to the risks that are increasingly major contributors to global burden. Funding Bill & Melinda Gates Foundation

Stressed out symbiotes:hypotheses for the influence of abiotic stress on arbuscular mycorrhizal fungi

Abiotic stress is a widespread threat to both plant and soil communities. Arbuscular mycorrhizal (AM) fungi can alleviate effects of abiotic stress by improving host plant stress tolerance, but the direct effects of abiotic stress on AM fungi are less well understood. We propose two hypotheses predicting how AM fungi will respond to abiotic stress. The stress exclusion hypothesis predicts that AM fungal abundance and diversity will decrease with persistent abiotic stress. The mycorrhizal stress adaptation hypothesis predicts that AM fungi will evolve in response to abiotic stress to maintain their fitness. We conclude that abiotic stress can have effects on AM fungi independent of the effects on the host plant. AM fungal communities will change in composition in response to abiotic stress, which may mean the loss of important individual species. This could alter feedbacks to the plant community and beyond. AM fungi will adapt to abiotic stress independent of their host plant. The adaptation of AM fungi to abiotic stress should allow the maintenance of the plant-AM fungal mutualism in the face of changing climates. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s00442-016-3673-7) contains supplementary material, which is available to authorized users

Mapping geographical inequalities in childhood diarrhoeal morbidity and mortality in low-income and middle-income countries, 2000–17 : analysis for the Global Burden of Disease Study 2017

Background Across low-income and middle-income countries (LMICs), one in ten deaths in children younger than 5 years is attributable to diarrhoea. The substantial between-country variation in both diarrhoea incidence and mortality is attributable to interventions that protect children, prevent infection, and treat disease. Identifying subnational regions with the highest burden and mapping associated risk factors can aid in reducing preventable childhood diarrhoea. Methods We used Bayesian model-based geostatistics and a geolocated dataset comprising 15 072 746 children younger than 5 years from 466 surveys in 94 LMICs, in combination with findings of the Global Burden of Diseases, Injuries, and Risk Factors Study (GBD) 2017, to estimate posterior distributions of diarrhoea prevalence, incidence, and mortality from 2000 to 2017. From these data, we estimated the burden of diarrhoea at varying subnational levels (termed units) by spatially aggregating draws, and we investigated the drivers of subnational patterns by creating aggregated risk factor estimates. Findings The greatest declines in diarrhoeal mortality were seen in south and southeast Asia and South America, where 54·0% (95% uncertainty interval [UI] 38·1–65·8), 17·4% (7·7–28·4), and 59·5% (34·2–86·9) of units, respectively, recorded decreases in deaths from diarrhoea greater than 10%. Although children in much of Africa remain at high risk of death due to diarrhoea, regions with the most deaths were outside Africa, with the highest mortality units located in Pakistan. Indonesia showed the greatest within-country geographical inequality; some regions had mortality rates nearly four times the average country rate. Reductions in mortality were correlated to improvements in water, sanitation, and hygiene (WASH) or reductions in child growth failure (CGF). Similarly, most high-risk areas had poor WASH, high CGF, or low oral rehydration therapy coverage. Interpretation By co-analysing geospatial trends in diarrhoeal burden and its key risk factors, we could assess candidate drivers of subnational death reduction. Further, by doing a counterfactual analysis of the remaining disease burden using key risk factors, we identified potential intervention strategies for vulnerable populations. In view of the demands for limited resources in LMICs, accurately quantifying the burden of diarrhoea and its drivers is important for precision public health

Diversity and Potential Function of the Bacterial Rhizobiome Associated to <i>Physalis Ixocarpa</i> Broth. in a Milpa System, in Michoacan, Mexico

Michoacan state has a long history in plant domestication’s. Physalis ixocarpa is a native plant that growth associated to maize crops from this region. Due to the domestication process includes the adaptation to environmental factors, we ask if (1) Does P. ixocarpa has the capacity of association with bacterial communities of the zone where it was domesticated? and (2) Does the rhizobiome of this plant can increase the potential functions in the soil? An experiment was established in a traditional milpa system. Samples of rhizobiome from corn, P. ixocarpa, P. philadelphica, and soil were sequenced using Next Generation Sequencing in the region 16S. The potential function, metabolic pathway reconstruction and participation of each bacteria genus was inferred using iVikodak platform. A total of 34 Phyla and 795 genera were identified. Purine metabolism’s was the principal function, where all rhizobiomes showed similar metabolic pathways. However, the difference among plant species is the participation of the distinct genera in the Purine metabolism. We conclude that the rhizobiome of P. ixocarpa maintains the capacity of bacterial association in the region and shows complementarity for the soil functions. Therefore, their utilization can be helpful in zones where the agricultural practices have degraded microbiological soil conditions

Diversity and Potential Function of the Bacterial Rhizobiome Associated to Physalis Ixocarpa Broth. in a Milpa System, in Michoacan, Mexico

Michoacan state has a long history in plant domestication&rsquo;s. Physalis ixocarpa is a native plant that growth associated to maize crops from this region. Due to the domestication process includes the adaptation to environmental factors, we ask if (1) Does P. ixocarpa has the capacity of association with bacterial communities of the zone where it was domesticated? and (2) Does the rhizobiome of this plant can increase the potential functions in the soil? An experiment was established in a traditional milpa system. Samples of rhizobiome from corn, P. ixocarpa, P. philadelphica, and soil were sequenced using Next Generation Sequencing in the region 16S. The potential function, metabolic pathway reconstruction and participation of each bacteria genus was inferred using iVikodak platform. A total of 34 Phyla and 795 genera were identified. Purine metabolism&rsquo;s was the principal function, where all rhizobiomes showed similar metabolic pathways. However, the difference among plant species is the participation of the distinct genera in the Purine metabolism. We conclude that the rhizobiome of P. ixocarpa maintains the capacity of bacterial association in the region and shows complementarity for the soil functions. Therefore, their utilization can be helpful in zones where the agricultural practices have degraded microbiological soil conditions

Efecto de hongos micorrícicos arbusculares y extracto acuoso de vermicompost sobre calidad de fresa

La aplicación de hongos micorrícicos arbusculares (HMA) y vermicompost constituye una alternativa al uso de agroquímicos para garantizar el rendimiento y calidad de los cultivos, disminuyendo el costo y el deterioro del medio ambiente. En el presente trabajo se evaluó el efecto de HMA y extracto acuoso de vermicompost (VL) sobre la calidad de frutos de fresa. Los tratamientos fueron: 1) control absoluto con agua (CTL); 2) fertilizado (F); 3) inoculado con HMA (M); 4) con vermicompost líquido (VL); 5) inoculado con HMA y fertilizado (M+F); 6) fertilizado y con vermicompost líquido (VL+F); 7) inoculado con HMA, y con vermicompost líquido; 8) inoculado con HMA, fertilizado y con vermicompost líquido (M+F+VL). Los parámetros evaluados fueron: color, peso, diámetro polar, diámetro ecuatorial, firmeza, ºBrix, análisis proximal, contenido de fenoles, flavonoides y antocianinas. Los tratamientos VL y M promovieron un peso de fruto significativamente mayor al de los frutos del tratamiento fertilizado (39%). En general los tratamientos con HMA incrementaron el % de ceniza, excepto cuando estos se combinaron con fertilizante. El tratamiento M promovió un aumento significativo del % de ceniza en los frutos de fresa en comparación con el tratamiento F (3.7% mayor). Los tratamientos con HMA y VL (solos o combinados) incrementaron el % de grasa de los frutos respecto al tratamiento F. No se encontraron efectos significativos de los tratamientos sobre el % de fibra cruda. Los frutos de plantas tratadas con VL+F fueron significativamente más firmes (20%) que los frutos del tratamiento F. Se observó que los frutos del tratamiento M+F presentaron los mayores valores de °Brix (14% más altos que en frutos del tratamiento F). Interesantemente, los frutos obtenidos de las plantas tratadas con VL y M+F presentaron un contenido de fenoles totales significativamente superior al de los frutos del tratamiento F (29 y 17%, respectivamente). En general, los tratamientos con HMA y VL promovieron la acumulación de flavonoides. Los frutos del tratamiento M presentaron un contenido significativamente mayor de estos pigmentos (1.8 veces) que los frutos del tratamiento F. El mayor contenido de antocianinas lo presentaron los frutos del tratamiento M+VL siendo 38% mayor que el contenido de estos pigmentos en frutos del tratamiento F. Los resultados demostraron que la aplicación de HMA y VL influencia significativamente atributos sensoriales y nutracéuticos de los frutos de fresa