Identification of black bean (Phaseolus vulgaris L.) genotypes resistant to anthracnose and rust for Veracruz and Chiapas, Mexico

Objective:to determine the reaction of 53 lines and three varieties of black beans to inoculation with Uromyces appendiculatusand Colletotrichum lindemuthianum, to identify genotypes resistant to rust and anthracnose. Design/methodology/approach:ten seedlings of each genotype were inoculated in the greenhouse with a suspension of U. appendiculatusurediospores and another 10 with a suspension of C. lindemuthianumconidia. Fourteen days after inoculation, the reaction of the genotypes to rust was evaluated with a severity scale of 1 to 6, and to anthracnose, with a scale of 0 to 4. The data were analyzed in a completely randomized design with 10 replications per treatment and for the separation of averages the LSD at 0.05 was applied. Results:41 genotypes showed a hypersensitivity reaction to rust, of which 25 had a reaction value of 2.0, statistically lower than that of the controls. In turn, 45 genotypes were resistant to anthracnose, of which 18 had a value of 1.0, statistically similar to that of Negro Jamapa and lower than that of the rest of the genotypes. Limitations of the study/implications:due to the diversity of races of both pathogens, the genotypes were inoculated with monopustular isolates of the main races of U. appendiculatusand with monosporic cultures of C. lindemuthianum, which occur in the bean crops of Veracruz and Chiapas. Findings/conclusions:25 lines resistant to rust and 18 to anthracnose were identified, which stood out for presenting the least damage from these diseases.Objective: to determine the reaction of 53 lines and three varieties of black bean (Phaseolus vulgaris L.) to inoculation with Uromyces appendiculatus and Colletotrichum lindemuthianum, to identify genotypes resistant to rust and anthracnose.Design/methodology/approach: 10 seedlings of each genotype were inoculated in the greenhouse with a suspension of U. appendiculatus uredospores and another 10 with a suspension of C. lindemuthianum conidia. At 14 days after inoculation, the reaction of the genotypes to rust was evaluated with a severity scale of 1 to 6, and to anthracnose, with ascale of 0 to 4. The data were analyzed in a completely randomized design with 10 replications per treatment and LSD at 0.05 was applied for the separation of averages.Results: 41 genotypes showed a hypersensitivity reaction to rust, of which 25 had a reaction value of 2.0, statistically lower than those of controls. In turn, 45 genotypes were resistant to anthracnose, of which 18 had a value of 1.0, statistically similar to that of Negro Jamapa and lower than those of the rest of the genotypes.Study limitations/implications: due to the diversity of races of both pathogens, the genotypes were inoculated with monopustular isolates of the principal races of U. appendiculatus and with monosporic cultures of C. lindemuthianum, which occur in the bean crops of Veracruz and Chiapas.Findings/conclusions: 25 lines resistant to rust and 18 to anthracnose were identified, which stood out for presenting the least damage from these diseases

Plasma miRNA profile at COVID-19 onset predicts severity status and mortality

BACKGROUND: MicroRNAs (miRNAs) have a crucial role in regulating immune response against infectious diseases, showing changes early in disease onset and before the detection of the pathogen. Thus, we aimed to analyze the plasma miRNA profile at COVID-19 onset to identify miRNAs as early prognostic biomarkers of severity and survival. METHODS AND RESULTS: Plasma miRNome of 96 COVID-19 patients that developed asymptomatic/mild, moderate and severe disease was sequenced together with a group of healthy controls. Plasma immune-related biomarkers were also assessed. COVID-19 patients showed 200 significant differentially expressed (SDE) miRNAs concerning healthy controls, with upregulated putative targets of SARS-CoV-2, and inflammatory miRNAs. Among COVID-19 patients, 75 SDE miRNAs were observed in asymptomatic/mild compared to symptomatic patients, which were involved in platelet aggregation and cytokine pathways, among others. Moreover, 137 SDE miRNAs were identified between severe and moderate patients, where miRNAs targeting the SARS CoV-2 genome were the most strongly disrupted. Finally, we constructed a mortality predictive risk score (miRNA-MRS) with ten miRNAs. Patients with higher values had a higher risk of 90-days mortality (hazard ratio = 4.60; p-value < 0.001). Besides, the discriminant power of miRNA-MRS was significantly higher than the observed for age and gender (AUROC = 0.970 vs. 0.881; p = 0.042). CONCLUSIONS: SARS-CoV-2 infection deeply disturbs the plasma miRNome from an early stage of COVID-19, making miRNAs highly valuable as early predictors of severity and mortality

The U.S.-Mexico Border Infectious Disease Surveillance Project: Establishing Binational Border Surveillance

In 1997, the Centers for Disease Control and Prevention, the Mexican Secretariat of Health, and border health officials began the development of the Border Infectious Disease Surveillance (BIDS) project, a surveillance system for infectious diseases along the U.S.-Mexico border. During a 3-year period, a binational team implemented an active, sentinel surveillance system for hepatitis and febrile exanthems at 13 clinical sites. The network developed surveillance protocols, trained nine surveillance coordinators, established serologic testing at four Mexican border laboratories, and created agreements for data sharing and notification of selected diseases and outbreaks. BIDS facilitated investigations of dengue fever in Texas-Tamaulipas and measles in California–Baja California. BIDS demonstrates that a binational effort with local, state, and federal participation can create a regional surveillance system that crosses an international border. Reducing administrative, infrastructure, and political barriers to cross-border public health collaboration will enhance the effectiveness of disease prevention projects such as BIDS

A survey of the clinicopathological and molecular characteristics of patients with suspected Lynch syndrome in Latin America

Background: Genetic counselling and testing for Lynch syndrome (LS) have recently been introduced in several Latin America countries. We aimed to characterize the clinical, molecular and mismatch repair (MMR) variants spectrum of patients with suspected LS in Latin America. Methods: Eleven LS hereditary cancer registries and 34 published LS databases were used to identify unrelated families that fulfilled the Amsterdam II (AMSII) criteria and/or the Bethesda guidelines or suggestive of a dominant colorectal (CRC) inheritance syndrome. Results: We performed a thorough investigation of 15 countries and identified 6 countries where germline genetic testing for LS is available and 3 countries where tumor testing is used in the LS diagnosis. The spectrum of pathogenic MMR variants included MLH1 up to 54%, MSH2 up to 43%, MSH6 up to 10%, PMS2 up to 3% and EPCAM up to 0.8%. The Latin America MMR spectrum is broad with a total of 220 different variants which 80% were private and 20% were recurrent. Frequent regions included exons 11 of MLH1 (15%), exon 3 and 7 of MSH2 (17 and 15%, respectively), exon 4 of MSH6 (65%), exons 11 and 13 of PMS2 (31% and 23%, respectively). Sixteen international founder variants in MLH1, MSH2 and MSH6 were identified and 41 (19%) variants have not previously been reported, thus representing novel genetic variants in the MMR genes. The AMSII criteria was the most used clinical criteria to identify pathogenic MMR carriers although microsatellite instability, immunohistochemistry and family history are still the primary methods in several countries where no genetic testing for LS is available yet. Conclusion: The Latin America LS pathogenic MMR variants spectrum included new variants, frequently altered genetic regions and potential founder effects, emphasizing the relevance implementing Lynch syndrome genetic testing and counseling in all of Latin America countries.Radium Hospital Foundation (Oslo, Norway) in the design of the study and collection, analysis, and interpretation of data and in writing the manuscript, Helse Sør-Øst (Norway) in the design of the study and collection, analysis, and interpretation of data and in writing the manuscript, the French Association Recherche contre le Cancer (ARC) in the analysis, and interpretation of data, the Groupement des Entreprises Françaises dans la Lutte contre le Cancer (Gefluc) in the analysis, and interpretation of data, the Association Nationale de la Recherche et de la Technologie (ANRT, CIFRE PhD fellowship to H.T.) in the analysis, and interpretation of data and by the OpenHealth Institute in the analysis, and interpretation of data. Barretos Cancer Hospital received financial support by FINEP-CT-INFRA (02/2010)info:eu-repo/semantics/publishedVersio

Discerning the physical origins of cosmological Gamma-ray bursts based on multiple observational criteria: the cases of z=6.7 GRB 080913, z=8.3 GRB 090423, and some short/hard GRBs

(Abridged) The two high-redshift gamma-ray bursts, GRB 080913 at z=6.7 and GRB 090423 at z=8.3, recently detected by Swift appear as intrinsically short, hard GRBs. They could have been recognized by BATSE as short/hard GRBs should they have occurred at z <= 1. We perform a more thorough investigation on two physically distinct types (Type I/II) of cosmological GRBs and their observational characteristics. We reiterate the definitions of Type I/II GRBs and review the observational criteria and their physical motivations. Contrary to the traditional approach of assigning the physical category based on the gamma-ray properties (duration, hardness, and spectral lag), we take an alternative approach to define the Type I and Type II Gold Samples using several criteria that are more directly related to the GRB progenitors, and study the properties of the two Gold Samples and compare them with the traditional long/soft and short/hard samples. We find that the Type II Gold Sample reasonably tracks the long/soft population, although it includes several intrinsically short (shorter than 1s in the rest frame) GRBs. The Type I Gold Sample only has 5 GRBs, 4 of which are not strictly short but have extended emission. Other short/hard GRBs detected in the Swift era represent the BATSE short/hard sample well, but it is unclear whether all of them belong to Type I. We suggest that some (probably even most) high-luminosity short/hard GRBs instead belong to Type II. We suggest that GRB 080913 and GRB 090423 are more likely Type II events. We re-emphasize the importance of invoking multiple observational criteria, and cautiously propose an operational procedure to infer the physical origin of a given GRB with available multiple observational criteria, with various caveats laid out.Comment: 32 pages, ApJ, in press. The strengths and weaknesses of physical classification and its relation to phenomenological classification are fully discussed in a newly added section 3. Discussions on GRBs 090423, 090426, and 090510 are include

Geographic patterns of tree dispersal modes in Amazonia and their ecological correlates

Aim: To investigate the geographic patterns and ecological correlates in the geographic distribution of the most common tree dispersal modes in Amazonia (endozoochory, synzoochory, anemochory and hydrochory). We examined if the proportional abundance of these dispersal modes could be explained by the availability of dispersal agents (disperser-availability hypothesis) and/or the availability of resources for constructing zoochorous fruits (resource-availability hypothesis). Time period: Tree-inventory plots established between 1934 and 2019. Major taxa studied: Trees with a diameter at breast height (DBH) ≥ 9.55 cm. Location: Amazonia, here defined as the lowland rain forests of the Amazon River basin and the Guiana Shield. Methods: We assigned dispersal modes to a total of 5433 species and morphospecies within 1877 tree-inventory plots across terra-firme, seasonally flooded, and permanently flooded forests. We investigated geographic patterns in the proportional abundance of dispersal modes. We performed an abundance-weighted mean pairwise distance (MPD) test and fit generalized linear models (GLMs) to explain the geographic distribution of dispersal modes. Results: Anemochory was significantly, positively associated with mean annual wind speed, and hydrochory was significantly higher in flooded forests. Dispersal modes did not consistently show significant associations with the availability of resources for constructing zoochorous fruits. A lower dissimilarity in dispersal modes, resulting from a higher dominance of endozoochory, occurred in terra-firme forests (excluding podzols) compared to flooded forests. Main conclusions: The disperser-availability hypothesis was well supported for abiotic dispersal modes (anemochory and hydrochory). The availability of resources for constructing zoochorous fruits seems an unlikely explanation for the distribution of dispersal modes in Amazonia. The association between frugivores and the proportional abundance of zoochory requires further research, as tree recruitment not only depends on dispersal vectors but also on conditions that favour or limit seedling recruitment across forest types

Geography and ecology shape the phylogenetic composition of Amazonian tree communities

AimAmazonia hosts more tree species from numerous evolutionary lineages, both young and ancient, than any other biogeographic region. Previous studies have shown that tree lineages colonized multiple edaphic environments and dispersed widely across Amazonia, leading to a hypothesis, which we test, that lineages should not be strongly associated with either geographic regions or edaphic forest types.LocationAmazonia.TaxonAngiosperms (Magnoliids; Monocots; Eudicots).MethodsData for the abundance of 5082 tree species in 1989 plots were combined with a mega-phylogeny. We applied evolutionary ordination to assess how phylogenetic composition varies across Amazonia. We used variation partitioning and Moran's eigenvector maps (MEM) to test and quantify the separate and joint contributions of spatial and environmental variables to explain the phylogenetic composition of plots. We tested the indicator value of lineages for geographic regions and edaphic forest types and mapped associations onto the phylogeny.ResultsIn the terra firme and várzea forest types, the phylogenetic composition varies by geographic region, but the igapó and white-sand forest types retain a unique evolutionary signature regardless of region. Overall, we find that soil chemistry, climate and topography explain 24% of the variation in phylogenetic composition, with 79% of that variation being spatially structured (R2 = 19% overall for combined spatial/environmental effects). The phylogenetic composition also shows substantial spatial patterns not related to the environmental variables we quantified (R2 = 28%). A greater number of lineages were significant indicators of geographic regions than forest types.Main ConclusionNumerous tree lineages, including some ancient ones (&gt;66 Ma), show strong associations with geographic regions and edaphic forest types of Amazonia. This shows that specialization in specific edaphic environments has played a long-standing role in the evolutionary assembly of Amazonian forests. Furthermore, many lineages, even those that have dispersed across Amazonia, dominate within a specific region, likely because of phylogenetically conserved niches for environmental conditions that are prevalent within regions

Geography and ecology shape the phylogenetic composition of Amazonian tree communities

Aim: Amazonia hosts more tree species from numerous evolutionary lineages, both young and ancient, than any other biogeographic region. Previous studies have shown that tree lineages colonized multiple edaphic environments and dispersed widely across Amazonia, leading to a hypothesis, which we test, that lineages should not be strongly associated with either geographic regions or edaphic forest types. Location: Amazonia. Taxon: Angiosperms (Magnoliids; Monocots; Eudicots). Methods: Data for the abundance of 5082 tree species in 1989 plots were combined with a mega-phylogeny. We applied evolutionary ordination to assess how phylogenetic composition varies across Amazonia. We used variation partitioning and Moran\u27s eigenvector maps (MEM) to test and quantify the separate and joint contributions of spatial and environmental variables to explain the phylogenetic composition of plots. We tested the indicator value of lineages for geographic regions and edaphic forest types and mapped associations onto the phylogeny. Results: In the terra firme and várzea forest types, the phylogenetic composition varies by geographic region, but the igapó and white-sand forest types retain a unique evolutionary signature regardless of region. Overall, we find that soil chemistry, climate and topography explain 24% of the variation in phylogenetic composition, with 79% of that variation being spatially structured (R$^{2}$ = 19% overall for combined spatial/environmental effects). The phylogenetic composition also shows substantial spatial patterns not related to the environmental variables we quantified (R$^{2}$ = 28%). A greater number of lineages were significant indicators of geographic regions than forest types. Main Conclusion: Numerous tree lineages, including some ancient ones (>66 Ma), show strong associations with geographic regions and edaphic forest types of Amazonia. This shows that specialization in specific edaphic environments has played a long-standing role in the evolutionary assembly of Amazonian forests. Furthermore, many lineages, even those that have dispersed across Amazonia, dominate within a specific region, likely because of phylogenetically conserved niches for environmental conditions that are prevalent within regions