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https://www.readbyqxmd.com/read/28643581/a-white-paper-on-global-wheat-health-based-on-scenario-development-and-analysis
#1
Serge Savary, Annika Djurle, Jonathan Yuen, Andrea Ficke, Vittorio Rossi, Paul Esker, Jose M Fernandes, Emerson Del Ponte, Jatindra Kumar, Laurence V Madden, Pierce A Paul, Neil McRoberts, Pawan Kumar Singh, Laurent Huber, Claude Pope de Vallavieille, Sébastien Saint-Jean, Laetitia Willocquet
Scenario analysis constitutes a useful approach to synthesize knowledge and derive hypotheses in the case of complex systems which are documented with mainly qualitative or very diverse information. In this article, a framework for scenario analysis is designed and then, applied to global wheat health within a timeframe from today to 2050. Scenario analysis entails the choice of settings, the definition of scenarios of change, and the analysis of outcomes of these scenarios in the chosen settings. Three idealized agrosystems, representing a large fraction of the global diversity of wheat-based agrosystems, are considered, which represent the settings of the analysis...
June 23, 2017: Phytopathology
https://www.readbyqxmd.com/read/28640898/competition-between-influenza-a-virus-subtypes-through-heterosubtypic-immunity-modulates-re-infection-and-antibody-dynamics-in-the-mallard-duck
#2
Neus Latorre-Margalef, Justin D Brown, Alinde Fojtik, Rebecca L Poulson, Deborah Carter, Monique Franca, David E Stallknecht
Our overall hypothesis is that host population immunity directed at multiple antigens will influence the prevalence, diversity and evolution of influenza A virus (IAV) in avian populations where the vast subtype diversity is maintained. To investigate how initial infection influences the outcome of later infections with homologous or heterologous IAV subtypes and how viruses interact through host immune responses, we carried out experimental infections in mallard ducks (Anas platyrhynchos). Mallards were pre-challenged with an H3N8 low-pathogenic IAV and were divided into six groups...
June 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28630115/discovering-complete-quasispecies-in-bacterial-genomes
#3
Frederic Bertels, Chaitanya S Gokhale, Arne Traulsen
Mobile genetic elements can be found in almost all genomes. Possibly the most common non-autonomous mobile genetic elements in bacteria are REPINs that can occur hundreds of times within a genome. The sum of all REPINs in a genome can be viewed as an evolving population because REPINs replicate and mutate. In contrast to most other biological populations, we know the exact composition of the REPIN population and the sequence of each member of the population. Here, we model the evolution of REPINs as quasispecies...
June 19, 2017: Genetics
https://www.readbyqxmd.com/read/28630001/host-influence-in-the-genomic-composition-of-flaviviruses-a-multivariate-approach
#4
Diego Simón, Alvaro Fajardo, Martín Sóñora, Adriana Delfraro, Héctor Musto
Flaviviruses present substantial differences in their host range and transmissibility. We studied the evolution of base composition, dinucleotide biases, codon usage and amino acid frequencies in the genus Flavivirus within a phylogenetic framework by principal components analysis. There is a mutual interplay between the evolutionary history of flaviviruses and their respective vectors and/or hosts. Hosts associated to distinct phylogenetic groups may be driving flaviviruses at different pace and through various sequence landscapes, as can be seen for viruses associated with Aedes or Culex spp...
June 16, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28626938/role-of-parasite-transmission-in-promoting-inbreeding-i-infection-intensities-drive-individual-parasite-selfing-rates
#5
Jillian T Detwiler, Isabel C Caballero, Charles D Criscione
Among parasitic organisms, inbreeding has been implicated as a potential driver of host-parasite coevolution, drug-resistance evolution, and parasite diversification. Yet, fundamental topics about how parasite life histories impact inbreeding remain to be addressed. In particular, there are no direct selfing-rate estimates for hermaphroditic parasites in nature. Our objectives were to elucidate the mating system of a parasitic flatworm in nature and to understand how aspects of parasite transmission could influence the selfing rates of individual parasites...
June 19, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28622844/antimycobacterial-metabolism-illuminating-mycobacterium-tuberculosis-biology-and-drug-discovery
#6
REVIEW
Divya Awasthi, Joel S Freundlich
Bacteria are capable of performing a number of biotransformations that may activate or deactivate xenobiotics. Recent efforts have utilized metabolomics techniques to study the fate of small-molecule antibacterials within the targeted organism. Examples involving Mycobacterium tuberculosis are reviewed and analyzed with regard to the insights they provide as to both activation and deactivation of the antibacterial. The studies, in particular, shed light on biosynthetic transformations performed by M. tuberculosis while suggesting avenues for the evolution of chemical tools, highlighting potential areas for drug discovery, and mechanisms of approved drugs...
June 13, 2017: Trends in Microbiology
https://www.readbyqxmd.com/read/28622767/praziquantel-decreases-fecundity-in-schistosoma-mansoni-adult-worms-that-survive-treatment-evidence-from-a-laboratory-life-history-trade-offs-selection-study
#7
Poppy H L Lamberton, Christina L Faust, Joanne P Webster
BACKGROUND: Mass drug administration of praziquantel is the World Health Organization's endorsed control strategy for schistosomiasis. A decade of annual treatments across sub-Saharan Africa has resulted in significant reductions of infection prevalence and intensity levels, although 'hotspots' remain. Repeated drug treatments place strong selective pressures on parasites, which may affect life-history traits that impact transmission dynamics. Understanding drug treatment responses and the evolution of such traits can help inform on how to minimise the risk of drug resistance developing, maximise sustainable control programme success, and improve diagnostic protocols...
June 16, 2017: Infectious Diseases of Poverty
https://www.readbyqxmd.com/read/28622346/flavivirus-and-filovirus-evoprinters-new-alignment-tools-for-the-comparative-analysis-of-viral-evolution
#8
Thomas Brody, Amarendra S Yavatkar, Dong Sun Park, Alexander Kuzin, Jermaine Ross, Ward F Odenwald
BACKGROUND: Flavivirus and Filovirus infections are serious epidemic threats to human populations. Multi-genome comparative analysis of these evolving pathogens affords a view of their essential, conserved sequence elements as well as progressive evolutionary changes. While phylogenetic analysis has yielded important insights, the growing number of available genomic sequences makes comparisons between hundreds of viral strains challenging. We report here a new approach for the comparative analysis of these hemorrhagic fever viruses that can superimpose an unlimited number of one-on-one alignments to identify important features within genomes of interest...
June 16, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28620151/reproductive-innovation-and-the-recognition-of-a-new-genus-within-the-polystomatidae-monogenea-infecting-chelonian-vertebrates
#9
Richard C Tinsley
Polystomatid monogeneans have a wide diversity of life cycles correlated with the varied ecology and behaviour of their aquatic vertebrate hosts. Typically, transmission involves a swimming infective larva but most hosts are amphibious and invasion is interrupted when hosts leave water. A key life cycle adaptation involves a uterus that, in the most specialised cases, may contain several hundred fully-developed larvae prepared for instant host-to-host transmission. By contrast, one subfamily of the Polystomatidae - the Polystomoidinae, specific to chelonians (freshwater turtles) - has a simplified reproductive system without a uterus...
June 7, 2017: Folia Parasitologica
https://www.readbyqxmd.com/read/28618143/cedratvirus-lausannensis-digging-into-pithoviridae-diversity
#10
Claire Bertelli, Linda Mueller, Vincent Thomas, Trestan Pillonel, Nicolas Jacquier, Gilbert Greub
Amoeba-infecting viruses have raised scientists' interest due to their novel particle morphologies, their large genome size, and their genomic content challenging previously established dogma. We report here the discovery and the characterization of Cedratvirus lausannensis, a novel member of the Megavirales, with a 0.75-1 µm long amphora-shaped particle closed by two striped plugs. Among numerous host cell types tested, the virus replicates only in Acanthamoeba castellanii leading to host cell lysis within 24 hours...
June 15, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28615286/the-physiology-of-phagocytosis-in-the-context-of-mitochondrial-origin
#11
REVIEW
William F Martin, Aloysius G M Tielens, Marek Mentel, Sriram G Garg, Sven B Gould
How mitochondria came to reside within the cytosol of their host has been debated for 50 years. Though current data indicate that the last eukaryote common ancestor possessed mitochondria and was a complex cell, whether mitochondria or complexity came first in eukaryotic evolution is still discussed. In autogenous models (complexity first), the origin of phagocytosis poses the limiting step at eukaryote origin, with mitochondria coming late as an undigested growth substrate. In symbiosis-based models (mitochondria first), the host was an archaeon, and the origin of mitochondria was the limiting step at eukaryote origin, with mitochondria providing bacterial genes, ATP synthesis on internalized bioenergetic membranes, and mitochondrion-derived vesicles as the seed of the eukaryote endomembrane system...
September 2017: Microbiology and Molecular Biology Reviews: MMBR
https://www.readbyqxmd.com/read/28606351/ultrastructural-characterization-of-the-host-parasite-interface-between-allomyces-anomalus-blastocladiomycota-and-rozella-allomycis-cryptomycota
#12
Martha J Powell, Peter M Letcher, Timothy Y James
Rozella allomycis is an obligate endoparasite of the water mold Allomyces and a member of a clade (= Opisthosporidia) sister to the traditional Fungi. Gaining insights into Rozella's development as a phylogenetically pivotal endoparasite can aid our understanding of structural adaptations and evolution of the Opisthosporidia clade, especially within the context of genomic information. The purpose of this study is to characterize the interface between R. allomycis and Allomyces anomalus. Electron microscopy of developing plasmodia of R...
June 2017: Fungal Biology
https://www.readbyqxmd.com/read/28603522/analytical-prediction-of-the-spatiotemporal-distribution-of-chemoattractants-around-their-source-theory-and-application-to-complement-mediated-chemotaxis
#13
Volkmar Heinrich, Wooten D Simpson, Emmet A Francis
The ability of motile immune cells to detect and follow gradients of chemoattractant is critical to numerous vital functions, including their recruitment to sites of infection and-in emerging immunotherapeutic applications-to malignant tumors. Facilitated by a multitude of chemotactic receptors, the cells navigate a maze of stimuli to home in on their target. Distinct chemotactic processes direct this navigation at particular times and cell-target distances. The expedient coordination of this spatiotemporal hierarchy of chemotactic stages is the central element of a key paradigm of immunotaxis...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28602845/silencing-of-transposable-elements-by-pirnas-in-drosophila-an-evolutionary-perspective
#14
REVIEW
Shiqi Luo, Jian Lu
Transposable elements (TEs) are DNA sequences that can move within the genome. TEs have greatly shaped the genomes, transcriptomes, and proteomes of the host organisms through a variety of mechanisms. However, TEs generally disrupt genes and destabilize the host genomes, which substantially reduce fitness of the host organisms. Understanding the genomic distribution and evolutionary dynamics of TEs will greatly deepen our understanding of the TE-mediated biological processes. Most TE insertions are highly polymorphic in Drosophila melanogaster, providing us a good system to investigate the evolution of TEs at the population level...
June 8, 2017: Genomics, Proteomics & Bioinformatics
https://www.readbyqxmd.com/read/28596424/s100-a9-protein-in-exosomes-from-chronic-lymphocytic-leukemia-cells-promotes-nf-%C3%AE%C2%BAb-activity-during-disease-progression
#15
Daniel Prieto, Natalia Sotelo, Noé Seija, Sandra Sernbo, Cecilia Abreu, Rosario Durán, Magdalena Gil, Estefanía Sicco, Victoria Irigoin, Carolina Oliver, Ana Inés Landoni, Raúl Gabus, Guillermo Dighiero, Pablo Oppezzo
Chronic Lymphocytic Leukemia (CLL) is an incurable disease characterized by accumulation of clonal B lymphocytes, resulting from a complex balance between cell proliferation and apoptotic death. A continuous crosstalk between cancer cells and local/distant host environment is required for effective tumor growth. Among the main actors of this dynamic interplay between tumoral cells and their microenvironment are the nano-sized vesicles called exosomes. Emerging evidence indicates that secretion, composition, and functional capacity of the exosomes are altered as tumors progress to an aggressive phenotype...
June 8, 2017: Blood
https://www.readbyqxmd.com/read/28595622/the-evolution-of-trypanosomatid-taxonomy
#16
REVIEW
Alexa Kaufer, John Ellis, Damien Stark, Joel Barratt
Trypanosomatids are protozoan parasites of the class Kinetoplastida predominately restricted to invertebrate hosts (i.e. possess a monoxenous life-cycle). However, several genera are pathogenic to humans, animals and plants, and have an invertebrate vector that facilitates their transmission (i.e. possess a dixenous life-cycle). Phytomonas is one dixenous genus that includes several plant pathogens transmitted by phytophagous insects. Trypanosoma and Leishmania are dixenous genera that infect vertebrates, including humans, and are transmitted by hematophagous invertebrates...
June 8, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28594938/the-enemy-within-targeting-host-parasite-interaction-for-antileishmanial-drug-discovery
#17
REVIEW
Suzanne Lamotte, Gerald F Späth, Najma Rachidi, Eric Prina
The state of antileishmanial chemotherapy is strongly compromised by the emergence of drug-resistant Leishmania. The evolution of drug-resistant phenotypes has been linked to the parasites' intrinsic genome instability, with frequent gene and chromosome amplifications causing fitness gains that are directly selected by environmental factors, including the presence of antileishmanial drugs. Thus, even though the unique eukaryotic biology of Leishmania and its dependence on parasite-specific virulence factors provide valid opportunities for chemotherapeutical intervention, all strategies that target the parasite in a direct fashion are likely prone to select for resistance...
June 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28593194/fine-scale-structure-analysis-shows-epidemic-patterns-of-clonal-complex-95-a-cosmopolitan-escherichia-coli-lineage-responsible-for-extraintestinal-infection
#18
David M Gordon, Sarah Geyik, Olivier Clermont, Claire L O'Brien, Shiwei Huang, Charmalie Abayasekara, Ashwin Rajesh, Karina Kennedy, Peter Collignon, Paul Pavli, Christophe Rodriguez, Brian D Johnston, James R Johnson, Jean-Winoc Decousser, Erick Denamur
The Escherichia coli lineage known as clonal complex 95 (CC95) is a cosmopolitan human-associated lineage responsible for a significant fraction of extraintestinal infections of humans. Whole-genome sequence data of 200 CC95 strains from various origins enabled determination of the CC95 pangenome. The pangenome analysis revealed that strains of the complex could be assigned to one of five subgroups that vary in their serotype, extraintestinal virulence, virulence gene content, and antibiotic resistance gene profile...
May 2017: MSphere
https://www.readbyqxmd.com/read/28592948/occurrence-and-evolutionary-analysis-of-coat-protein-gene-sequences-of-iranian-isolates-of-sugarcane-mosaic-virus
#19
Zohreh Moradi, Ehsan Nazifi, Mohsen Mehrvar
Sugarcane mosaic virus (SCMV) is one of the most damaging viruses infecting sugarcane, maize and some other graminaceous species around the world. To investigate the genetic diversity of SCMV in Iran, the coat protein (CP) gene sequences of 23 SCMV isolates from different hosts were determined. The nucleotide sequence identity among Iranian isolates was more than 96%. They shared nucleotide identities of 75.5-99.9% with those of other SCMV isolates available in GenBank, the highest with the Egyptian isolate EGY7-1 (97...
June 2017: Plant Pathology Journal
https://www.readbyqxmd.com/read/28592544/time-sampled-population-sequencing-reveals-the-interplay-of-selection-and-genetic-drift-in-experimental-evolution-of-potato-virus-y
#20
Denis Kutnjak, Santiago F Elena, Maja Ravnikar
RNA viruses are one of the fastest evolving biological entities. Within their hosts, they exist as genetically diverse populations (i.e., viral mutant swarms), which are sculpted by different evolutionary mechanisms, such as mutation, natural selection and genetic drift, and also the interactions between genetic variants within the mutant swarms. To elucidate the mechanisms that modulate the population diversity of an important plant pathogenic virus, we performed evolution experiments with Potato virus Y (PVY) in potato genotypes that differ in their defense response against the virus...
June 7, 2017: Journal of Virology
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