keyword
MENU ▼
Read by QxMD icon Read
search

Landscape structure

keyword
https://www.readbyqxmd.com/read/29453767/increasing-connectivity-between-metapopulation-ecology-and-landscape-ecology
#1
Paige E Howell, Erin Muths, Blake R Hossack, Brent H Sigafus, Richard B Chandler
Metapopulation ecology and landscape ecology aim to understand how spatial structure influences ecological processes, yet these disciplines address the problem using fundamentally different modeling approaches. Metapopulation models describe how the spatial distribution of patches affects colonization and extinction, but often do not account for the heterogeneity in the landscape between patches. Models in landscape ecology use detailed descriptions of landscape structure, but often without considering colonization and extinction dynamics...
February 17, 2018: Ecology
https://www.readbyqxmd.com/read/29452849/bacterial-communities-in-mining-soils-and-surrounding-areas-under-regeneration-process-in-a-former-ore-mine
#2
Camila Cesário Fernandes, Luciano Takeshi Kishi, Erica Mendes Lopes, Wellington Pine Omori, Jackson Antonio Marcondes de Souza, Lucia Maria Carareto Alves, Eliana Gertrudes de Macedo Lemos
Human activities on the Earth's surface change the landscape of natural ecosystems. Mining practices are one of the most severe human activities, drastically altering the chemical, physical and biological properties of the soil environment. Bacterial communities in soil play an important role in the maintenance of ecological relationships. This work shows bacterial diversity, metabolic repertoire and physiological behavior in five ecosystems samples with different levels of impact. These ecosystems belong to a historical area in Iron Quadrangle, Minas Gerais, Brazil, which suffered mining activities until its total depletion without recovery since today...
February 13, 2018: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/29452560/health-care-efficiencies-consolidation-and-alternative-models-vs-health-care-and-antitrust-regulation-irreconcilable-differences
#3
Michael W King
Despite the U.S. substantially outspending peer high income nations with almost 18% of GDP dedicated to health care, on any number of statistical measurements from life expectancy to birth rates to chronic disease, 1 the U.S. achieves inferior health outcomes. In short, Americans receive a very disappointing return on investment on their health care dollars, causing economic and social strain. 2 Accordingly, the debates rage on: what is the top driver of health care spending? Among the culprits: poor communication and coordination among disparate providers, paperwork required by payors and regulations, well-intentioned physicians overprescribing treatments, drugs and devices, outright fraud and abuse, and medical malpractice litigation...
November 2017: American Journal of Law & Medicine
https://www.readbyqxmd.com/read/29451898/integrating-linear-optimization-with-structural-modeling-to-increase-hiv-neutralization-breadth
#4
Alexander M Sevy, Swetasudha Panda, James E Crowe, Jens Meiler, Yevgeniy Vorobeychik
Computational protein design has been successful in modeling fixed backbone proteins in a single conformation. However, when modeling large ensembles of flexible proteins, current methods in protein design have been insufficient. Large barriers in the energy landscape are difficult to traverse while redesigning a protein sequence, and as a result current design methods only sample a fraction of available sequence space. We propose a new computational approach that combines traditional structure-based modeling using the Rosetta software suite with machine learning and integer linear programming to overcome limitations in the Rosetta sampling methods...
February 16, 2018: PLoS Computational Biology
https://www.readbyqxmd.com/read/29451381/from-a-highly-disordered-to-a-metastable-state-uncovering-insights-of-%C3%AE-synuclein
#5
Yoann Cote, Patrice Delarue, Harold Abraham Scheraga, Patrick Senet, Gia G Maisuradze
α-synuclein (αS) is a major constituent of Lewy bodies, the insoluble aggregates that are the hallmark of one of the most prevalent neurodegenerative disorders - Parkinson's disease (PD). The vast majority of experiments in vitro and in vivo provide extensive evidence that a disordered monomeric form is the predominant state of αS in water solution, and it undergoes a large-scale disorder-to-helix transition upon binding to vesicles of different types. Recently, another form, tetrameric, of αS with a stable helical structure was identified experimentally...
February 16, 2018: ACS Chemical Neuroscience
https://www.readbyqxmd.com/read/29447216/genome-mining-of-streptomyces-scabrisporus-nf3-reveals-symbiotic-features-including-genes-related-to-plant-interactions
#6
Corina Diana Ceapă, Melissa Vázquez-Hernández, Stefany Daniela Rodríguez-Luna, Angélica Patricia Cruz Vázquez, Verónica Jiménez Suárez, Romina Rodríguez-Sanoja, Elena R Alvarez-Buylla, Sergio Sánchez
Endophytic bacteria are wide-spread and associated with plant physiological benefits, yet their genomes and secondary metabolites remain largely unidentified. In this study, we explored the genome of the endophyte Streptomyces scabrisporus NF3 for discovery of potential novel molecules as well as genes and metabolites involved in host interactions. The complete genomes of seven Streptomyces and three other more distantly related bacteria were used to define the functional landscape of this unique microbe. The S...
2018: PloS One
https://www.readbyqxmd.com/read/29446945/a-statistical-model-to-decipher-protein-folding-unfolding-at-a-local-scale
#7
Paul Grassein, Patrice Delarue, Harold Abraham Scheraga, Gia G Maisuradze, Patrick Senet
Protein folding/unfolding can be analysed experimentally at a local scale by monitoring the physical properties of local probes as a function of the temperature, as for example the distance between fluorophores or the values of chemical shifts of backbone atoms. Here, the analytical Lifson-Roig model for the helix-coil transition is modified to analyse local thermal unfolding of the fast-folder W protein of bacteriophage lambda (gpW) simulated by all-atom molecular dynamics (MD) simulations in explicit solvent at fifteen different temperatures...
February 15, 2018: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/29444118/demographic-and-genetic-viability-of-a-medium-sized-ground-dwelling-mammal-in-a-fire-prone-rapidly-urbanizing-landscape
#8
Cristina E Ramalho, Kym M Ottewell, Brian K Chambers, Colin J Yates, Barbara A Wilson, Roberta Bencini, Geoff Barrett
The rapid and large-scale urbanization of peri-urban areas poses major and complex challenges for wildlife conservation. We used population viability analysis (PVA) to evaluate the influence of urban encroachment, fire, and fauna crossing structures, with and without accounting for inbreeding effects, on the metapopulation viability of a medium-sized ground-dwelling mammal, the southern brown bandicoot (Isoodon obesulus), in the rapidly expanding city of Perth, Australia. We surveyed two metapopulations over one and a half years, and parameterized the PVA models using largely field-collected data...
2018: PloS One
https://www.readbyqxmd.com/read/29443506/peptoid-backbone-flexibility-dictates-its-interaction-with-water-and-surfaces-a-molecular-dynamics-investigation
#9
Arushi Prakash, Marcel D Baer, Christopher J Mundy, Jim Pfaendtner
Peptoids are peptide-mimetic biopolymers that are easy-to-synthesize and adaptable for use in drugs, chemical scaffolds, and coatings. However, there is insufficient information about their structural preferences and interactions with the environment in various applications. We conducted a study to understand the fundamental differences between peptides and peptoids using molecular dynamics simulations with semi-empirical (PM6) and empirical (AMBER) potentials, in conjunction with metadynamics enhanced sampling...
February 14, 2018: Biomacromolecules
https://www.readbyqxmd.com/read/29438928/trees-are-all-around-us-farmers-management-of-wood-pastures-in-the-light-of-a-controversial-policy
#10
Mattias Sandberg, Simon Jakobsson
Wood pastures are some of the most species-rich environments found in Europe and therefore essential habitats for biodiversity conservation. Society also puts faith in multiple values of trees, ranging from climate change mitigation to socio-cultural traditions. Therefore, the seemingly arbitrary tree density limit for pasture environments imposed by the EU through its Common Agricultural Policy (CAP) threatened both biological and societal values. In this study on farmers' perspectives, we target the effects of the CAP tree density limit on management of wood pastures in a low-intensively managed agricultural landscape of southern Sweden...
February 10, 2018: Journal of Environmental Management
https://www.readbyqxmd.com/read/29437225/landscapes-of-facilitation-how-self-organized-patchiness-of-aquatic-macrophytes-promotes-diversity-in-streams
#11
Loreta Cornacchia, Johan van de Koppel, Daphne van der Wal, Geraldene Wharton, Sara Puijalon, Tjeerd J Bouma
Spatial heterogeneity plays a crucial role in the coexistence of species. Despite recognition of the importance of self-organization in creating environmental heterogeneity in otherwise uniform landscapes, the effects of such self-organized pattern formation in promoting coexistence through facilitation are still unknown. In this study, we investigated the effects of pattern formation on species interactions and community spatial structure in ecosystems with limited underlying environmental heterogeneity, using self-organized patchiness of the aquatic macrophyte Callitriche platycarpa in streams as a model system...
February 13, 2018: Ecology
https://www.readbyqxmd.com/read/29435235/simplifying-understory-complexity-in-oil-palm-plantations-is-associated-with-a-reduction-in-the-density-of-a-cleptoparasitic-spider-argyrodes-miniaceus-araneae-theridiidae-in-host-araneae-nephilinae-webs
#12
Dakota M Spear, William A Foster, Andreas Dwi Advento, Mohammad Naim, Jean-Pierre Caliman, Sarah H Luke, Jake L Snaddon, Sudharto Ps, Edgar C Turner
Expansion of oil palm agriculture is currently one of the main drivers of habitat modification in Southeast Asia. Habitat modification can have significant effects on biodiversity, ecosystem function, and interactions between species by altering species abundances or the available resources in an ecosystem. Increasing complexity within modified habitats has the potential to maintain biodiversity and preserve species interactions. We investigated trophic interactions between Argyrodes miniaceus, a cleptoparasitic spider, and its Nephila spp...
February 2018: Ecology and Evolution
https://www.readbyqxmd.com/read/29432682/kinetically-controlled-formation-and-decomposition-of-metastable-bise-1-%C3%AE-m-tise2-m-compounds
#13
Alexander C Lygo, Danielle M Hamann, Daniel B Moore, Devin R Merrill, Jeffrey Ditto, Marco Esters, Jacob Orlowicz, Suzannah R Wood, David C Johnson
Preparing homologous series of compounds allows chemists to rapidly discover new compounds with predictable structure and properties. Synthesizing compounds within such a series involves navigating a free energy landscape defined by the interactions within and between constituent atoms. Historically, synthesis approaches are typically limited to forming only the most thermodynamically stable compound under the reaction conditions. Presented here is the synthesis, via self-assembly of designed precursors, of isocompositional incommensurate layered compounds [(BiSe)1+δ]m[TiSe2]m with m =1, 2, and 3...
February 12, 2018: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/29431682/isomers-and-energy-landscapes-of-micro-hydrated-sulfite-and-chlorate-clusters
#14
John C Hey, Emily J Doyle, Yuting Chen, Roy L Johnston
We present putative global minima for the micro-hydrated sulfite SO32-(H2O) N and chlorate ClO3-(H2O) N systems in the range 3≤N≤15 found using basin-hopping global structure optimization with an empirical potential. We present a structural analysis of the hydration of a large number of minimized structures for hydrated sulfite and chlorate clusters in the range 3≤N≤50. We show that sulfite is a significantly stronger net acceptor of hydrogen bonding within water clusters than chlorate, completely suppressing the appearance of hydroxyl groups pointing out from the cluster surface (dangling OH bonds), in low-energy clusters...
March 13, 2018: Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences
https://www.readbyqxmd.com/read/29430786/the-persistent-decline-of-patterned-woody-vegetation-the-tiger-bush-in-the-context-of-the-regional-sahel-greening-trend
#15
Valérie Trichon, Pierre Hiernaux, Romain Walcker, Eric Mougin
Following 25 years of below average annual rainfall in the Sahel between 1970 and 1995, the return to more humid conditions has led to rapid postdrought recovery of the woody cover. However, the increase in the woody cover is not spatially homogeneous raising questions about the resilience of some woody vegetation types. Based on the analysis of field and remote sensing data collected on the tiger bush systems in the northern Sahel in Mali, this study noted the current and persistent degradation of these systems in the Sahel since the 1970s despite the recent improvement in rainfall since the mid-1990s and the general Sahel re-greening...
February 11, 2018: Global Change Biology
https://www.readbyqxmd.com/read/29429617/spatial-receptive-fields-for-odor-localization
#16
Hiroshi Nishino, Masazumi Iwasaki, Marco Paoli, Itsuro Kamimura, Atsushi Yoritsune, Makoto Mizunami
Animals rely on olfaction to navigate through complex olfactory landscapes, but the mechanisms that allow an animal to encode the spatial structure of an odorous environment remain unclear. To acquire information about the spatial distribution of an odorant, animals may rely on bilateral olfactory organs and compare side differences of odor intensity and timing [1-6] or may perform spatial and temporal signal integration of subsequent samplings [7]. The American cockroach can efficiently locate a source of sex pheromone even after the removal of one antenna, suggesting that bilateral comparison is not a prerequisite for odor localization in this species [8, 9]...
February 7, 2018: Current Biology: CB
https://www.readbyqxmd.com/read/29428654/power-influence-and-structure-in-natura-2000-governance-networks-a-comparative-analysis-of-two-protected-areas-in-romania
#17
Steluta Manolache, Andreea Nita, Cristiana M Ciocanea, Viorel D Popescu, Laurentiu Rozylowicz
Successful management of complex social-ecological landscapes overlapping Natura 2000 sites requires collaboration between various actors such as law enforcement agencies, NGOs and enterprises. Natura 2000 governance is stimulated by central actors (e.g., Natura 2000 administrators), with successes and failures of management activities depending on the capacity of the network leader to implement a collaborative approach to environmental governance. By using social network analysis, we analysed the cooperation, information flow and capacity for collective action within Natura 2000 governance networks within two Romanian protected areas: Lower Siret Floodplain and Iron Gates Natural Park...
February 8, 2018: Journal of Environmental Management
https://www.readbyqxmd.com/read/29426922/statistical-modeling-of-rna-structure-profiling-experiments-enables-parsimonious-reconstruction-of-structure-landscapes
#18
Hua Li, Sharon Aviran
RNA plays key regulatory roles in diverse cellular processes, where its functionality often derives from folding into and converting between structures. Many RNAs further rely on co-existence of alternative structures, which govern their response to cellular signals. However, characterizing heterogeneous landscapes is difficult, both experimentally and computationally. Recently, structure profiling experiments have emerged as powerful and affordable structure characterization methods, which improve computational structure prediction...
February 9, 2018: Nature Communications
https://www.readbyqxmd.com/read/29426140/influence-of-technical-maintenance-measures-on-ecological-status-of-agricultural-lowland-rivers-systematic-review-and-implications-for-river-management
#19
Anna Bączyk, Maciej Wagner, Tomasz Okruszko, Mateusz Grygoruk
Intensification of agriculture and ongoing urban sprawl exacerbate pressures on rivers. Small rivers in agricultural landscapes are especially exposed to excessive technical actions implemented in order to allow for harvesting river water for irrigation, draining agricultural water and receiving sewage. Regular dredging and macrophyte removal strongly interfere with the global need for preserving river biodiversity that allows agricultural lowland rivers to remain refuges for a variety of species, and-accordingly-to keep water bodies resilient for the benefit of society...
January 29, 2018: Science of the Total Environment
https://www.readbyqxmd.com/read/29425042/pushing-the-limits-of-structure-based-models-prediction-of-non-globular-protein-folding-and-fibrils-formation-with-go-model-simulations
#20
Lokesh Kumar Baweja, Julien Roche
The development of computational efficient models is essential to obtain a detailed characterization of the mechanisms underlying the folding of proteins and the formation of amyloid fibrils. Structure based computational models (Go-model) with Cα or all-atom resolutions have been able to successfully delineate the mechanisms of folding of several globular proteins and offer an interesting alternative to computationally intensive simulations with explicit solvent description. We are exploring here the limits of Go-model predictions by analyzing the folding of the non-globular repeat domain proteins Notch Ankyrin and p16INK4 and the formation of human islet polypeptide (hIAPP) fibrils...
February 9, 2018: Journal of Physical Chemistry. B
keyword
keyword
72207
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"