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Creators/Authors contains: "Smith, Ryan"

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  1. Free, publicly-accessible full text available December 1, 2026
  2. Physical interactions between polypeptide chains and lipid membranes underlie critical cellular processes. Yet, despite fundamental importance, key mechanistic aspects of these interactions remain elusive. Bulk experiments have revealed a linear relationship between free energy and peptide chain length in a model system, but does this linearity extend to the interaction strength and to the kinetics of lipid binding? To address these questions, we utilized a combination of coarse-grained molecular dynamics (CG MD) simulations, analytical modeling, and atomic force microscopy (AFM)-based single molecule force spectroscopy. Following previous bulk experiments, we focused on interactions between short hydrophobic peptides (WLn, n = 1, ..., 5) with 1-palmitoyl-2-oleoyl-glycero-3-phosphocholine (POPC) bilayers, a simple system that probes peptide primary structure effects. Potentials of mean force extracted from CG MD recapitulated the linearity of free energy with the chain length. Simulation results were quantitatively connected to bulk biochemical experiments via a single scaling factor of order unity, corroborating the methodology. Additionally, CG MD revealed an increase in the distance to the transition state, a result that weakens the dependence of the dissociation force on the peptide chain length. AFM experiments elucidated rupture force distributions and, through modeling, intrinsic dissociation rates. Taken together, the analysis indicates a rupture force plateau in the WLn−POPC system, suggesting that the final rupture event involves the last 2 or 3 residues. In contrast, the linear dependence on chain length was preserved in the intrinsic dissociation rate. This study advances the understanding of peptide−lipid interactions and provides potentially useful insights for the design of peptides with tailored membrane-interacting properties. 
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  3. The RAPID-MOCHA-WBTS (RAPID-Meridional Overturning Circulation and Heatflux Array-Western Boundary Time Series) programme has produced a continuous time series of the Atlantic Meridional Overturning Circulation (AMOC) at 26N that started in April 2004. This release of the time series covers the period from April 2004 to February 2023. The 26N AMOC time series is derived from measurements of temperature, salinity, pressure and water velocity from an array of moored instruments that extend from the east coast of the Bahamas to the continental shelf off Africa east of the Canary Islands. The AMOC calculation also uses estimates of the transport in the Florida Strait derived from sub-sea cable measurements calibrated by regular hydrographic cruises. The component of the AMOC associated with the wind driven Ekman layer is derived from ERA5 reanalysis. This release of the data includes a document with a brief description of the calculation of the AMOC time series and references to more detailed description in published papers. The 26N AMOC time series and the data from the moored array are curated by the British Oceanographic Data Centre (BODC). The RAPID-MOCHA-WBTS programme is a joint effort between NERC in the UK (Principal Investigator Ben Moat since 2021, Eleanor Frajka-Williams since 2020 to 2021, David Smeed 2012 to 2020, and Stuart Cunningham from 2004 to 2012), NOAA (PIs Ryan Smith and Denis Volkov) and NSF (PIs Prof. Bill Johns and Prof. Shane Elipot, Uni. Miami) in the USA. 
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  4. In the Andean highlands, hilltop fortifications known aspukarasare common. Dating predominantly to the Late Intermediate Period (AD 1000–1450), pukaras are important to archaeological characterisations of a political landscape shaped by conflict but the distribution of these key sites is not well understood. Here, the authors employ systematic satellite imagery survey to provide a contiguous picture of pukara distribution on an inter-regional scale covering 151 103km2in the south-central highlands of Peru. They highlight the effectiveness of such survey at identifying pukaras and capturing regional variability in size and residential occupation, and the results demonstrate that satellite surveys of high-visibility sites can tackle research questions at larger scales of analysis than have previously been possible. 
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  5. Continuous measurements of the Atlantic meridional overturning circulation (AMOC) and meridional ocean heat transport at 26.5° N began in April 2004 and are currently available through December 2020. Approximately 90% of the total meridional heat transport (MHT) at 26.5° N is carried by the zonally averaged overturning circulation, and an even larger fraction of the heat transport variability (approx. 95%) is explained by the variability of the zonally averaged overturning. A physically based separation of the heat transport into large-scale AMOC, gyre and shallow wind-driven overturning components remains challenging and requires new investigations and approaches. We review the major interannual changes in the AMOC and MHT that have occurred over the nearly two decades of available observations and their documented impacts on North Atlantic heat content. Changes in the flow-weighted temperature of the Florida Current (Gulf Stream) over the past two decades are now taken into account in the estimates of MHT, and have led to an increased heat transport relative to the AMOC strength in recent years. Estimates of the MHT at 26.5° N from coupled models and various surface flux datasets still tend to show low biases relative to the observations, but indirect estimates based on residual methods (top of atmosphere net radiative flux minus atmospheric energy divergence) have shown recent promise in reproducing the heat transport and its interannual variability.This article is part of a discussion meeting issue ‘Atlantic overturning: new observations and challenges’. 
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  6. Imagery-based survey is capable of producing archaeological datasets that complement those collected through field-based survey methods, widening the scope of analysis beyond regions. The Geospatial Platform for Andean Culture, History and Archaeology (GeoPACHA) enables systematic registry of imagery survey data through a ‘federated’ approach. Using GeoPACHA, teams pursue problem-specific research questions through a common data schema and interface that allows for inter-project comparisons, analyses and syntheses. The authors present an overview of the platform's rationale and functionality, as well as a summary of results from the first survey campaign, which was carried out by six projects distributed across the central Andes, five of which are represented here. 
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  7. Localization in underwater environments is a fundamental problem for autonomous vehicles with important applications such as underwater ecology monitoring, infrastructure maintenance, and conservation of marine species. However, several traditional sensing modalities used for localization in outdoor robotics (e.g., GPS, compasses, LIDAR, and Vision) are compromised in underwater scenarios. In addition, other problems such as aliasing, drifting, and dynamic changes in the environment also affect state estimation in aquatic environments. Motivated by these issues, we propose novel state estimation algorithms for underwater vehicles that can read noisy sensor observations in spatio-temporal varying fields in water (e.g., temperature, pH, chlorophyll-A, and dissolved oxygen) and have access to a model of the evolution of the fields as a set of partial differential equations. We frame the underwater robot localization in an optimization framework and formulate, study, and solve the state-estimation problem. First, we find the most likely position given a sequence of observations, and we prove upper and lower bounds for the estimation error given information about the error and the fields. Our methodology can find the actual location within a 95% confidence interval around the median in over 90% of the cases in different conditions and extensions. 
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