Zoonotic orthopoxviruses encode a high-affinity antagonist of NKG2D

NK and T lymphocytes express both activating and inhibiting receptors for various members of the major histocompatibility complex class I superfamily (MHCISF). To evade immunologic cytotoxicity, many viruses interfere with the function of these receptors, generally by altering the displayed profile of MHCISF proteins on host cells. Using a structurally constrained hidden Markov model, we discovered an orthopoxvirus protein, itself distantly class I-like, that acts as a competitive antagonist of the NKG2D activating receptor. This orthopoxvirus MHC class I-like protein (OMCP) is conserved among cowpox and monkeypox viruses, secreted by infected cells, and bound with high affinity by NKG2D of rodents and humans (K(D) approximately 30 and 0.2 nM, respectively). OMCP blocks recognition of host-encoded ligands and inhibits NKG2D-dependent killing by NK cells. This finding represents a novel mechanism for viral interference with NKG2D and sheds light on intercellular recognition events underlying innate immunity against emerging orthopoxviruses.

Climate Process Team on Internal Wave-Driven Ocean Mixing

Diapycnal mixing plays a primary role in the thermodynamic balance of the ocean and, consequently, in oceanic heat and carbon uptake and storage. Though observed mixing rates are on average consistent with values required by inverse models, recent attention has focused on the dramatic spatial variability, spanning several orders of magnitude, of mixing rates in both the upper and deep ocean. Away from ocean boundaries, the spatio-temporal patterns of mixing are largely driven by the geography of generation, propagation and dissipation of internal waves, which supply much of the power for turbulent mixing. Over the last five years and under the auspices of US CLIVAR, a NSF- and NOAA-supported Climate Process Team has been engaged in developing, implementing and testing dynamics-based parameterizations for internal-wave driven turbulent mixing in global ocean models. The work has primarily focused on turbulence 1) near sites of internal tide generation, 2) in the upper ocean related to wind-generated near inertial motions, 3) due to internal lee waves generated by low-frequency mesoscale flows over topography, and 4) at ocean margins. Here we review recent progress, describe the tools developed, and discuss future directions.

Understanding of Contemporary Regional Sea-Level Change and the Implications for the Future

Global sea level provides an important indicator of the state of the warming climate, but changes in regional sea level are most relevant for coastal communities around the world. With improvements to the sea-level observing system, the knowledge of regional sea-level change has advanced dramatically in recent years. Satellite measurements coupled with in situ observations have allowed for comprehensive study and improved understanding of the diverse set of drivers that lead to variations in sea level in space and time. Despite the advances, gaps in the understanding of contemporary sea-level change remain and inhibit the ability to predict how the relevant processes may lead to future change. These gaps arise in part due to the complexity of the linkages between the drivers of sea-level change. Here we review the individual processes which lead to sea-level change and then describe how they combine and vary regionally. The intent of the paper is to provide an overview of the current state of understanding of the processes that cause regional sea-level change and to identify and discuss limitations and uncertainty in our understanding of these processes. Areas where the lack of understanding or gaps in knowledge inhibit the ability to provide the needed information for comprehensive planning efforts are of particular focus. Finally, a goal of this paper is to highlight the role of the expanded sea-level observation network-particularly as related to satellite observations-in the improved scientific understanding of the contributors to regional sea-level change.

The Role of Rough Topography in Mediating Impacts of Bottom Drag in Eddying Ocean Circulation Models

Motivated by the substantial sensitivity of eddies in two-layer quasi-geostrophic (QG) turbulence models to the strength of bottom drag, this study explores the sensitivity of eddies in more realistic ocean general circulation model (OGCM) simulations to bottom drag strength. The OGCM results are interpreted using previous results from horizontally homogeneous, two-layer, flat-bottom, f-plane, doubly periodic QG turbulence simulations and new results from two-layer β-plane QG turbulence simulations run in a basin geometry with both flat and rough bottoms. Baroclinicity in all of the simulations varies greatly with drag strength, with weak drag corresponding to more barotropic flow and strong drag corresponding to more baroclinic flow. The sensitivity of the baroclinicity in the QG basin simulations to bottom drag is considerably reduced, however, when rough topography is used in lieu of a flat bottom. Rough topography reduces the sensitivity of the eddy kinetic energy amplitude and horizontal length scales in the QG basin simulations to bottom drag to an even greater degree. The OGCM simulation behavior is qualitatively similar to that in the QG rough bottom basin simulations in that baroclinicity is more sensitive to bottom drag strength than are eddy amplitudes or horizontal length scales. Rough topography therefore appears to mediate the sensitivity of eddies in models to the strength of bottom drag. The sensitivity of eddies to parameterized topographic internal lee wave drag, which has recently been introduced into some OGCMs, is also briefly discussed. Wave drag acts like a strong bottom drag in that it increases the baroclinicity of the flow, without strongly affecting eddy horizontal length scales.