Utilization of Ancillary Data Sets for SMAP Algorithm Development and Product Generation

Algorithms being developed for the Soil Moisture Active Passive (SMAP) mission require a variety of both static and ancillary data. The selection of the most appropriate source for each ancillary data parameter is driven by a number of considerations, including accuracy, latency, availability, and consistency across all SMAP products and with SMOS (Soil Moisture Ocean Salinity). It is anticipated that initial selection of all ancillary datasets, which are needed for ongoing algorithm development activities on the SMAP algorithm testbed at JPL, will be completed within the year. These datasets will be updated as new or improved sources become available, and all selections and changes will be documented for the benefit of the user community. Wise choices in ancillary data will help to enable SMAP to provide new global measurements of soil moisture and freeze/thaw state at the targeted accuracy necessary to tackle hydrologically-relevant societal issues

Methane emissions from western Siberian wetlands: heterogeneity and sensitivity to climate change

The prediction of methane emissions from high-latitude wetlands is important given concerns about their sensitivity to a warming climate. As a basis for the prediction of wetland methane emissions at regional scales, we coupled the variable infiltration capacity macroscale hydrological model (VIC) with the biosphere–energy-transfer–hydrology terrestrial ecosystem model (BETHY) and a wetland methane emissions model to make large-scale estimates of methane emissions as a function of soil temperature, water table depth, and net primary productivity (NPP), with a parameterization of the sub-grid heterogeneity of the water table depth based on TOPMODEL. We simulated the methane emissions from a 100 km × 100 km region of western Siberia surrounding the Bakchar Bog, for a retrospective baseline period of 1980–1999 and have evaluated their sensitivity to increases in temperature of 0–5 °C and increases in precipitation of 0–15%. The interactions of temperature and precipitation, through their effects on the water table depth, played an important role in determining methane emissions from these wetlands. The balance between these effects varied spatially, and their net effect depended in part on sub-grid topographic heterogeneity. Higher temperatures alone increased methane production in saturated areas, but caused those saturated areas to shrink in extent, resulting in a net reduction in methane emissions. Higher precipitation alone raised water tables and expanded the saturated area, resulting in a net increase in methane emissions. Combining a temperature increase of 3 °C and an increase of 10% in precipitation to represent climate conditions that may pertain in western Siberia at the end of this century resulted in roughly a doubling in annual emissions

McKittrick-Wheelock syndrome : a rare cause of acute renal failure and hypokalemia not to be overlooked

McKittrick-Wheelock syndrome is a rare disorder in which a colorectal tumor (usually a villous adenoma) determines secretory mucous diarrhea, which in turn leads to prerenal acute renal failure, hyponatremia, hypokalemia and metabolic acidosis. Even though the outcome is usually favorable with complete recovery after surgery, the diagnosis is often delayed, making the patient susceptible to life-threatening complications, mainly severe acidosis and hypokalemia. We present two paradigmatic cases with extreme electrolytes imbalance and complete recovery following the appropriate treatment. The pathogenesis of this degenerative condition is discussed in detail. \ua9 2014 Informa Healthcare USA, Inc. All rights reserved: reproduction in whole or part not permitted

The Incorporation of Ribonucleotides Induces Structural and Conformational Changes in DNA

Ribonucleotide incorporation is the most common error occurring during DNA replication. Cells have hence developed mechanisms to remove ribonucleotides from the genome and restore its integrity. Indeed, the persistence of ribonucleotides into DNA leads to severe consequences, such as genome instability and replication stress. Thus, it becomes important to understand the effects of ribonucleotides incorporation, starting from their impact on DNA structure and conformation. Here we present a systematic study of the effects of ribonucleotide incorporation into DNA molecules. We have developed, to our knowledge, a new method to efficiently synthesize long DNA molecules (hundreds of basepairs) containing ribonucleotides, which is based on a modified protocol for the polymerase chain reaction. By means of atomic force microscopy, we could therefore investigate the changes, upon ribonucleotide incorporation, of the structural and conformational properties of numerous DNA populations at the single-molecule level. Specifically, we characterized the scaling of the contour length with the number of basepairs and the scaling of the end-to-end distance with the curvilinear distance, the bending angle distribution, and the persistence length. Our results revealed that ribonucleotides affect DNA structure and conformation on scales that go well beyond the typical dimension of the single ribonucleotide. In particular, the presence of ribonucleotides induces a systematic shortening of the molecules, together with a decrease of the persistence length. Such structural changes are also likely to occur in vivo, where they could directly affect the downstream DNA transactions, as well as interfere with protein binding and recognition

Successful sequencing of Huntington’s disease CAG microsatellite orthologs from museum collection specimens

Huntington's Disease is an inherited neurodegenerative disorder affecting human and caused by the expansion of a CAG repeat microsatellite localized in the 5\u2019 end of the Huntingtin (Htt) gene, ultimately leading to neuronal loss in brain and motor and neuropsychiatric disturbances. To obtain information on Htt orthologous genes, a potential source of genomic DNA is represented by museum collections. Here we aimed at the characterization of orthologous sequences of the human microsatellite by assessing 141 specimens from Museo di Storia Naturale di Milano, Museo di Storia Naturale di Pavia and Acquario Civico di Milano. Samples belonged to four vertebrate groups: mammals (n=66), amphibians (n=1), fishes (n=22) and reptiles (n=52). Small fragments of tissues preserved in ethanol (n=52), stored frozen (n=79) and tissues that had undergone a tanning process (n=10) were used. These specimens ranged from recently collected to over 50-years-old specimens. Genomic DNA was extracted with two different commercial kits (Macherey-Nagel, Zymo Research) and its quality assessed by ultraviolet-visible spectrophotometry and gel electrophoresis. DNA extraction yielded fragments of highly variable length, probably depending on initial sample preservation conditions. Specific primers designed to encompass the CAG tract and targeting the most conservative regions of the different templates were used to amplify the sequences of interest. Amplicon length ranged from 100 to 250 base pairs. About 50% of the PCR reactions performed were successful and the relative products have been correctly sequenced. This study demonstrates that museum collections are a valuable resource of genomic material to amplify triplet repeat loci and restates the importance of specimens conservation for scientific research

Scale invariant disordered nanotopography promotes hippocampal neuron development and maturation with involvement of mechanotransductive pathways

The identification of biomaterials which promote neuronal maturation up to the generation of integrated neural circuits is fundamental for modern neuroscience. The development of neural circuits arises from complex maturative processes regulated by poorly understood signaling events, often guided by the extracellular matrix (ECM). Here we report that nanostructured zirconia surfaces, produced by supersonic cluster beam deposition of zirconia nanoparticles and characterized by ECM-like nanotopographical features, can direct the maturation of neural networks. Hippocampal neurons cultured on such cluster-assembled surfaces displayed enhanced differentiation paralleled by functional changes. The latter was demonstrated by single-cell electrophysiology showing earlier action potential generation and increased spontaneous postsynaptic currents compared to the neurons grown on the featureless unnaturally flat standard control surfaces. Label-free shotgun proteomics broadly confirmed the functional changes and suggests furthermore a vast impact of the neuron/nanotopography interaction on mechanotransductive machinery components, known to control physiological in vivo ECM-regulated axon guidance and synaptic plasticity. Our results indicate a potential of cluster-assembled zirconia nanotopography exploitable for the creation of efficient neural tissue interfaces and cell culture devices promoting neurogenic events, but also for unveiling mechanotransductive aspects of neuronal development and maturation

Insight on colorectal carcinoma infiltration by studying perilesional extracellular matrix

The extracellular matrix (ECM) from perilesional and colorectal carcinoma (CRC), but not healthy colon, sustains proliferation and invasion of tumor cells. We investigated the biochemical and physical diversity of ECM in pair-wised comparisons of healthy, perilesional and CRC specimens. Progressive linearization and degree of organization of fibrils was observed from healthy to perilesional and CRC ECM, and was associated with a steady increase of stiffness and collagen crosslinking. In the perilesional ECM these modifications coincided with increased vascularization, whereas in the neoplastic ECM they were associated with altered modulation of matrisome proteins, increased content of hydroxylated lysine and lysyl oxidase. This study identifies the increased stiffness and crosslinking of the perilesional ECM predisposing an environment suitable for CRC invasion as a phenomenon associated with vascularization. The increased stiffness of colon areas may represent a new predictive marker of desmoplastic region predisposing to invasion, thus offering new potential application for monitoring adenoma with invasive potential