Comparative Genomics of Two Sequential <i>Candida glabrata</i> Clinical Isolates.

&lt;i&gt;Candida glabrata&lt;/i&gt; is an important fungal pathogen which develops rapid antifungal resistance in treated patients. It is known that azole treatments lead to antifungal resistance in this fungal species and that multidrug efflux transporters are involved in this process. Specific mutations in the transcriptional regulator &lt;i&gt;PDR1&lt;/i&gt; result in upregulation of the transporters. In addition, we showed that the &lt;i&gt;PDR1&lt;/i&gt; mutations can contribute to enhance virulence in animal models. In this study, we were interested to compare genomes of two specific &lt;i&gt;C. glabrata&lt;/i&gt; -related isolates, one of which was azole susceptible (DSY562) while the other was azole resistant (DSY565). DSY565 contained a &lt;i&gt;PDR1&lt;/i&gt; mutation (L280F) and was isolated after a time-lapse of 50 d of azole therapy. We expected that genome comparisons between both isolates could reveal additional mutations reflecting host adaptation or even additional resistance mechanisms. The PacBio technology used here yielded 14 major contigs (sizes 0.18-1.6 Mb) and mitochondrial genomes from both DSY562 and DSY565 isolates that were highly similar to each other. Comparisons of the clinical genomes with the published CBS138 genome indicated important genome rearrangements, but not between the clinical strains. Among the unique features, several retrotransposons were identified in the genomes of the investigated clinical isolates. DSY562 and DSY565 each contained a large set of adhesin-like genes (101 and 107, respectively), which exceed by far the number of reported adhesins (63) in the CBS138 genome. Comparison between DSY562 and DSY565 yielded 17 nonsynonymous SNPs (among which the was the expected &lt;i&gt;PDR1&lt;/i&gt; mutation) as well as small size indels in coding regions (11) but mainly in adhesin-like genes. The genomes contained a DNA mismatch repair allele of &lt;i&gt;MSH2&lt;/i&gt; known to be involved in the so-called hyper-mutator phenotype of this yeast species and the number of accumulated mutations between both clinical isolates is consistent with the presence of a &lt;i&gt;MSH2&lt;/i&gt; defect. In conclusion, this study is the first to compare genomes of &lt;i&gt;C. glabrata&lt;/i&gt; sequential clinical isolates using the PacBio technology as an approach. The genomes of these isolates taken in the same patient at two different time points exhibited limited variations, even if submitted to the host pressure

Characterizing the Effects of Irrigation in the Middle East and North Africa Using Remotely Sensed Vegetation and Water Cycle Observations

A majority of the countries in the Middle East and North Africa (MENA) region suffer from water scarcity due in part to widespread rainfall deficits, unprecedented levels of water demand, and the inefficient use of renewable freshwater resources. Since a majority of the water withdrawal in the MENA is used for irrigation, there is a desperate need for improved understanding of irrigation practices and agricultural water use in the region. Here, satellite-derived irrigation maps and crop-type agricultural data are applied to the Land Data Assimilation System for the MENA region (MENA LDAS), designed to provide regional, gridded fields of hydrological states and fluxes relevant for water resources assessments. Within MENA-LDAS, the Catchment Land Surface Model (CLSM) simulates the location, timing, and amount of water applied through agricultural irrigation practices over the region from 2002-2012. In addition to simulating the irrigation impact on evapotranspiration, soil moisture, and runoff, we also investigate regional changes in terrestrial water storage (TWS) observed from the Gravity Recovery and Climate Experiment (GRACE) and simulated by CLSM

NEWS Climatology Project: The State of the Water Cycle at Continental to Global Scales

NASA's Energy and Water Cycle Study (NEWS) program fosters collaborative research towards improved quantification and prediction of water and energy cycle consequences of climate change. In order to measure change, it is first necessary to describe current conditions. The goal of the NEWS Water and Energy Cycle Climatology project is to develop "state of the global water cycle" and "state of the global energy cycle" assessments based on data from modern ground and space based observing systems and data integrating models. The project is a multiinstitutional collaboration with more than 20 active contributors. This presentation will describe results of the first stage of the water budget analysis, whose goal was to characterize the current state of the water cycle on mean monthly, continental scales. We examine our success in closing the water budget within the expected uncertainty range and the effects of forcing budget closure as a method for refining individual flux estimates

Customer-oriented Data Formats and Services for Global Land Data Assimilation System (GLDAS) Products at the NASA GES DISC

The Global Land Data Assimilation System (GLDAS) is generating a series of land surface state (e.g., soil moisture and surface temperature) and flux (e.g., evaporation and sensible heat flux) products simulated by four land surface Models (CLM, Mosaic, Noah and VIC). These products are now accessible at the Hydrology Data and Information Services Center (HDISC), a component of NASA Goddard Earth Sciences Data and Information Services Center (GESDISC)

The NEWS Water Cycle Climatology

NASA's Energy and Water Cycle Study (NEWS) program fosters collaborative research towards improved quantification and prediction of water and energy cycle consequences of climate change. In order to measure change, it is first necessary to describe current conditions. The goal of the first phase of the NEWS Water and Energy Cycle Climatology project was to develop "state of the global water cycle" and "state of the global energy cycle" assessments based on data from modern ground and space based observing systems and data integrating models. The project was a multi-institutional collaboration with more than 20 active contributors. This presentation will describe the results of the water cycle component of the first phase of the project, which include seasonal (monthly) climatologies of water fluxes over land, ocean, and atmosphere at continental and ocean basin scales. The requirement of closure of the water budget (i.e., mass conservation) at various scales was exploited to constrain the flux estimates via an optimization approach that will also be described. Further, error assessments were included with the input datasets, and we examine these in relation to inferred uncertainty in the optimized flux estimates in order to gauge our current ability to close the water budget within an expected uncertainty range

Simulating the Effects of Irrigation over the U.S. in a Land Surface Model Based on Satellite Derived Agricultural Data

A novel method is introduced for integrating satellite derived irrigation data and high-resolution crop type information into a land surface model (LSM). The objective is to improve the simulation of land surface states and fluxes through better representation of agricultural land use. Ultimately, this scheme could enable numerical weather prediction (NWP) models to capture land-atmosphere feedbacks in managed lands more accurately and thus improve forecast skill. Here we show that application of the new irrigation scheme over the continental US significantly influences the surface water and energy balances by modulating the partitioning of water between the surface and the atmosphere. In our experiment, irrigation caused a 12% increase in evapotranspiration (QLE) and an equivalent reduction in the sensible heat flux (QH) averaged over all irrigated areas in the continental US during the 2003 growing season. Local effects were more extreme: irrigation shifted more than 100 W/m from QH to QLE in many locations in California, eastern Idaho, southern Washington, and southern Colorado during peak crop growth. In these cases, the changes in ground heat flux (QG), net radiation (RNET), evapotranspiration (ET), runoff (R), and soil moisture (SM) were more than 3 W/m(sup 2), 20 W/m(sup 2), 5 mm/day, 0.3 mm/day, and 100 mm, respectively. These results are highly relevant to continental- to global-scale water and energy cycle studies that, to date, have struggled to quantify the effects of agricultural management practices such as irrigation. Based on the results presented here, we expect that better representation of managed lands will lead to improved weather and climate forecasting skill when the new irrigation scheme is incorporated into NWP models such as NOAA's Global Forecast System (GFS)

Vertebrate conserved non coding DNA regions have a high persistence length and a short persistence time

BACKGROUND: The comparison of complete genomes has revealed surprisingly large numbers of conserved non-protein-coding (CNC) DNA regions. However, the biological function of CNC remains elusive. CNC differ in two aspects from conserved protein-coding regions. They are not conserved across phylum boundaries, and they do not contain readily detectable sub-domains. Here we characterize the persistence length and time of CNC and conserved protein-coding regions in the vertebrate and insect lineages. RESULTS: The persistence length is the length of a genome region over which a certain level of sequence identity is consistently maintained. The persistence time is the evolutionary period during which a conserved region evolves under the same selective constraints.Our main findings are: (i) Insect genomes contain 1.60 times less conserved information than vertebrates; (ii) Vertebrate CNC have a higher persistence length than conserved coding regions or insect CNC; (iii) CNC have shorter persistence times as compared to conserved coding regions in both lineages. CONCLUSION: Higher persistence length of vertebrate CNC indicates that the conserved information in vertebrates and insects is organized in functional elements of different lengths. These findings might be related to the higher morphological complexity of vertebrates and give clues about the structure of active CNC elements.Shorter persistence time might explain the previously puzzling observations of highly conserved CNC within each phylum, and of a lack of conservation between phyla. It suggests that CNC divergence might be a key factor in vertebrate evolution. Further evolutionary studies will help to relate individual CNC to specific developmental processes

NASA GLDAS Evapotranspiration Data and Climatology

Evapotranspiration (ET) is the water lost to the atmosphere by evaporation and transpiration. ET is a shared component in the energy and water budget, therefore, a critical variable for global energy and water cycle and climate change studies. However, direct ET measurements and data acquisition are difficult and expensive, especially at the global level. Therefore, modeling is one common alternative for estimating ET. With the goal to generate optimal fields of land surface states and fluxes, the Global Land Data Assimilation System (GLDAS) has been generating quality-controlled, spatially and temporally consistent, terrestrial hydrologic data, including ET and other variables that affect evaporation and transpiration, such as temperature, precipitation, humidity, wind, soil moisture, heat flux, and solar radiation. This poster presents the long-term ET climatology (mean and monthly), derived from the 61-year GLDAS-2 monthly 1.0 deg x 1.0 deg. NOAH model Experiment-1 data, and describes the basic characteristics of spatial and seasonal variations of the climatology. The time series of GLDAS-2 precipitation and radiation, and ET are also discussed to show the improvement of GLDAS-2 forcing data and model output over those from GLDAS-1

New and Improved GLDAS Data Sets and Data Services at NASA GES DISC

The goal of a Land Data Assimilation System (LDAS) is to ingest satellite- and ground-based observational data products, using advanced land surface modeling and data assimilation techniques, in order to generate optimal fields of land surface states and fluxes data and, thereby, facilitate hydrology and climate modeling, research, and forecast. With the motivation of creating more climatologically consistent data sets, NASA GSFC's Hydrological Sciences Laboratory has generated more than 60 years (Jan. 1948-- Dec. 2008) of Global LDAS Version 2 (GLDAS-2) data, by using the Princeton Forcing Data Set and upgraded versions of Land Surface Models (LSMs). GLDAS data and data services are provided at NASA GES DISC Hydrology Data and Information Services Center (HDISC), in collaboration with HSL and LDAS

NASA Giovanni Portals for NLDAS/GLDAS Online Visualization, Analysis, and Intercomparison

The North American Land Data Assimilation System (NLDAS) and Global Land Data Assimilation System (GLDAS) are generating a series of land surface forcing (e.g., precipitation, surface meteorology, and radiation), state (e.g., soil moisture and temperature, and snow), and flux (e.g., evaporation and sensible heat flux) products, simulated by several land surface models. To date, NLDAS and GLDAS have generated more than 30 (1979 - present) and 60 (1948 - present) years of data, respectively. To further facilitate data accessibility and utilization, three new portals in the NASA Giovanni system have been made available for NLDAS and GLDAS online visualization, analysis, and intercomparison