AOIPS 3 user's guide. Volume 2: Program descriptions

The Atmospheric and Oceanographic Information Processing System (AOIPS) 3 is the version of the AOIPS software as of April 1989. The AOIPS software was developed jointly by the Goddard Space Flight Center and General Sciences Corporation. A detailed description of very AOIPS program is presented. It is intended to serve as a reference for such items as program functionality, program operational instructions, and input/output variable descriptions. Program descriptions are derived from the on-line help information. Each program description is divided into two sections. The functional description section describes the purpose of the program and contains any pertinent operational information. The program description sections lists the program variables as they appear on-line, and describes them in detail

Flood and Landslide Applications of Near Real-time Satellite Rainfall Products

Floods and associated landslides are one of the most widespread natural hazards on Earth, responsible for tens of thousands of deaths and billions of dollars in property damage every year. During 1993-2002, over 1000 of the more than 2,900 natural disasters reported were due to floods. These floods and associated landslides claimed over 90,000 lives, affected over 1.4 billion people and cost about $210 billion. The impact of these disasters is often felt most acutely in less developed regions. In many countries around the world, satellite-based precipitation estimation may be the best source of rainfall data due to lack of surface observing networks. Satellite observations can be of essential value in improving our understanding of the occurrence of hazardous events and possibly in lessening their impact on local economies and in reducing injuries, if they can be used to create reliable warning systems in cost-effective ways. This article addressed these opportunities and challenges by describing a combination of satellite-based real-time precipitation estimation with land surface characteristics as input, with empirical and numerical models to map potential of landslides and floods. In this article, a framework to detect floods and landslides related to heavy rain events in near-real-time is proposed. Key components of the framework are: a fine resolution precipitation acquisition system; a comprehensive land surface database; a hydrological modeling component; and landslide and debris flow model components. A key precipitation input dataset for the integrated applications is the NASA TRMM-based multi-satellite precipitation estimates. This dataset provides near real-time precipitation at a spatial-temporal resolution of 3 hours and 0.25deg x 0.25deg. By careful integration of remote sensing and in-situ observations, and assimilation of these observations into hydrological and landslide/debris flow models with surface topographic information, prediction of useful probabilistic maps of landslide and floods for emergency management in a timely manner is possible. Early results shows that the potential exists for successful application of satellite precipitation data in improving/developing global monitoring systems for flood/landslide disaster preparedness and management. The scientific and technological prototype can be first applied in a representative test-bed and then the information deliverables for the region can be tailored to the societal and economic needs of the represented affected countries

Thermal and herbicide tolerances of chromerid algae and their ability to form a symbiosis with corals

Reef-building corals form an obligate symbiosis with photosynthetic microalgae in the family Symbiodiniaceae that meet most of their energy requirements. This symbiosis is under threat from the unprecedented rate of ocean warming as well as the simultaneous pressure of local stressors such as poor water quality. Only 1°C above mean summer sea surface temperatures (SSTs) on the Great Barrier Reef (GBR) can trigger the loss of Symbiodiniaceae from the host, and very low concentrations of the most common herbicide, diuron, can disrupt the photosynthetic activity of microalgae. In an era of rapid environmental change, investigation into the assisted evolution of the coral holobiont is underway in an effort to enhance the resilience of corals. Apicomplexan-like microalgae were discovered in 2008 and the Phylum Chromerida (chromerids) was created. Chromerids have been isolated from corals and contain a functional photosynthetic plastid. Their discovery therefore opens a new avenue of research into the use of alternative/additional photosymbionts of corals. However, only two studies to-date have investigated the symbiotic nature of Chromera velia with corals and thus little is known about the coral-chromerid relationship. Furthermore, the response of chromerids to environmental stressors has not been examined. Here we tested the performance of four chromerid strains and the common dinofiagellate symbiont Cladocopium goreaui (formerly Symbiodinium goreaui, ITS2 type C1) in response to elevated temperature, diuron and their combined exposure. Three of the four chromerid strains exhibited high thermal tolerances and two strains showed exceptional herbicide tolerances, greater than observed for any photosynthetic microalgae, including C. goreaui. We also investigated the onset of symbiosis between the chromerids and larvae of two common GBR coral species under ambient and stress conditions. Levels of colonization of coral larvae with the chromerid strains were low compared to colonization with C. goreaui. We did not observe any overall negative or positive larval fitness effects of the inoculation with chromerid algae vs. C. goreaui. However, we cannot exclude the possibility that chromerid algae may have more important roles in later coral life stages and recommend this be the focus of future studies

A 10-Year Climatology of Amazonian Rainfall Derived from Passive Microwave Satellite Observations

In this study we present and describe a satellite-derived precipitation climatology over northern South America using a passive microwave technique, the Goddard Profiling Algorithm. A period of data slightly longer than 10 years is examined. The climatologies take the form of the mean estimated (adjusted) rainfall for a 10-year (+) period, with sub-divisions by month and meteorological season. For the six-year period 1992-1997, when two satellites were in operation, diurnal variability (to the extent it is discerned by four unequally spaced observations) is presented. We find an alternating pattern of morning and maxima stretching from the northeast (Atlantic coast) clear across the continent to the Pacific. The effects of topography, coastlines and geography (river valleys) on the rainfall patterns are clear. Interannual variability is examined by computing the deviations of yearly and warm season (DJF) rainfall from their respective long-term means. Interannual variability of the diurnal nature of the rainfall is presented, and the strong El Nino event of 1997-1998 is discussed

The effects of ultraviolet radiation and climate on oil toxicity to coral reef organisms – a review

Oil pollution remains a significant local threat to shallow tropical coral reef environments, but the environmental conditions typical of coral reefs are rarely considered in oil toxicity testing and risk assessments. Here we review the effects of three environmental co-factors on petroleum oil toxicity towards coral reef organisms, and show that the impacts of oil pollution on coral reef taxa can be exacerbated by environmental conditions commonly encountered in tropical reef environments. Shallow reefs are routinely exposed to high levels of ultraviolet radiation (UVR), which can substantially increase the toxicity of some oil components through phototoxicity. Exposure to UVR represents the most likely and harmful environmental co-factor reviewed here, leading to an average toxicity increase of 7.2-fold across all tests reviewed. The clear relevance of UVR co-exposure and its strong influence on tropical reef oil toxicity highlights the need to account for UVR as a standard practice in future oil toxicity studies. Indeed, quantifying the influence of UVR on toxic thresholds of oil to coral reef species is essential to develop credible oil spill risk models required for oil extraction developments, shipping management and spill responses in the tropics. The few studies available indicate that co-exposure to elevated temperature and low pH, both within the range of current daily and seasonal fluctuations and/or projected under continued climate change, can increase oil toxicity on average by 3.0- and 1.3-fold, respectively. While all three of the reviewed environmental co-factors have the potential to substantially increase the impacts of oil pollution in shallow reef environments, their simultaneous effects have not been investigated. Assessments of the combined effects of oil pollution, UVR, temperature and low pH will become increasingly important to identify realistic hazard thresholds suitable for future risk assessments over the coming century

Settlement of larvae from four families of corals in response to a crustose coralline alga and its biochemical morphogens

Healthy benthic substrates that induce coral larvae to settle are necessary for coral recovery. Yet, the biochemical cues required to induce coral settlement have not been identified for many taxa. Here we tested the ability of the crustose coralline alga (CCA) Porolithon onkodes to induce attachment and metamorphosis, collectively termed settlement, of larvae from 15 ecologically important coral species from the families Acroporidae, Merulinidae, Poritidae, and Diploastreidae. Live CCA fragments, ethanol extracts, and hot aqueous extracts of P. onkodes induced settlement (>10%) for 11, 7, and 6 coral species, respectively. Live CCA fragments were the most effective inducer, achieving over 50% settlement for nine species. The strongest settlement responses were observed in Acropora spp.; the only non-acroporid species that settled over 50% were Diploastrea heliopora, Goniastrea retiformis, and Dipsastraea pallida. Larval settlement was reduced in treatments with chemical extracts compared with live CCA, although high settlement (>50%) was reported for six acroporid species in response to ethanol extracts of CCA. All experimental treatments failed (< 10%) to induce settlement in Montipora aequituberculata, Mycedium elephantotus, and Porites cylindrica. Individual species responded heterogeneously to all treatments, suggesting that none of the cues represent a universal settlement inducer. These results challenge the commonly-held notion that CCA ubiquitously induces coral settlement, and emphasize the critical need to assess additional cues to identify natural settlement inducers for a broad range of coral taxa

Microplastic contamination has limited effects on coral fertilisation and larvae

Microplastics are ubiquitous throughout the world's oceans and contaminate coral reef ecosystems. There is evidence of microplastic ingestion by corals and passive contact with coral tissues, causing adverse health effects that include energy expenditure for particle removal from the tissue surface, as well as reduced growth, tissue bleaching, and necrosis. Here, it was examined whether microplastic contamination impairs the success of gamete fertilisation, embryo development and larval settlement of the reef-building coral Acropora tenuis. Coral gametes and larvae were exposed to fifteen microplastic treatments using two types of plastic: (1) weathered polypropylene particles and (2) spherical polyethylene microbeads. The treatments ranged from five to 50 polypropylene pieces L-1 and 25 to 200 microbeads L-1. Fertilisation was only negatively affected by the largest weathered microplastics (2 mm2), but the effects were not dose dependent. Embryo development and larval settlement were not significantly impacted by either microplastic type. The study shows that moderate-high levels of marine microplastic contamination, specifically particles <2 mm2, will not substantially interfere with the success of critical early life coral processes

Satellite studies of severe convective storms

Co-authors by section, 2.0 Donald W. Hillger, 3.0 Andrew J. Negri, 4.0 Robert A Maddox, 5.0 David W. Reynolds.June 1978.Includes bibliographical references (pages 63-65).Final Report sponsored by NSF, Atmopheric Science Section ATM76-2103

Sediment characteristics influence the fertilisation success of the corals Acropora tenuis and Acropora millepora

Elevated suspended sediment concentrations (SSCs) often impact coral fertilisation success, but sediment composition can influence effect thresholds, which is problematic for accurately predicting risk. Here, we derived concentration–response thresholds and cause-effect pathways for SSCs comprising a range of realistic mineral and organic compositions on coral fertilisation success. Effect concentration thresholds (EC10: 10% fertilisation inhibition) varied markedly, with fertilisation highly sensitive to inshore organic-clay rich sediments and bentonite clay at 40 mg L−1). The effect thresholds for relevant sediment types were combined with in situ turbidity data from locations near dredging operations to assess the risks posed by dredging to coral fertilisation at these locations

Rapid counting and spectral sorting of live coral larvae using large-particle flow cytometry

Research with coral embryos and larvae often requires laborious manual counting and sorting of individual specimens, usually via microscopy. Because many coral species spawn only once per year during a narrow temporal window, sample processing is a time-limiting step for research on the early life-history stages of corals. Flow cytometry, an automated technique for measuring and sorting particles, cells, and cell-clusters, is a potential solution to this bottleneck. Yet most flow cytometers do not accommodate live organisms of the size of most coral embryos (> 250 µm), and sample processing is often destructive. Here we tested the ability of a large-particle flow cytometer with a gentle pneumatic sorting mechanism to process and spectrally sort live and preserved Montipora capitata coral embryos and larvae. Average survival rates of mechanically-sorted larvae were over 90% and were comparable to those achieved by careful hand-sorting. Preserved eggs and embryos remained intact throughout the sorting process and were successfully sorted based on real-time size and fluorescence detection. In-line bright-field microscopy images were captured for each sample object as it passed through the flow-cell, enabling the identification of early-stage embryos (2-cell to morula stage). Samples were counted and sorted at an average rate of 4 s larva−1 and as high as 0.2 s larva−1 for high-density samples. Results presented here suggest that large-particle flow cytometry has the potential to significantly increase efficiency and accuracy of data collection and sample processing during time-limited coral spawning events, facilitating larger-scale and higher-replication studies with an expanded number of species