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Allopatry has traditionally been viewed as the primary driver of speciation in marine taxa, but the geography of the marine environment and the larval dispersal capabilities of many marine organisms render this view somewhat questionable. In marine fishes, one of the earliest and most highly cited empirical examples of ecological speciation with gene flow is the slippery dick wrasse, Halichoeres bivittatus. Evidence for this cryptic or incipient speciation event was primarily in the form of a deep divergence in a single mitochondrial locus between the northern and southern Gulf of Mexico, combined with a finding that these two haplotypes were associated with different habitat types (“tropical” vs. “subtropical”) in the Florida Keys and Bermuda, where they overlap. Here, we examine habitat assortment in the Florida Keys using a broader sampling of populations and habitat types than were available for the original study. We find no evidence to support the claim that haplotype frequencies differ between habitat types, and little evidence to support any differences between populations in the Keys. These results undermine claims of ecological speciation with gene flow in Halichoeres bivittatus. Future claims of this type should be supported by multiple lines of evidence that illuminate potential mechanisms and allow researchers to rule out alternative explanations for spatial patterns of genetic differences., source:https://onlinelibrary.wiley.com/doi/full/10.1002/ece3.7936

Allopatry has traditionally been viewed as the primary driver of speciation in marine taxa, but the geography of the marine environment and the larval dispersal capabilities of many marine organisms render this view somewhat questionable. In marine fishes, one of the earliest and most highly cited empirical examples of ecological speciation with gene flow is the slippery dick wrasse, Halichoeres bivittatus. Evidence for this cryptic or incipient speciation event was primarily in the form of a deep divergence in a single mitochondrial locus between the northern and southern Gulf of Mexico, combined with a finding that these two haplotypes were associated with different habitat types ("tropical" vs. "subtropical") in the Florida Keys and Bermuda, where they overlap. Here, we examine habitat assortment in the Florida Keys using a broader sampling of populations and habitat types than were available for the original study. We find no evidence to support the claim that haplotype frequencies differ between habitat types, and little evidence to support any differences between populations in the Keys. These results undermine claims of ecological speciation with gene flow in Halichoeres bivittatus. Future claims of this type should be supported by multiple lines of evidence that illuminate potential mechanisms and allow researchers to rule out alternative explanations for spatial patterns of genetic differences.

Nine Bayesian Belief Networks (BBNs) were developed within the OpenNESS project specifically for modelling ecosystem services for case study applications. The novelty of the method, its ability to explore problems, to address uncertainty, and to facilitate stakeholder interaction in the process were all reasons for choosing BBNs. Most case studies had some local expertise on BBNs to assist them, and all used expert opinion as well as data to help develop the dependences in the BBNs. In terms of the decision scope of the work, all case studies were moving from explorative and informative uses towards decisive, but none were yet being used for decision-making. Three applications incorporated BBNs with GIS where the spatial component of the management was critical, but several concerns about estimating uncertainty with spatial modelling approaches are discussed. The tool proved to be very flexible and, particularly with its web interface, was an asset when working with stakeholders to facilitate exploration of outcomes, knowledge elicitation and social learning. BBNs were rated as very useful and widely applicable by the case studies that used them, but further improvements in software and more training were also deemed necessary.

Nine Bayesian Belief Networks (BBNs) were developed within the OpenNESS project specifically for modelling ecosystem services for case study applications. The novelty of the method, its ability to explore problems, to address uncertainty, and to facilitate stakeholder interaction in the process were all reasons for choosing BBNs. Most case studies had some local expertise on BBNs to assist them, and all used expert opinion as well as data to help develop the dependences in the BBNs. In terms of the decision scope of the work, all case studies were moving from explorative and informative uses towards decisive, but none were yet being used for decision-making. Three applications incorporated BBNs with GIS where the spatial component of the management was critical, but several concerns about estimating uncertainty with spatial modelling approaches are discussed. The tool proved to be very flexible and, particularly with its web interface, was an asset when working with stakeholders to facilitate exploration of outcomes, knowledge elicitation and social learning. BBNs were rated as very useful and widely applicable by the case studies that used them, but further improvements in software and more training were also deemed necessary.

BackgroundThe past decade has witnessed remarkable progress towards resolution of the Tree of Life. However, despite the increased use of genomic scale datasets, some phylogenetic relationships remain difficult to resolve. Here we employ anchored phylogenomics to capture 107 nuclear loci in 29 species of acanthomorph teleost fishes, with 25 of these species sampled from the recently delimited clade Ovalentaria. Previous studies employing multilocus nuclear exon datasets have not been able to resolve the nodes at the base of the Ovalentaria tree with confidence. Here we test whether a phylogenomic approach will provide better support for these nodes, and if not, why this may be.ResultsAfter using a novel method to account for paralogous loci, we estimated phylogenies with maximum likelihood and species tree methods using DNA sequence alignments of over 80,000 base pairs. Several key relationships within Ovalentaria are well resolved, including 1) the sister taxon relationship between Cichlidae and Pholidichthys, 2) a clade containing blennies, grammas, clingfishes, and jawfishes, and 3) monophyly of Atherinomorpha (topminnows, flyingfishes, and silversides). However, many nodes in the phylogeny associated with the early diversification of Ovalentaria are poorly resolved in several analyses. Through the use of rarefaction curves we show that limited phylogenetic resolution among the earliest nodes in the Ovalentaria phylogeny does not appear to be due to a deficiency of data, as average global node support ceases to increase when only 1/3rd of the sampled loci are used in analyses. Instead this lack of resolution may be driven by model misspecification as a Bayesian mixed model analysis of the amino acid dataset provided good support for parts of the base of the Ovalentaria tree.ConclusionsAlthough it does not appear that the limited phylogenetic resolution among the earliest nodes in the Ovalentaria phylogeny is due to a deficiency of data, it may be that both stocha

BackgroundThe past decade has witnessed remarkable progress towards resolution of the Tree of Life. However, despite the increased use of genomic scale datasets, some phylogenetic relationships remain difficult to resolve. Here we employ anchored phylogenomics to capture 107 nuclear loci in 29 species of acanthomorph teleost fishes, with 25 of these species sampled from the recently delimited clade Ovalentaria. Previous studies employing multilocus nuclear exon datasets have not been able to resolve the nodes at the base of the Ovalentaria tree with confidence. Here we test whether a phylogenomic approach will provide better support for these nodes, and if not, why this may be.ResultsAfter using a novel method to account for paralogous loci, we estimated phylogenies with maximum likelihood and species tree methods using DNA sequence alignments of over 80,000 base pairs. Several key relationships within Ovalentaria are well resolved, including 1) the sister taxon relationship between Cichlidae and Pholidichthys, 2) a clade containing blennies, grammas, clingfishes, and jawfishes, and 3) monophyly of Atherinomorpha (topminnows, flyingfishes, and silversides). However, many nodes in the phylogeny associated with the early diversification of Ovalentaria are poorly resolved in several analyses. Through the use of rarefaction curves we show that limited phylogenetic resolution among the earliest nodes in the Ovalentaria phylogeny does not appear to be due to a deficiency of data, as average global node support ceases to increase when only 1/3rd of the sampled loci are used in analyses. Instead this lack of resolution may be driven by model misspecification as a Bayesian mixed model analysis of the amino acid dataset provided good support for parts of the base of the Ovalentaria tree.ConclusionsAlthough it does not appear that the limited phylogenetic resolution among the earliest nodes in the Ovalentaria phylogeny is due to a deficiency of data, it may be that both stocha

The formation of the Isthmus of Panama stands as one of the greatest natural events of the Cenozoic, driving profound biotic transformations on land and in the oceans. Some recent studies suggest that the Isthmus formed many millions of years earlier than the widely recognized age of approximately 3 million years ago (Ma), a result that if true would revolutionize our understanding of environmental, ecological, and evolutionary change across the Americas. To bring clarity to the question of when the Isthmus of Panama formed, we provide an exhaustive review and reanalysis of geological, paleontological, and molecular records. These independent lines of evidence converge upon a cohesive narrative of gradually emerging land and constricting seaways, with formation of the Isthmus of Panama sensu stricto around 2.8 Ma. The evidence used to support an older isthmus is inconclusive, and we caution against the uncritical acceptance of an isthmus before the Pliocene.

BackgroundFlatfish cranial asymmetry represents one of the most remarkable morphological innovations among vertebrates, and has fueled vigorous debate on the manner and rate at which strikingly divergent phenotypes evolve. A surprising result of many recent molecular phylogenetic studies is the lack of support for flatfish monophyly, where increasingly larger DNA datasets of up to 23 loci have either yielded a weakly supported flatfish clade or indicated the group is polyphyletic. Lack of resolution for flatfish relationships has been attributed to analytical limitations for dealing with processes such as nucleotide non-stationarity and incomplete lineage sorting (ILS). We tackle this phylogenetic problem using a sequence dataset comprising more than 1,000 ultraconserved DNA element (UCE) loci covering 45 carangimorphs, the broader clade containing flatfishes and several other specialized lineages such as remoras, billfishes, and archerfishes.ResultsWe present a phylogeny based on UCE loci that unequivocally supports flatfish monophyly and a single origin of asymmetry. We document similar levels of discordance among UCE loci as in previous, smaller molecular datasets. However, relationships among flatfishes and carangimorphs recovered from multilocus concatenated and species tree analyses of our data are robust to the analytical framework applied and size of data matrix used. By integrating the UCE data with a rich fossil record, we find that the most distinctive carangimorph bodyplans arose rapidly during the Paleogene (66.0-23.03 Ma). Flatfish asymmetry, for example, likely evolved over an interval of no more than 2.97 million years.ConclusionsThe longstanding uncertainty in phylogenetic hypotheses for flatfishes and their carangimorph relatives highlights the limitations of smaller molecular datasets when applied to successive, rapid divergences. Here, we recovered significant support for flatfish monophyly and relationships among carangimorphs through analysis o

© The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Science Advances 2 (2016): e1600883, doi:10.1126/sciadv.1600883., The formation of the Isthmus of Panama stands as one of the greatest natural events of the Cenozoic, driving profound biotic transformations on land and in the oceans. Some recent studies suggest that the Isthmus formed many millions of years earlier than the widely recognized age of approximately 3 million years ago (Ma), a result that if true would revolutionize our understanding of environmental, ecological, and evolutionary change across the Americas. To bring clarity to the question of when the Isthmus of Panama formed, we provide an exhaustive review and reanalysis of geological, paleontological, and molecular records. These independent lines of evidence converge upon a cohesive narrative of gradually emerging land and constricting seaways, with formation of the Isthmus of Panama sensu stricto around 2.8 Ma. The evidence used to support an older isthmus is inconclusive, and we caution against the uncritical acceptance of an isthmus before the Pliocene., This study was supported by the Smithsonian Tropical Research Institute to A.O., J.B.C.J., N.K., and H.A.L.; the NSF (EAR 1325683) to A.O., P.G.R.-D., and E.L.G.; the National System of Investigators to A.O.; the Secretaría Nacional de Ciencia, Tecnología e Innovación (Panamá) to A.O., H.A.L., and S.E.C.; the U.S. Geological Survey to R.F.S.; and the Consejo Nacional de Investigaciones Científicas y Técnicas (Argentina) to A.L.C., G.M.G., E.S., and L.S.

Volcanic emissions, specifically from Iceland, pose a pan-European risk and are on the UK National Risk Register due to potential impacts on aviation, public health, agriculture, the environment and the economy, from both effusive and explosive activity. During the 2014–2015 fissure eruption at Holuhraun in Iceland, the UK atmosphere was significantly perturbed. This study focuses one major incursion in September 2014, affecting the surface concentrations of both aerosols and gases across the UK, with sites in Scotland experiencing the highest sulfur dioxide (SO2) concentrations. The perturbation event observed was confirmed to originate from the fissure eruption using satellite data from GOME2B and the chemical transport model, EMEP4UK, which was used to establish the spatial distribution of the plume over the UK during the event of interest. At the two UK European Monitoring and Evaluation Program (EMEP) supersite observatories (Auchencorth Moss, SE Scotland, and Harwell, SE England) significant alterations in sulfate (SO42−) content of PM10 and PM2.5 during this event, concurrently with evidence of an increase in ultrafine aerosol most likely due to nucleation and growth of aerosol within the plume, were observed. At Auchencorth Moss, higher hydrochloric acid (HCl) concentrations during the September event (max = 1.21 µg m−3, cf. annual average 0.12 µg m−3 in 2013), were assessed to be due to acid displacement of chloride (Cl−) from sea salt (NaCl) to form HCl gas rather than due to primary emissions of HCl from Holuhraun. The gas and aerosol partitioning at Auchencorth Moss of inorganic species by thermodynamic modelling confirmed the observed partitioning of HCl. Using the data from the chemical thermodynamic model, ISORROPIA-II, there is evidence that the background aerosol, which is typically basic at this site, became acidic with an estimated pH of 3.8 during the peak of the event. Volcano plume episodes were periodically observed by the majority of the UK

The present report synthesises the main features of the evolution over the 1990-2012 time period of the concentration and deposition of air pollutants relevant in the context of the Convention on Long-range Transboundary Air Pollution: (i) ozone, (ii) sulfur and nitrogen compounds and particulate matter, (iii) heavy metals and persistent organic pollutants. It is based on observations gathered in State Parties to the Convention within the EMEP monitoring network of regional background stations, as well as relevant modelling initiatives. Joint Report of: EMEP Task Force on Measurements and Modelling (TFMM), Chemical Co-ordinating Centre (CCC), Meteorological Synthesizing Centre-East (MSC-E), Meteorological Synthesizing Centre-West (MSC-W).

The formation of the Isthmus of Panama stands as one of the greatest natural events of the Cenozoic, driving profound biotic transformations on land and in the oceans. Some recent studies suggest that the Isthmus formed many millions of years earlier than the widely recognized age of approximately 3 million years ago (Ma), a result that if true would revolutionize our understanding of environmental, ecological, and evolutionary change across the Americas. To bring clarity to the question of when the Isthmus of Panama formed, we provide an exhaustive review and reanalysis of geological, paleontological, and molecular records. These independent lines of evidence converge upon a cohesive narrative of gradually emerging land and constricting seaways, with formation of the Isthmus of Panama sensu stricto around 2.8 Ma. The evidence used to support an older isthmus is inconclusive, and we caution against the uncritical acceptance of an isthmus before the Pliocene.

The formation of the Isthmus of Panama stands as one of the greatest natural events of the Cenozoic, driving profound biotic transformations on land and in the oceans. Some recent studies suggest that the Isthmus formed many millions of years earlier than the widely recognized age of approximately 3 million years ago (Ma), a result that if true would revolutionize our understanding of environmental, ecological, and evolutionary change across the Americas. To bring clarity to the question of when the Isthmus of Panama formed, we provide an exhaustive review and reanalysis of geological, paleontological, and molecular records. These independent lines of evidence converge upon a cohesive narrative of gradually emerging land and constricting seaways, with formation of the Isthmus of Panama sensu stricto around 2.8 Ma. The evidence used to support an older isthmus is inconclusive, and we caution against the uncritical acceptance of an isthmus before the Pliocene.

BackgroundFlatfish cranial asymmetry represents one of the most remarkable morphological innovations among vertebrates, and has fueled vigorous debate on the manner and rate at which strikingly divergent phenotypes evolve. A surprising result of many recent molecular phylogenetic studies is the lack of support for flatfish monophyly, where increasingly larger DNA datasets of up to 23 loci have either yielded a weakly supported flatfish clade or indicated the group is polyphyletic. Lack of resolution for flatfish relationships has been attributed to analytical limitations for dealing with processes such as nucleotide non-stationarity and incomplete lineage sorting (ILS). We tackle this phylogenetic problem using a sequence dataset comprising more than 1,000 ultraconserved DNA element (UCE) loci covering 45 carangimorphs, the broader clade containing flatfishes and several other specialized lineages such as remoras, billfishes, and archerfishes.ResultsWe present a phylogeny based on UCE loci that unequivocally supports flatfish monophyly and a single origin of asymmetry. We document similar levels of discordance among UCE loci as in previous, smaller molecular datasets. However, relationships among flatfishes and carangimorphs recovered from multilocus concatenated and species tree analyses of our data are robust to the analytical framework applied and size of data matrix used. By integrating the UCE data with a rich fossil record, we find that the most distinctive carangimorph bodyplans arose rapidly during the Paleogene (66.0-23.03 Ma). Flatfish asymmetry, for example, likely evolved over an interval of no more than 2.97 million years.ConclusionsThe longstanding uncertainty in phylogenetic hypotheses for flatfishes and their carangimorph relatives highlights the limitations of smaller molecular datasets when applied to successive, rapid divergences. Here, we recovered significant support for flatfish monophyly and relationships among carangimorphs through analy

The present report synthesises the main features of the evolution over the 1990-2012 time period of the concentration and deposition of air pollutants relevant in the context of the Convention on Long-range Transboundary Air Pollution: (i) ozone, (ii) sulfur and nitrogen compounds and particulate matter, (iii) heavy metals and persistent organic pollutants. It is based on observations gathered in State Parties to the Convention within the EMEP monitoring network of regional background stations, as well as relevant modelling initiatives. Joint Report of: EMEP Task Force on Measurements and Modelling (TFMM), Chemical Co-ordinating Centre (CCC), Meteorological Synthesizing Centre-East (MSC-E), Meteorological Synthesizing Centre-West (MSC-W).

Volcanic emissions, specifically from Iceland, pose a pan-European risk and are on the UK National Risk Register due to potential impacts on aviation, public health, agriculture, the environment and the economy, from both effusive and explosive activity. During the 2014–2015 fissure eruption at Holuhraun in Iceland, the UK atmosphere was significantly perturbed. This study focuses one major incursion in September 2014, affecting the surface concentrations of both aerosols and gases across the UK, with sites in Scotland experiencing the highest sulfur dioxide (SO2) concentrations. The perturbation event observed was confirmed to originate from the fissure eruption using satellite data from GOME2B and the chemical transport model, EMEP4UK, which was used to establish the spatial distribution of the plume over the UK during the event of interest. At the two UK European Monitoring and Evaluation Program (EMEP) supersite observatories (Auchencorth Moss, SE Scotland, and Harwell, SE England) significant alterations in sulfate (SO42−) content of PM10 and PM2.5 during this event, concurrently with evidence of an increase in ultrafine aerosol most likely due to nucleation and growth of aerosol within the plume, were observed. At Auchencorth Moss, higher hydrochloric acid (HCl) concentrations during the September event (max = 1.21 µg m−3, cf. annual average 0.12 µg m−3 in 2013), were assessed to be due to acid displacement of chloride (Cl−) from sea salt (NaCl) to form HCl gas rather than due to primary emissions of HCl from Holuhraun. The gas and aerosol partitioning at Auchencorth Moss of inorganic species by thermodynamic modelling confirmed the observed partitioning of HCl. Using the data from the chemical thermodynamic model, ISORROPIA-II, there is evidence that the background aerosol, which is typically basic at this site, became acidic with an estimated pH of 3.8 during the peak of the event. Volcano plume episodes were periodically observed by the majority of the UK

The Fine Resolution Atmospheric Multi-pollutant Exchange model (FRAME) was applied to model the spatial distribution of air concentration and deposition of nitrogen (N) compounds between 1990 and 2005. Modelled wet deposition of N was found to decrease more slowly than the emissions reductions rate. This is attributed to a number of factors including increases in NOx emissions from international shipping and changing rates of atmospheric oxidation. The modelled deposition of NOy and NHx to the United Kingdom (UK) was estimated to fall by 52 % and 25 % between 1970 and 2020. The percentage of the UK surface area for which critical loads for sensitive ecosystems are exceeded was estimated to fall from 73–49 % for nutrient N deposition. Comparison with model simulations at 1 km and 5 km resolution demonstrated that fine scale simulations are important in order to spatially separate agricultural source regions from sink areas (nature reserves) for ammonia dry deposition.

Breast cancer is a public health problem throughout the world. Moreover, breast cancer cells have a great affinity for hydroxyapatite, leading to a high occurrence of bone metastasis. In this work we developed a bio-nanocomposite (bio-NCP) in order to use such affinity in the diagnosis and treatment of breast cancer. The bio-NCP consists of magnetic nanoparticles of Mn and Zn ferrite inside a polymeric coating (chitosan) modified with nanocrystals of apatite. The materials were characterized with synchrotron X-ray Powder Diffraction (XPD), Time-of-Flight Neutron Powder Diffraction (NPD), Fourier Transformed Infra-red Spectroscopy (FTIR), Scanning Electron Microscopy (SEM) and magnetic measurement with a Physical Property Measurement System (PPMS). We obtained ferrite nanoparticles with a high inversion degree of the spinel structure regarding the Fe and Mn, but with all the Zn in the A site. The coating of such nanoparticles with chitosan had no notable effects to the ferrite microstructure. In addition, the polymeric surface can be easily modified with apatite nanocrystals since the hydration of the bio-NCP during synthesis can be controlled. The resulting bio-NCP presents a spherical shape with a narrow size distribution and high magnetic response at room temperature and is a very promising material for early diagnosis of breast cancer and its treatment.

The Fine Resolution Atmospheric Multi-pollutant Exchange model (FRAME) was applied to model the spatial distribution of air concentration and deposition of nitrogen (N) compounds between 1990 and 2005. Modelled wet deposition of N was found to decrease more slowly than the emissions reductions rate. This is attributed to a number of factors including increases in NOx emissions from international shipping and changing rates of atmospheric oxidation. The modelled deposition of NOy and NHx to the United Kingdom (UK) was estimated to fall by 52 % and 25 % between 1970 and 2020. The percentage of the UK surface area for which critical loads for sensitive ecosystems are exceeded was estimated to fall from 73–49 % for nutrient N deposition. Comparison with model simulations at 1 km and 5 km resolution demonstrated that fine scale simulations are important in order to spatially separate agricultural source regions from sink areas (nature reserves) for ammonia dry deposition.

Breast cancer is a public health problem throughout the world. Moreover, breast cancer cells have a great affinity for hydroxyapatite, leading to a high occurrence of bone metastasis. In this work we developed a bio-nanocomposite (bio-NCP) in order to use such affinity in the diagnosis and treatment of breast cancer. The bio-NCP consists of magnetic nanoparticles of Mn and Zn ferrite inside a polymeric coating (chitosan) modified with nanocrystals of apatite. The materials were characterized with synchrotron X-ray Powder Diffraction (XPD), Time-of-Flight Neutron Powder Diffraction (NPD), Fourier Transformed Infra-red Spectroscopy (FTIR), Scanning Electron Microscopy (SEM) and magnetic measurement with a Physical Property Measurement System (PPMS). We obtained ferrite nanoparticles with a high inversion degree of the spinel structure regarding the Fe and Mn, but with all the Zn in the A site. The coating of such nanoparticles with chitosan had no notable effects to the ferrite microstructure. In addition, the polymeric surface can be easily modified with apatite nanocrystals since the hydration of the bio-NCP during synthesis can be controlled. The resulting bio-NCP presents a spherical shape with a narrow size distribution and high magnetic response at room temperature and is a very promising material for early diagnosis of breast cancer and its treatment.

Cichlid fishes are a key model system in the study of adaptive radiation, speciation and evolutionary developmental biology. More than 1600 cichlid species inhabit freshwater and marginal marine environments across several southern landmasses. This distributional pattern, combined with parallels between cichlid phylogeny and sequences of Mesozoic continental rifting, has led to the widely accepted hypothesis that cichlids are an ancient group whose major biogeographic patterns arose from Gondwanan vicariance. Although the Early Cretaceous (ca 135 Ma) divergence of living cichlids demanded by the vicariance model now represents a key calibration for teleost molecular clocks, this putative split pre-dates the oldest cichlid fossils by nearly 90 Myr. Here, we provide independent palaeontological and relaxed-molecular-clock estimates for the time of cichlid origin that collectively reject the antiquity of the group required by the Gondwanan vicariance scenario. The distribution of cichlid fossil horizons, the age of stratigraphically consistent outgroup lineages to cichlids and relaxed-clock analysis of a DNA sequence dataset consisting of 10 nuclear genes all deliver overlapping estimates for crown cichlid origin centred on the Palaeocene (ca 65-57 Ma), substantially post-dating the tectonic fragmentation of Gondwana. Our results provide a revised macroevolutionary time scale for cichlids, imply a role for dispersal in generating the observed geographical distribution of this important model clade and add to a growing debate that questions the dominance of the vicariance paradigm of historical biogeography.

Cichlid fishes are a key model system in the study of adaptive radiation, speciation and evolutionary developmental biology. More than 1600 cichlid species inhabit freshwater and marginal marine environments across several southern landmasses. This distributional pattern, combined with parallels between cichlid phylogeny and sequences of Mesozoic continental rifting, has led to the widely accepted hypothesis that cichlids are an ancient group whose major biogeographic patterns arose from Gondwanan vicariance. Although the Early Cretaceous (ca 135 Ma) divergence of living cichlids demanded by the vicariance model now represents a key calibration for teleost molecular clocks, this putative split pre-dates the oldest cichlid fossils by nearly 90 Myr. Here, we provide independent palaeontological and relaxed-molecular-clock estimates for the time of cichlid origin that collectively reject the antiquity of the group required by the Gondwanan vicariance scenario. The distribution of cichlid fossil horizons, the age of stratigraphically consistent outgroup lineages to cichlids and relaxed-clock analysis of a DNA sequence dataset consisting of 10 nuclear genes all deliver overlapping estimates for crown cichlid origin centred on the Palaeocene (ca 65-57 Ma), substantially post-dating the tectonic fragmentation of Gondwana. Our results provide a revised macroevolutionary time scale for cichlids, imply a role for dispersal in generating the observed geographical distribution of this important model clade and add to a growing debate that questions the dominance of the vicariance paradigm of historical biogeography.

There are many ways to find bugs in programs. For example, observed input and output values can be compared to predicted values. An execution trace can be examined to locate errors in control flow. The utility of these and other strategies depends on the quality of the specifications available. The Debugging Assistant chooses the most appropriate debugging strategy based on the specification information available and the context of the bug. Particular attention has been given to applying techniques from the domain of hardware troubleshooting to the domain of software debugging. This has revealed two important differences between the two domains: (1) Unlike circuits, programs rarely come with complete specifications of their behavior, and (2) Unlike circuits, the cost of probing inputs and outputs of programs is low., MIT Artificial Intelligence Laboratory

There are many ways to find bugs in programs. For example, observed input and output values can be compared to predicted values. An execution trace can be examined to locate errors in control flow. The utility of these and other strategies depends on the quality of the specifications available. The Debugging Assistant chooses the most appropriate debugging strategy based on the specification information available and the context of the bug. Particular attention has been given to applying techniques from the domain of hardware troubleshooting to the domain of software debugging. This has revealed two important differences between the two domains: (1) Unlike circuits, programs rarely come with complete specifications of their behavior, and (2) Unlike circuits, the cost of probing inputs and outputs of programs is low., MIT Artificial Intelligence Laboratory

There are many ways to find bugs in programs. For example, observed input and output values can be compared to predicted values. An execution trace can be examined to locate errors in control flow. The utility of these and other strategies depends on the quality of the specifications available. The Debugging Assistant chooses the most appropriate debugging strategy based on the specification information available and the context of the bug. Particular attention has been given to applying techniques from the domain of hardware troubleshooting to the domain of software debugging. This has revealed two important differences between the two domains: (1) Unlike circuits, programs rarely come with complete specifications of their behavior, and (2) Unlike circuits, the cost of probing inputs and outputs of programs is low., MIT Artificial Intelligence Laboratory

Software bugs are violated specifications. Debugging is the process that culminates in repairing a program so that it satisfies its specification. An important part of debugging is localization, whereby the smallest region of the program that manifests the bug is found. The Debugging Assistant (DEBUSSI) localizes bugs by reasoning about logical dependencies. DEBUSSI manipulates the assumptions that underlie a bug manifestation, eventually localizing the bug to one particular assumption. At the same time, DEBUSSI acquires specification information, thereby extending its understanding of the buggy program. The techniques used for debugging fully implemented code are also appropriate for validating partial designs.

Software bugs are violated specifications. Debugging is the process that culminates in repairing a program so that it satisfies its specification. An important part of debugging is localization, whereby the smallest region of the program that manifests the bug is found. The Debugging Assistant (DEBUSSI) localizes bugs by reasoning about logical dependencies. DEBUSSI manipulates the assumptions that underlie a bug manifestation, eventually localizing the bug to one particular assumption. At the same time, DEBUSSI acquires specification information, thereby extending its understanding of the buggy program. The techniques used for debugging fully implemented code are also appropriate for validating partial designs.

Increases in N deposition (wet and dry) have been associated with a decline in semi-natural plant communities, adapted for growth on nutrient poor soils in the UK and Europe. The impacts of N deposition applied as either wet NH_4^+ or gaseous NH_3 on vegetation (7 species) from acid moorland in SE Scotland were compared in a dose-response study. Wet N deposition at 0, 8, 16, 32, 64, 128 kg N ha^−1 y^−1 was applied as NH_4Cl, and dry deposition as gaseous NH_3 (2, 6, 20, 50, 90 µg NH_3 m^−3) under controlled conditions in open-top chambers. A strong linear dose-response relationship (p<0.05) was found between foliar N content in all seven plant species and applied NH_4-N. However, in the NH_3 treatment, only C. vulgaris and P. commune showed a significant response to increasing N additions. NH_3 was found to increase the rate of water loss in Calluna in both autumn and winter by comparison with wet deposition. For Eriophorum vaginatum, the NH_3 and NH_4^+ treatments showed significant N dose response relationships for biomass. A significant increase in above ground biomass, proportional to the added N, was found for Narthecium ossifragum when N was applied as NH_3 compared to NH_4^+.

Increases in N deposition (wet and dry) have been associated with a decline in semi-natural plant communities, adapted for growth on nutrient poor soils in the UK and Europe. The impacts of N deposition applied as either wet NH_4^+ or gaseous NH_3 on vegetation (7 species) from acid moorland in SE Scotland were compared in a dose-response study. Wet N deposition at 0, 8, 16, 32, 64, 128 kg N ha^−1 y^−1 was applied as NH_4Cl, and dry deposition as gaseous NH_3 (2, 6, 20, 50, 90 µg NH_3 m^−3) under controlled conditions in open-top chambers. A strong linear dose-response relationship (p<0.05) was found between foliar N content in all seven plant species and applied NH_4-N. However, in the NH_3 treatment, only C. vulgaris and P. commune showed a significant response to increasing N additions. NH_3 was found to increase the rate of water loss in Calluna in both autumn and winter by comparison with wet deposition. For Eriophorum vaginatum, the NH_3 and NH_4^+ treatments showed significant N dose response relationships for biomass. A significant increase in above ground biomass, proportional to the added N, was found for Narthecium ossifragum when N was applied as NH_3 compared to NH_4^+.

PKS 2155-304, the brightest BL Lac object in the ultraviolet sky, was monitored with the IUE satellite at ~1 hour time-resolution for ten nearly uninterrupted days in May 1994. The campaign, which was coordinated with EUVE, ROSAT, and ASCA monitoring, along with optical and radio observations from the ground, yielded the largest set of spectra and the richest short time scale variability information ever gathered for a blazar at UV wavelengths. The source flared dramatically during the first day, with an increase by a factor ~2.2 in an hour and a half. In subsequent days, the flux maintained a nearly constant level for ~5 days, then flared with ~35% amplitude for two days. The same variability was seen in both short- and long-wavelength IUE light curves, with zero formal lag (~<2 hr), except during the rapid initial flare, when the variations were not resolved. Spectral index variations were small and not clearly correlated with flux. The flux variability observed in the present monitoring is so rapid that for the first time, based on the UV emission alone, the traditional Delta L/Delta t limit indicating relativistic beaming is exceeded. The most rapid variations, under the likely assumption of synchrotron radiation, lead to a lower limit of 1 G on the magnetic field strength in the UV emitting region. These results are compared with earlier intensive monitoring of PKS 2155-304 with IUE in November 1991, when the UV flux variations had completely different characteristics., Comment: 45 pages, Latex, 11 PostScript figures, to appear in The Astrophysical Journal

PKS 2155-304, the brightest BL Lac object in the ultraviolet sky, was monitored with the IUE satellite at ~1 hour time-resolution for ten nearly uninterrupted days in May 1994. The campaign, which was coordinated with EUVE, ROSAT, and ASCA monitoring, along with optical and radio observations from the ground, yielded the largest set of spectra and the richest short time scale variability information ever gathered for a blazar at UV wavelengths. The source flared dramatically during the first day, with an increase by a factor ~2.2 in an hour and a half. In subsequent days, the flux maintained a nearly constant level for ~5 days, then flared with ~35% amplitude for two days. The same variability was seen in both short- and long-wavelength IUE light curves, with zero formal lag (~<2 hr), except during the rapid initial flare, when the variations were not resolved. Spectral index variations were small and not clearly correlated with flux. The flux variability observed in the present monitoring is so rapid that for the first time, based on the UV emission alone, the traditional Delta L/Delta t limit indicating relativistic beaming is exceeded. The most rapid variations, under the likely assumption of synchrotron radiation, lead to a lower limit of 1 G on the magnetic field strength in the UV emitting region. These results are compared with earlier intensive monitoring of PKS 2155-304 with IUE in November 1991, when the UV flux variations had completely different characteristics., Comment: 45 pages, Latex, 11 PostScript figures, to appear in The Astrophysical Journal

A software bug manifests itself as a violated specification. Debugging is the process that culminates in repairing a program so that it satisfies its specification. An important part of debugging is localization, whereby the smallest region of the program that manifests the bug is found. The Debugging Assistant (DEBUSSI) is a system that localizes bugs by reasoning about logical dependencies. Via queries to the user and automated deduction, DEBUSSI manipulates the assumptions that underlie a bug manifestation, eventually localizing the bug to one particular assumption. At the same time DEBUSSI incrementally acquires specification information, thereby extending its understanding of the buggy program. As part of the Programmer's Apprentice, DEBUSSI will be useful for validating partial designs, as well as for testing fully implemented code.

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