Temporal and spatial variability in the cover of deep reef species: Implications for monitoring

Imagery collected from Autonomous Underwater Vehicles (AUVs) provides a novel means of monitoring changes in benthic ecosystems over large spatial scales and depth ranges. However, for many benthic ecosystems there is little baseline data to quantify temporal and spatial variance for key indicator species. This information is crucial for isolating background “noise” from long-term “signals”. Here we quantify components of variance for five key deep-water sessile invertebrate species across four long-term benthic monitoring sites in a region undergoing strong climate-driven changes. We use linear mixed models to estimate the contribution of sources of spatial and temporal variance in species covers from empirical data. We then combine this information with projected long-term climate-driven changes in the cover of these groups and test the power of various survey designs to detect change through time. Large short-term temporal and spatial variability in the cover of a gorgonian octocoral results in high components of variance that limit the detectability of the projected long-term trend for this species. Conversely, for three of the sponge species high power is achievable with revisits to the four original sites every two years until 2060. By including more sites in the revisit design, high power can be achieved with less frequent revisits. For the fifth species, we find high power is unachievable due to the small trend predicted. Overall, we highlight how examination of components of variance in a system can aid in the selection of suitable indicators and the establishment of effective monitoring programs.     

Adaptation of oysters to life on soft substrates

In spite of their sessile nature, oysters of the genera Crassostrea, Ostrea and their allies are adapted to live on soft muddy bottoms. To provide them with secure attachment and to keep the animal above the surface of the mud, these soft-bottom oysters employ two basic strategies. They tend to be gregarious in their settlement, thereby providing one another with surfaces for attachment, and they form lightweight shells. In addition to these common characteristics, these oysters have followed different morphological pathways to live successfully on soft muddy bottoms. There are at least four types of morphologies: (1) relay-type succession (shells pile up on one another over many generations); (2) konbo-type elongation (both valves grow vertically upwards, the dorsal hinge remaining at the base, near the umbo); (3) cone-type elongation (the attached valve grows upwards and the free valve acts as a lid); and (4) lightweight recliners (bulky shells with lightweight fabrics and cavities within them). Judging from the variety of taxa that have adopted it and the sizes of their populations, the relay-type is the most successful of these strategies. Recliners were particularly common during the Mesozoic. The relay-type appeared in the Late Jurassic, becoming the dominant adaptive strategy during the Cenozoic.     

α-2,6-Difluorophenyl-N-Tert-Butylnitrone: A Spin Trap for Distinguishing Different Types of Alkyl Radicals Based on Long-Range Fluorine Hyperfine Splitting

α-2.6-Difluorophenyl-N-tert-butylnitrone (F₂PBN) was synthesized and evaluated. A number of alkyl adducts of F₂PBN were studied by ESR/ENDOR. An additional hyperfine splitting (a triplet of doublets of doublets) is reported. The existence of two (one large, one small) F-hfsc's from the ortho-fluorine atoms in the phenyl ring of most alkyl adducts was confirmed by ENDOR spectroscopy.     

Sequence-specific dynamic information in proteins

We examine the local and global properties of the average B-factor, 〈B〉, as a residue-specific indicator of protein dynamic characteristics. It has been shown that values of 〈B〉 for the 20 amino acids differ in a statistically significant manner, and that, while strongly determined by the static physical properties of amino acids, they also encode averaged information about the influence of global fold on single-residue dynamics. Therefore, complete sequences of amino acids also encode fold-related global dynamic information, in addition to the local information that arises from static physical properties. We show that the relative magnitudes of these two contributions can be determined using Fourier methods, which represent the global properties of the sequences. It has also been shown that the behavior of Fourier components of 〈B〉 differs, with very high statistical significance, between structural groups, and that this information is not available from a comparable analysis of static amino acid properties.     

Effect of sterol structure on ordered membrane domain (raft) stability in symmetric and asymmetric vesicles

Sterol structure influences liquid ordered domains in membranes, and the dependence of biological functions on sterol structure can help identify processes dependent on ordered domains. In this study we compared the effect of sterol structure on ordered domain formation in symmetric vesicles composed of mixtures of sphingomyelin, 1, 2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) and cholesterol, and in asymmetric vesicles in which sphingomyelin was introduced into the outer leaflet of vesicles composed of DOPC and cholesterol. In most cases, sterol behavior was similar in symmetric and asymmetric vesicles, with ordered domains most strongly stabilized by 7-dehydrocholesterol (7DHC) and cholesterol, stabilized to a moderate degree by lanosterol, epicholesterol and desmosterol, and very little if at all by 4-cholesten-3-one. However, in asymmetric vesicles desmosterol stabilized ordered domain almost as well as cholesterol, and to a much greater degree than epicholesterol, so that the ability to support ordered domains decreased in the order 7-DHC > cholesterol > desmosterol > lanosterol > epicholesterol > 4-cholesten-3-one. This contrasts with values for intermediate stabilizing sterols in symmetric vesicles in which the ranking was cholesterol > lanosterol ~ desmosterol ~ epicholesterol or prior studies in which the ranking was cholesterol ~ epicholesterol > lanosterol ~ desmosterol. The reasons for these differences are discussed. Based on these results, we re-evaluated our prior studies in cells and conclude that endocytosis levels and bacterial uptake are even more closely correlated with the ability of sterols to form ordered domains than previously thought, and do not necessarily require that a sterol have a 3β-OH group.     

Development of PCR-based chloroplast DNA markers that characterize domesticated cowpea (Vigna unguiculata ssp. unguiculata var. unguiculata) and highlight its crop-weed complex

In 1992, Vaillancourt and Weeden discovered a very important mutation for studying cowpea evolution and domestication. A loss of a BamHI restriction site in chloroplast DNA characterized all domesticated accessions and a few wild (Vigna unguiculata ssp. unguiculata var. spontanea) accessions. In order to screen a larger number of accessions, primers were designed to check this mutation using PCR RFLP or direct PCR methods. Using these new primers, 54 domesticated cowpea accessions and 130 accessions from the wild progenitor were screened. The absence of haplotype 0 was confirmed within domesticated accessions, including primitive landraces from cultivar-groups Biflora and Textilis, suggesting that this mutation occurred prior to domestication. However, 40 var. spontanea accessions distributed from Senegal to Tanzania and South Africa showed haplotype 1. Whereas this marker could not be used to identify a precise center of origin, it did highlight the widely distributed cowpea crop-weed complex. Its very high frequency in West Africa could be interpreted as a result of either genetic swamping of the wild/weedy gene pool by the domesticated cowpea gene pool or as the result of domestication by ethnic groups focusing primarily on cowpea as fodder.     

Biological activity of aryl hydrocarbon receptor ligands in sediments from remote European lakes

1. Sediment extracts from 63 European remote lakes were tested for the presence of ligands of the aryl hydrocarbon receptor (AhR), using a yeast-based bioassay. The lakes belong to different European mountain regions in Central Norway, Scotland, Piedmont (Italy), Tyrol (Austria and Italy) and the Julian Alps (Slovenia).
2. AhR ligand activity varied about 40-fold among the examined lakes, with Scotland having the highest proportion of lakes with high AhR ligand activity, whereas samples with low AhR ligand activity predominate in the Julian Alps.
3. AhR ligand activity in sediment samples correlated with the concentration of several environmentally relevant compounds, including polycyclic aromatic hydrocarbons, hexachlorobenzene and several polychlorobiphenyl ether congeners. These correlations suggest an anthropogenic origin for the detected AhR ligands, rather than being generated from natural processes.
4. We conclude that pollutants deposited in remote lakes by atmospheric processes are active AhR ligands at the concentrations found in these lakes. Given the high toxicity associated with ectopic activation of AhR in different animal systems, this activity may represent a significant risk for the exposed fauna.     

Remote European mountain lake ecosystems: regionalisation and ecological status

1. A survey of c. 350 remote high altitude and high latitude lakes from 12 different mountain regions across Europe was undertaken to explore ecosystem variability, climate forcing, environmental conditions and pollution threats at a scale not previously attempted.
2. Lakes were sampled for a range of contemporary and sub-fossil organisms including planktonic crustaceans, rotifers, littoral invertebrates, chironomids, diatoms and cladocerans. Survey and cartographic data were used to determine environmental characteristics at each site. Organic pollutants and trace metal concentrations were measured in the lake sediment.
3. A number of separate studies were undertaken which examined the environmental characteristics of the surveyed lakes (climate forcing and chemical composition), distribution of biota relative to local, regional and biogeographical factors and pollution threats (acidification, heavy metals and persistent organic pollutants) to these sensitive ecosystems.
4. There is a strong regional element to the way that environmental factors combine (including climate and pollution threats) and the biota responds in mountain lakes across Europe. From a management perspective it is clear that lake classification and the development of useful typologies and assessments of reference conditions should be undertaken at regional rather than pan-European scales.
5. There are some common features across lake districts related to the timing of industrialisation, but the studies carried out on metals, organic pollutants and nitrate deposition indicate that each lake district has distinct pollution threats. Climate warming already affects most of the lake districts and there are considerable uncertainties as to how this will modify conditions in remote European mountain systems.
6. The lake district concept goes beyond a geographical construct and merits further theoretical and experimental development as an ecological concept.