The lithographic limestones of Cerin (southern Jura Mountains,France). A synthetic approach and environmental interpretation

The lithographic limestones of the Cerin quarry (southern French Jura Mountains), of Late Kimmeridgian age, were famous during the 19th century for their quality and consequently the quarry was intensely exploited. From 1975 to 1994, scientific excavations were carried out in these limestones in order to investigate the depositional environment, the burial of organisms and their taphonomy. A large set of data was collected about various organisms, unusual locomotion tracks, microbial mats and emersion structures. This led to a new interpretation of the environment as a laguna overlying a previously emergent and eroded coral reef. This laguna was episodically connected to the sea by temporary channels, during storms. Lime mud was supplied both from the sea and from the surrounding emergent areas. Most organisms, both marine and terrestrial, were transported, trapped, mixed and buried in the laguna. After death, the preservation of the carcasses was favoured by the presence of microbial mats providing superficial anoxic conditions and protecting them from decaying.     

Occurrence and distribution of culturable enteroviruses in wastewater and surface waters of north‐eastern Spain

Aims: Update information regarding occurrence and levels of culturable enteroviruses in several types of surface polluted waters in north‐eastern Spain and determine the proportion of the different species and serotypes. Methods and Results: The best procedures on hand in our laboratory for concentrating and quantifying culturable enteroviruses from different water sample types were used. Sequencing was used for typing the virus isolates. Geometric means of enteroviruses densities expressed in plaque forming units per litre were 968 in raw sewage, 12·51 in secondary effluents, 0·017 in tertiary effluents, 0·4 in river water and 0·36 in seawater. Enterovirus densities in wastewater revealed certain seasonality with a maximum at the end of spring – beginning of the summer. Coxsackievirus B, and amid them serotype CB4, were the most abundant species and serotypes detected. Conclusions: Densities of enteroviruses in different north‐eastern Spain surface waters are similar to those present in industrialized countries with temperate climate. No wild polioviruses were detected. Distribution of species showed a clear prevalence of coxsackieviruses. Significance and Impact of the Study: Information regarding enteroviruses in this geographical area provides valuable information to estimate the risk of enteroviruses transmission through water and for complementing clinical epidemiological data.     

The distribution of macroinvertebrate assemblages in a reach of the River Allier (France), in relation to riverbed characteristics

Investigations on large canalised rivers, for example the Danube, have shown that transported particulate matter, which is typically inorganic, is predominantly deposited in waters near the river’s main channel. This investigation deals with the lower section of the River Havel (NE Germany), a canalised lowland river with a very flat floodplain. This river is highly polluted by nutrients from urban areas (Berlin) and a long chain of river lakes produces high concentrations of phytoplankton. Due to the high proportion of planktogenic detritus, it was hypothesised that greater quantities of nutrient-rich fine particulate organic matter (FPOM) would be deposited in floodplain waters located further from the main channel than has been reported for large rivers. The total nutrient, P-binding metal (Fe, Al, and Mn), organic and inorganic carbon (TOC, TIC) contents of the upper organic sediment layer (0–4 cm) were analysed in samples collected from 48 floodplain water and river sites. The sediment bulk density, calculated on the basis of dry mass content and loss on ignition, was used to characterise the waters according to the impact of the river current. The results showed that the variability of total phosphorus (TP) was best explained by the variability of total iron (TFe, R² = 0.52). The floodplain water sediments could clearly be separated into two groups on the basis of the sediment particle size composition, and of the element ratios TOC:TP, TN:TP, primarily TFe:TP. The sediments from impounded river sections and from mouth sections of backwaters (approx. 100–200 m) were characterised by a high proportion particles from the 0.1 to 0.5 mm size fraction and by homogeneous, low TFe:TP, TOC:TP and TN:TP ratios. Sediments from distal sections of backwaters and of oxbow lakes tended to exhibit high element ratios with much higher variability. These results were interpreted as a spatially limited impact of the river on the floodplain water sediments. Contrary to expectation, the phosphorus bound in river seston was predominantly and very homogeneously deposited in the impounded river and mouth sections of backwaters. This implies that the inundation of the floodplain waters during spring floods seems to have no important material impact on the sediments in waters of low hydrological connectivity with the River Havel.     

Climatic envelope of evergreen sclerophyllous oaks and their present distribution in the eastern Himalaya and Hengduan Mountains

Evergreen sclerophyllous oaks (the E.S. oaks, Quercus section Heterobalanus) are the dominant species of the local ecosystem in the eastern Himalaya and the Hengduan Mountains, southwest China. In this study, we document the climatic envelope of the seven E.S. oak species and examine the relationships between climate and their distribution. This was done using a principal components analysis (PCA) and multiple regression analysis (MRA) of nine climatic indices. The main climatic envelope of the E.S. oaks were: mean temperature of the warmest month (MTW)=12.0-19.5 ℃, warmth index (WI) = 33.2-88.9 ℃ month, annual biotemperature (BT)=-6.9- -0.3 ℃, coldness index (CI)=-30.4- -10.1 ℃ month, mean temperature of the coldest month (MTC)=-3.7-3.0 ℃ and annual precipitation (AP)=701-897 mm at the lower limits; and MTW=8.3-16.1 ℃, WI=15.7-59.1 ℃ month, BT=3.6-8.9 ℃, CI=-55.4--19.3 ℃ month, MTC=8.3-16.1 ℃ and AP=610-811 mm at the upper limits. The climatic range of the E.S. oaks is wide and includes two climatic zones, the cool-temperature zone and the subpolar zone. The PCA and MRA results suggest that the thermal climate plays a major role and precipitation plays a secondary role in controlling the large-scale distribution of the E.S. oaks, except Quercus monimotricha. In thermal regimes, BT and/or MTW are most important for both lower and upper limits of the E.S. oaks. Furthermore, our results indicate that the upper distribution limits of the E.S. oaks are less determined by low temperatures and their duration (CI) than by other factors.     

Nest site choice by the three-spined stickleback, Gasterosteus aculeatus (form leiurus), in spring-fed waters

The nest site characteristics of the freshwater three-spined stickleback, Gasterosteus aculeatus (form leiurus ), were quantitatively investigated in springs and the main stream of the Yamayoke and the Tsuya River system, central Japan. Most nests (93·4%) were on a muddy or sandy substratum, at depths of 10–40 cm (84·3%), in water velocities less than 15 cm s⁻¹ (76·2%) and in the temperature range of 14 to 16° C (82·7%), Spring-fed localities provided more of these conditions than the main stream channel and hence contained more potential nesting areas. Thus, they were utilized by male sticklebacks both temporally (prolonged breeding season) and spatially (more nest sites).     

The macroinvertebrate communities of streams draining a small granitic catchment exposed to acidic precipitations (Vosges Mountains,northeastern France)

The physico-chemical characteristics and the macroinvertebrate communities of six streams draining a small granitic catchment located in the Vosges mountains (northeastern France) have been studied. Among the streams, five were affected by acidification and characterised by low pH (mean pH: 4.90 to 5.90), low HCO _inf3 ^sup– concentrations (mean concentration: 0–16 µeq l^–1) and elevated aluminium concentrations (mean concentration: 154–278 µg l^–1). Only one stream was typical of waters draining granitic bedrock (mean pH: 6.90; mean aluminium concentration: 79 µg 1^–1; mean HCO _inf3 ^sup– concentration: 152 µeq l^–1).The macroinvertebrates communities of the acidified streams were strongly affected compared to the non-acidified one. Richness, abundance and diversity (Shannon index) were significantly lower when acidification occurred. All the major taxonomic groups were affected, but Molluscs and Ephemeroptera were the most acid-sensitive or organisms, whereas Plecoptera and Oligochaetes were dominant. However, recolonization of acidified streams was possible during summer low flow when the global water quality slightly increased.

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Résumé Les caractéristiques physico-chimiques et les peuplements de macroinvertébrés benthiques de six ruisseaux drainant un bassin versant granitique du massif vosgien ont été étudiés. Parmi les cours d'eau, cinq sont caractérisés par des faibles valeurs moyennes de pH (4.90 à 5.90), et d'alcalinité (HCO _inf3 ^sup– : 0–16 µeq l^–1) et par des concentrations moyennes en aluminium élevées (154–278 µg l^–1) Seul un ruisseau apparaît typique du massif (pH: 6.90; aluminium: 79 g l^–1 et HCO _inf3 ^sup– : 152 µeq l^–1).Les peuplements de macroinvertébrés des ruisseaux acidifiés sont sévèrement affectés. La richesse, l'abondance et la diversité (indice de Shannon) sont alors significativement plus faibles que dans le cours d'eau non acidifié. Tous les groupes faunistiques majeurs sont touchés, mais les Mollusques et les Ephémèroptères sont les organismes les plus sensibles à l'acidification, tandis que les Plécoptères et les Oligochètes sont dominants. Toutefois, il a été mis en évidence une recolonisation possible des rivières acidifiées par certaines espèces, durant la période d'étiage estivale quand la qualité de l'eau s'améliore.

     

Fine scale genetic population structure of the freshwater and Omono types of nine-spined stickleback Pungitius pungitius (L.) within the Omono River system, Japan

The fine scale geographic population structure of two types of nine-spined stickleback Pungitius pungitius (the widely distributed freshwater type and a local endemic, the Omono type) within the Omono River system, Japan, was investigated. A principal components analysis of allele frequencies and neighbour-joining tree for pair-wise F _ST values, based on 10 allozyme loci, revealed that the Omono type was comprised of four regional groups with relatively high genetic divergence. This grouping was also supported by hierarchical analysis of molecular variance (AMOVA) with a higher variance component among the regional groups, and by an exact test with significant genotypic differentiation for all sample pairs among the regional groups. Moreover, in the clustering of individuals using the Bayesian method, most of individuals in each regional group were assigned the corresponding cluster. On the other hand, there were less pronounced regional groups of the freshwater type, although AMOVA, exact test for genotypic differentiation and Bayesian analysis indicated genetic divergence between two sampling sites in lower reach of the Omono River and other sites. The results suggest that the Omono type represented an earlier colonization, with subsequent invasion of the freshwater type.     

Molecular evidence for Pleistocene refugia at the eastern edge of the Tibetan Plateau

The role of the Quaternary ice ages in forming the contemporary genetic structure of populations has been well studied in a number of global regions. However, due to the different nature of glaciations and complex topography, their role in shaping eastern Eurasian genetic diversity, particular in areas surrounding the Tibetan Plateau have remained largely unstudied. We aimed to address this question by examining the genetic structure of an alpine forest-associated taxon, the blood pheasant (Ithaginis cruentus) to infer its phylogeographic history. We detected three phylogenetic lineages and four current population groups. By comparing molecular and palaeovegetation data, we found that major glaciations during the Pleistocene have had a major impact upon the current genetic diversity of this species. Coalescent simulations indicate that the populations retreated to different refugia during some glacial periods in the Pleistocene, but persisted through the last glacial maximum (LGM). The most significant recent population expansion was found to have occurred before the LGM, during which palaeoclimatic data indicate that the climate was both warmer and wetter than today. In contrast, during the LGM populations may have adopted an altitudinal shift strategy in order to track changes in alpine glaciers, exemplifying a general response for montane species in the region where alpine glaciations were not large enough to cause qualitative changes in vegetation. Although analysis based on a plumage related gene showed that divergent selection may have contributed to current patterns of intra-specific diversity, demographic isolation is inferred to have played a more dominant role.     

The use of ground beetles (Coleoptera: Carabidae) in conservation assessments of exposed riverine sediment habitats in Scotland and northern England

Exposed riverine sediments (ERS) are an important invertebrate habitat. Ground beetle data from pitfall trap surveys of 165 sites in the catchments of the Rivers Carron, Nith, Spey, Tweed and Eden and from 48 sites in the catchments of the Rivers Blyth, Breamish, Coquet, Glen, Pont, South Tyne, Till, Tweed and Tyne were used to produce ERS habitat classifications in Scotland and northern England respectively. Within each habitat type the quality of sites were assessed using indices based on rarity and fidelity values and using species richness as a measure of diversity. Considerable variation in these indices was seen within and between habitat types, showing potential for their use in assessing site quality and for ranking sites within habitats. The use of standardised invertebrate survey and distribution data, together with species assemblage information, for the conservation of invertebrate habitat types as an alternative to the use of selected indicator species, is discussed.     

Species and hybrid richness in spined loaches of the genus Cobitis (Teleostei: Cobitidae), with a checklist of European forms and suggestions for conservation

Until recently, one widespread species of the genus Cobitis was thought to be present in Europe, the common spined loach Cobitis taenia . Recent studies have shown that the diversity of spined loaches is considerably higher due to (1) presence of several species as well as C. taenia and (2) presence of hybrid biotypes, living together with species. Here knowledge about distribution and diversity of spined loaches in Europe is summarized by combining original with published data. In Southern Europe, a number of distinct species occur allopatrically, while in Central and Eastern Europe a few species have wide distribution areas. Hybrid biotypes were found exclusively in Central and Eastern Europe. They were not restricted to the contact areas between the parental species, but occur in almost the entire area. In total, 15 hybrid biotypes with different genomic compositions were recorded. In the most diverse complex, four hybrid biotypes were associated with one species. In general, a syntopic occurrence of different species of Cobitis can be considered as exceptional, while the association of species with hybrid biotypes is the rule in Central and Eastern Europe. The composition of complexes seems to be most strongly influenced by the kind of associated species and by local history. Implications for conservation are (1) not to disturb the natural patterns of diversity, (2) to consider the known richness in legislation, and (3) to consider the evolutionary significance of hybrid biotypes.     

Effects of particle size distribution,compositional and color properties of ground corn on quality of distillers dried grains with solubles (DDGS)

Oftentimes, corn processors believe that ground corn (raw material) and distillers dried grains with solubles (DDGS) are interrelated in certain quality parameters. Yet, previous studies, although rather limited, have not established this relationship. In this study, six ground corn samples and their resulting DDGS were analyzed for particle size distribution (PSD), using a series of six selected US standard sieves: Nos. 8, 12, 18, 35, 60, and 100, and a pan. The original sample and sieve sized fractions were measured for contents of moisture, protein, oil, ash and starch, and surface color. Total carbohydrate (CHO) and total non-starch CHO were also calculated. Results show that the geometric mean diameter (d_gw) of particles varied with individual corn and DDGS samples, and that d_gw of DDGS was larger than that of corn (0.696 vs. 0.479 mm, average values), indicating that during conversion of corn to DDGS, certain particles became enlarged. For d_gw and mass frequency of individual particle size classes, the relationship between ground corn and DDGS varied, but PSD of the whole sample was well correlated between them (r = 0.807). Upon conversion from corn to DDGS, on an average, protein was concentrated 3.59 times; oil, 3.40 times; ash, 3.32 times; and total non-starch CHO, 2.89 times. There were some positive correlations in contents of protein and non-starch CHO and in L value between corn and DDGS. Yet, variations in nutrients and color attributes were larger in DDGS than in corn. For either corn or DDGS, these variations were larger in sieved fractions than in the whole fraction. Raw material, processing method and addition of yeasts are among major factors considered for causing larger variations in these attributes among DDGS. The study partially supports the common belief by processors that quality attributes of corn affect those of DDGS.     

Effect of sediment type on microphytobenthos vertical distribution: Modelling the productive biomass and improving ground truth measurements

Intertidal flats are frequently colonised by microphytobenthos (MPB) assemblages that form transient biofilms at the sediment surface which are responsible for large fractions of estuarine primary production. The large spatio-temporal variability in MPB biomass distribution in concert with the fact that tidal flats can cover many km² makes the use of remote sensing particularly useful in assessing MPB distribution. Water content, sediment type and MPB vertical migration are variables that affect the relationship between ground truth measurements and remote sensing of benthic chlorophyll. The effect of chlorophyll depth distribution (top 2 mm) on the relationship between benthic chlorophyll and several remote sensing indices (NDVI, PI, R562/R647, derivative indices and PAM fluorescence) was investigated over a 2 year sampling period at 6 sites (Tagus estuary, Portugal). Additionally, the effect of the dark adaptation time required to measure the minimum fluorescence parameter (F₀) was also tested. Sediment type strongly affected MPB depth distribution with muddy sites showing a strong negative exponential decay in chlorophyll with distance from the surface while sandy sites had a homogenous distribution over the same scale (2 mm). Chlorophyll content (mass per unit mass, μg g^− 1) in the top 2 mm was better correlated with remote sensing indices than concentration (mass per unit volume, mg m^− 3), both for NDVI (0.72 vs. 0.45) and for PAM fluorescence (0.70 vs. 0.55). Separating the data by transect increased the correlation values in all situations. A fitted model of chlorophyll depth distribution showed that the effect of asymmetrical chlorophyll depth distribution was stronger on the correlations between chlorophyll concentration and NDVI than on chlorophyll content and NDVI (0.46-2 mm vs. 0.74-125 μm, muddy site) the same was valid for fluorescence (0.66-2 mm vs. 0.92-125 μm, muddy site). Dark adapting the samples for more than 5 min did not result in any significant difference in the relationship between F₀ and chlorophyll a. The residuals from the regression of chlorophyll content on NDVI were positively correlated (0.7) with the mass per unit of mass of sediment < 63 μm and negatively (− 0.6) with chlorophyll concentration, this indicates that if no correction is performed to account for chlorophyll depth distribution both units will be strongly affected by the mass of < 63 μm particles. The results demonstrate that although expressing chlorophyll a as concentration is generally a better option for ground truth measurements care should be taken to account for chlorophyll depth distribution since strong asymmetries within the sampling depth can introduce large errors.     

Phototrophic sulfur bacteria and sulfate-reducing bacteria causing red waters in a shallow brackish coastal lagoon (Prévost Lagoon, France)

Abstract In the shallow lagoon of Prévost (43°30'N, 3°54'E; French Mediterranean coast), red waters occurring periodically during warm summers are a consequence of a succession of ecological events beginning in the early spring with a bloom of algae ( Ulva lactuca ). In summer 1977, a red water was analyzed; in the early summer, the water turned anoxic and became rich in sulfide which originated from sulfate reduction in the first 10 cm of the sediment. Numbers of both phototrophic and sulfate-reducing bacteria (SRB) increased during spring and summer, and the genera in the prevailing populations did not change: Thiocapsa (80%) among the phototrophic bacteria and Desulfovibrio and Desulfobacter among the SRB. They were also dominant during the period of red waters. A few Chromatium and Thiocystis species were also identified. During red water periods, these bacteria grew very actively, removing all the sulfide produced by SRB, and accumulated in the whole water column. Consequently, the sulfate level increased to 5 mmol·1⁻¹ higher than the theoretical sulfate level calculated from salinity, showing the active oxidation of sulfide by phototrophic bacteria. After the dystrophic crisis, oxic conditions were reestablished and the phototrophic bacterial biomass was partly grazed by zoobenthos organisms which densely populated the sediment surface.     

Reappraisal and range extension of non-indigenous Mysidae (Crustacea, Mysida) in continental and coastal waters of eastern France

A survey of species belonging to the family Mysidae, conducted in June 2007 in fresh- to brackish waters of eastern France, revealed a recent range extension of the invasive Ponto-Caspian species Hemimysis anomala to the Moselle, Saône, and Rhône rivers. In the estuary of the Grand Rhône it reached for the first time the Mediterranean coast. The network of navigation canals in NE France was likely a key element of its north to south pathway starting from the Rhine River. Important range extensions were also noted for Limnomysis benedeni in this network and in the Moselle River. The euryhaline species Neomysis integer, endemic in coastal waters of the NE Atlantic, was found in the Rhône delta, thus confirming previous very rare records in the 1930–1950s from the Mediterranean coast of France. Invasion mechanisms and pathways, expansion potential, and establishment conditions of the species are discussed.