A new cell primo-culture method for freshwater benthic diatom communities

A new cell primo-culture method was developed for the benthic diatom community isolated from biofilm sampled in rivers. The approach comprised three steps: (1) scraping biofilm from river pebbles, (2) diatom isolation from biofilm, and (3) diatom community culture. With a view to designing a method able to stimulate the growth of diatoms, to limit the development of other microorganisms, and to maintain in culture a community similar to the original natural one, different factors were tested in step 3: cell culture medium (Chu No 10 vs Freshwater “WC” medium modified), cell culture vessel, and time of culture. The results showed that using Chu No 10 medium in an Erlenmeyer flask for cell culture was the optimal method, producing enough biomass for ecotoxicological tests as well as minimising development of other microorganisms. After 96 h of culture, communities differed from the original communities sampled in the two rivers studied. Species tolerant of eutrophic or saprobic conditions were favoured during culture. This method of diatom community culture affords the opportunity to assess, in vitro, the effects of different chemicals or effluents (water samples andindustrial effluents) on diatom communities, as well as on diatom cells, from a wide range of perspectives

Long range intermolecular forces in triatomic systems: connecting the atom-diatom and atom-atom-atom representations

The long-range forces that act between three atoms are analysed in both atom-diatom and atom-atom-atom representations. Expressions for atom-diatom dispersion coefficients are obtained in terms of 3-body nonadditive coefficients. The anisotropy of atom-diatom C_6 dispersion coefficients arises primarily from nonadditive triple-dipole and quadruple-dipole forces, while pairwise-additive forces and nonadditive triple-dipole and dipole-dipole-quadrupole forces contribute significantly to atom-diatom C_8 coefficients. The resulting expressions are applied to dispersion coefficients for Li + Li_2 (triplet) and recommendations are made for the best way to obtain global triatomic potentials that dissociate correctly both to three separated atoms and to an atom and a diatomic molecule.Comment: To be published in a special issue of Molecular Physics in honour of Mark Chil

Associated bacteria affect sexual reproduction by altering gene expression and metabolic processes in a biofilm inhabiting diatom

Diatoms are unicellular algae with a fundamental role in global biogeochemical cycles as major primary producers at the base of aquatic food webs. In recent years, chemical communication between diatoms and associated bacteria has emerged as a key factor in diatom ecology, spurred by conceptual and technological advancements to study the mechanisms underlying these interactions. Here, we use a combination of physiological, transcriptomic, and metabolomic approaches to study the influence of naturally coexisting bacteria, Maribacter sp. and Roseovarius sp., on the sexual reproduction of the biofilm inhabiting marine pennate diatom Seminavis robusta. While Maribacter sp. severely reduces the reproductive success of S. robusta cultures, Roseovarius sp. slightly enhances it. Contrary to our expectation, we demonstrate that the effect of the bacterial exudates is not caused by altered cell-cycle regulation prior to the switch to meiosis. Instead, Maribacter sp. exudates cause a reduced production of diproline, the sexual attraction pheromone of S. robusta. Transcriptomic analyses show that this is likely an indirect consequence of altered intracellular metabolic fluxes in the diatom, especially those related to amino acid biosynthesis, oxidative stress response, and biosynthesis of defense molecules. This study provides the first insights into the influence of bacteria on diatom sexual reproduction and adds a new dimension to the complexity of a still understudied phenomenon in natural diatom populations

DILSTORE software for ecological status assessment of lakes based on benthic diatoms

Until recently, only few diatom indices were developed for monitoring littoral zones of lakes. The available indices are not applicable for all lake types because species lists and environmental constraints’ ranges are different. So far, four diatom indices (SCIL, TDIL, S, TI) were developed that use attached diatoms for ecological status assessment therefore a need arose to ease index calculation similarly as it is a wide spread practice in status assessment of rivers by means of the well known OMNIDIA software. DILSTORE 1.1 software has three main functions; (i) calculation of diatom indices and community attributes; (ii) storage and listing of primary diatom data series and (iii) it contains a taxon name coder and a spelling-check program. It can be used as a peripheral aid to generate data sheets for the OMNIDIA. The DILSTORE 1.1 software was developed for IBM PC compatible computers, for Windows users. According to the experiences, the DILSTORE 1.1 software can make the regular lake monitoring practice considerably faster

Diatoms as a paleoproductivity proxy in the NW Iberian coastal upwelling system (NE Atlantic)

The objective of the current work is to improve our understanding of how water column diatom's abundance and assemblage composition is seasonally transferred from the photic zone to seafloor sediments. To address this, we used a dataset derived from water column, sediment trap and surface sediment samples recovered in the NW Iberian coastal upwelling system. Diatom fluxes (2.2 (+/- 5.6) 10(6) valves m(-2) d(-1)) represented the majority of the siliceous microorganisms sinking out from the photic zone during all studied years and showed seasonal variability. Contrasting results between water column and sediment trap diatom abundances were found during downwelling periods, as shown by the unexpectedly high diatom export signals when diatom- derived primary production achieved their minimum levels. They were principally related to surface sediment remobilization and intense Minho and Douro river discharge that constitute an additional source of particulate matter to the inner continental shelf. In fact, contributions of allochthonous particles to the sinking material were confirmed by the significant increase of both benthic and freshwater diatoms in the sediment trap assemblage. In contrast, we found that most of the living diatom species blooming during highly productive upwelling periods were dissolved during sinking, and only those resistant to dissolution and the Chaetoceros and Leptocylindrus spp. resting spores were susceptible to being exported and buried. Fur-thermore, Chaetoceros spp. dominate during spring-early summer, when persistent northerly winds lead to the upwelling of nutrient-rich waters on the shelf, while Leptocylindrus spp. appear associated with late-summer upwelling relaxation, characterized by water column stratification and nutrient depletion. These findings evidence that the contributions of these diatom genera to the sediment's total marine diatom assemblage should allow for the reconstruction of different past upwelling regimes.CAIBEX [CTM2007-66408-C02-01/MAR]; REIMAGE [CTM2011-30155-C03-03]; Spanish Government, EXCAPA project [10MDS402013PR]; Xunta de Galicia; EU FEDER [INTERREG 2009/2011-0313/RAIA/E]; RAIA. co [INTERREG2011/2013-052/RAIA.co/1E]; CALIBERIA project [PTDC/MAR/102045/2008]; Fundacao para a Ciencia e a Tecnologia (FCT-Portugal) [COMPETE/FEDER-FCOMP01-0124-FEDER-010599]; Xunta de Galicia (Spain) [SFRH/BPD/111433/2015]; FCT (Portugal) [SFRH/BPD/111433/2015]; [SFRH/BD/88439/2012

Parasitic chytrids could promote copepod survival by mediating material transfer from inedible diatoms

Diatoms form large spring blooms in lakes and oceans, providing fuel for higher trophic levels at the start of the growing season. Some of the diatom blooms, however, are not grazed by filter-feeding zooplankton like Daphnia due to their large size. Several of these large diatoms are susceptible to chytrid infections. Zoospores of chytrids appeared to be excellent food for Daphnia, both in terms of size, shape, and quality (PUFAs and cholesterol). Thus, zoospores of chytrids can bridge the gap between inedible diatoms and Daphnia. In order to examine the effects of diatoms and chytrids on the survival of copepods, we performed one grazing and one survival experiment. The grazing experiment revealed that the diatom, Asterionella formosa, was not grazed by the copepod, Eudiaptomus gracilis, even after being infected by the chytrid Zygorhizidium planktonicum. However, carbon and nitrogen concentrations were significantly reduced by E. gracilis only when A. formosa was infected by Z. planktonicum, indicating that the chytrids might facilitate material transfer from inedible diatoms to the copepods. The survival experiment revealed that E. gracilis lived shorter with A. formosa than with the cryptophyta Cryptomonas pyrenoidifera. However, the survival of E. gracilis increased significantly in the treatment where A. formosa cells were infected by Z. planktonicum. Since E. gracilis could not graze A. formosa cells due to their large colonial forms, E. gracilis may acquire nutrients by grazing on the zoospores, and were so able to survive in the presence of the A. formosa. This provides new insights into the role of parasitic fungi in aquatic food webs, where chytrids may improve copepod survival during diatom blooms.

Entanglement-Assisted Coherent Control in Nonreactive Diatom-Diatom Scattering

Intriguing quantum effects that result from entangled molecular rovibrational states are shown to provide a novel means for controlling both differential and total collision cross sections in identical particle diatom-diatom scattering. Computational results on elastic and inelastic scattering of para--H$_2$ and para--H$_2$ are presented, with the collision energy ranging from 400 cm$^{-1}$ to the ultracold regime. The experimental realization and possible extension to other systems are discussed.Comment: 15 pages, 5 figures, to appear in Journal of Chemical Physic

Microphytobenthic extracellular polymeric substances (EPS) in intertidal sediments fuel both generalist and specialist EPS-degrading bacteria

Microphytobenthic biofilms contain high concentrations of carbohydrate-rich extracellular polymeric substances (EPS) that are important in sediment carbon cycling. Field measurements at two locations in the Colne Estuary, U.K., showed that a significant curvilinear relationship explained 50% of the variability in chlorophyll a and EPS content. Estimates of EPS production, based on field data and published rates of production by diatoms, revealed that EPS turnover of 52% to 369% over the tidal cycle was required to account for field standing stocks. We investigated EPS degradation in sediment slurries using purified 13C-EPS produced by the diatom Nitzschia tubicola. Although EPS constituted only 5% of the sediment dissolved organic carbon (DOC) pool, 100% of the added EPS was utilized within 30 h, before decreases in other sediment-carbohydrate fractions and DOC concentrations. A general 13C enrichment of phospholipid fatty acids (PLFAs), representative of Gram-positive and Gram-negative bacteria, occurred within 6 h, with the PLFAs a15:0, i15:0, and 18:1?7c being highly enriched. The diatom PLFA 20:5?3 had relatively low but significant 13C enrichment. Stable isotope probing of 16S ribosomal ribonucleic acid (RNA-SIP) at 30 h revealed 13C-enriched sequences from the diatom genus Navicula; further evidence that diatoms assimilated the EPS, or EPS-breakdown products, from other diatom taxa. RNA-SIP also demonstrated a diverse range of highly 13C-enriched bacterial taxa, including a distinct subset (Alphaproteobacteria and Gammaproteobacteria) found only in the heavily labeled microbial assemblages. Thus, cycling of diatom EPS is rapid, and involves a wide range of microbial taxa, including some apparent specialists

Half a century of research on diatoms in athalassic habitats in central Poland

The authors would like to dedicate this paper to Prof. Marcin Pliński who started the phycological research in these unique habitats of Central Poland.Part of the geology in the Łódź province was formed during the Upper Permian period when rich Zechstein salt was deposited. Groundwater drains the deposits and flows out in the village of Pełczyska, creating a unique hydrogeological site in Central Poland. An inland, athalassic ecosystem can be a reference site for halophile microflora. The outflow with surrounding marshes has been an algological research site since 1964. The research reveals changes recorded in diatom assemblages from athalassic habitats, characterized by a wide range of salinity levels, and verifies the tolerance of taxa to salinity. The comparative analysis was based on the diatom material sampled in 1964-1965, 1992-1994 and on recently collected samples. The analysis revealed the temporal change in assemblages caused by a change in the chloride concentration, and the spatial change from one to another habitat type, characterized by varying salinity levels. The halophilic species in the studied habitats included e.g. Halamphora dominici, H. tenerrima, Navicula digitoconvergens, N. meulemansii, Staurophora salina. The analysis of changes allowed the verification of the species’ requirements and tolerance range to the salinity factor. Therefore, in the case of Fragilaria famelica and Halamphora sydowii, we propose a change in the halobion system classification

The use of diatom records to establish reference conditions for UK lakes subject to eutrophication

A knowledge of pre-disturbance conditions is important for setting realistic restoration targets for lakes. For European waters this is now a requirement of the European Council Water Framework Directive where ecological status must be assessed based on the degree to which present day conditions deviate from reference conditions. Here, we employ palaeolimnological techniques, principally inferences of total phosphorus from diatom assemblages (DI-TP) and classification of diatom composition data from the time slice in sediment cores dated to similar to 1850 AD, to define chemical and ecological reference conditions, respectively, for a range of UK lake types. The DI-TP results from 169 sites indicate that reference TP values for low alkalinity lakes are typically 3 m mean depth) generally had lower reference TP concentrations than the shallow sites. A small group of shallow marl lakes had concentrations of similar to 30 mu g L-1. Cluster analysis of diatom composition data from 106 lakes where the key pressure of interest was eutrophication identified three clusters, each associated with particular lake types, suggesting that the typology has ecological relevance, although poor cross matching of the diatom groups and the lake typology at type boundaries highlights the value of a site-specific approach to defining reference conditions. Finally the floristic difference between the reference and present day (surface sample) diatom assemblages of each site was estimated using the squared chord distance dissimilarity coefficient. Only 25 of the 106 lakes experienced insignificant change and the findings indicate that eutrophication has impacted all lake types with > 50% of sites exhibiting significant floristic change. The study illustrates the role of the sediment record in determining both chemical and ecological reference conditions, and assessing deviation from the latter. Whilst restoration targets may require modification in the future to account for climate induced alterations, the long temporal perspective offered by palaeolimnology ensures that such changes are assessed against a sound baseline