On the validity of the genusDactylococcopsis (Cyanophyceae)

Summary The genusDactylococcopsis Hansg. 1888 (Cyanophyceae) is based on the typeD. rupestris, which was later identified as a green algae. Most of the many species described later were also placed to other groups of algae. Several authors even doubted about the existence of the genus. As, however, some species of Cyanophyceae correspond to the original generic diagnosis, the name Dactylococcopsis Hansg. ex R. et F.Chod. 1925 has been proposed as a nomen conservandum, and a new type (D. smithii R. et F.Chod.) has been defined. Further speciesD. linearis Geitl. 1935 and D.Planctonica Teil. 1942 has been unambiguously described till now.     

Indicative value ofPediastrum and other coccal green algae in palaeoecology

Sporopollenin layers in the cell wall of coccal green algae are responsible for the resistance of cell walls to destructive processes during fossilization as well as during chemical preparation of samples for pollen-analysis. Pollen slides of samples from limnic sediments thus also contain some algal cell walls. Although some pollen-analysts tried to stress this fact, the finds of algae in pollen slides have not been paid systematic attention yet, despite their potential use for a more accurate palaeoecological reconstruction. The article summarizes the results of palaeoecological studies showing how the algae can be used in palaeoecological reconstruction of past environments. The possibility of utilizing the indicative value of algal finds is demonstrated on examples of algal communities from fossil, subrecent and recent sediments from different longitudes, latitudes, and altitudes. The identification and indicative values of species and varieties ofPediastrum are included in a special review (Komárek &; Jankovská, Biblioth. Phycol., in press). The contemporary knowledge of ecological requirements of the given taxa, completed by information from their fossil finds, makes possible the reconstruction of trophic and temperature conditions and of the purity of the water environment of the past water biotopes.     

The mechanism of high affinity pentasaccharide binding to antithrombin,insights from Gaussian accelerated molecular dynamics simulations

Abstract

The activity of antithrombin (AT), a serpin protease inhibitor, is enhanced by heparin and heparin analogs against its target proteases, mainly thrombin, factors Xa and IXa. Considerable amount of information is available on the multistep mechanism of the heparin pentasaccharide binding and conformational activation. However, much of the details were inferred from ‘static’ structures obtained by X-ray diffraction. Moreover, limited information is available for the early steps of binding mechanism other than kinetic studies with various ligands. To gain insights into these processes, we performed enhanced sampling molecular dynamics (MD) simulations using the Gaussian Accelerated Molecular Dynamics (GAMD) method, applied previously in drug binding studies. We were able to observe the binding of the pentasaccharide idraparinux to a ‘non-activated’ AT conformation in two separate trajectories with low root mean square deviation (RMSD) values compared to X-ray structures of the bound state. These trajectories along with further simulations of the AT-pentasaccharide complex provided insights into the mechanisms of multiple conformational transitions, including the expulsion of the hinge region, the extension of helix D and the conformational behavior of the reactive center loop (RCL). We could also confirm the high stability of helix P in non-activated AT conformations, such states might play an important role in heparin binding. ‘Generalized correlation’ matrices revealed possible paths of allosteric signal propagation to the binding sites for the target proteases, factors Xa and IXa. Enhanced MD simulations of ligand binding to AT may assist the design of new anticoagulant drugs.

Communicated by Ramaswamy H. Sarma     

A curious occurrence of Hazenia broadyi spec. nova in Antarctica and the review of the genus Hazenia (Ulotrichales, Chlorophyceae)

Freshwater filamentous green algae with branched thalli are almost unknown from the Antarctic region. They have rarely been recorded from maritime Antarctica and from sub-Antarctic Islands with rich phanerogamic vegetation. In the genus Hazenia, only one unidentified species was reported from several subaerial sites on Signy Island in 1979. However, unique populations of this genus were recently found in the stony littoral zone of two stable shallow lakes in the northern deglaciated region of James Ross Island (NE Antarctic Peninsula). These populations have a specialized ecology; they participate in the microvegetation on the flattened surfaces of stones in the littoral zones of lakes. The dominant green filamentous and richly branched alga from these communities was transferred to monospecific culture and studied in detail. Molecular sequence data (18S ribosomal DNA and the internal transcribed spacer) indicate that it belongs to the genus Hazenia (Bold in Am J Bot 45:737–743, 1958). Based on distinct molecular, morphological, and ecological characters, this alga was described as a new species (Hazenia broadyi spec. nova). A review of the genus Hazenia, based on molecular phylogenetic analyses of available strains, was also performed.     

<Emphasis Type="Italic">Gloeocapsopsis aurea</Emphasis>, a new subaerophytic cyanobacterium from maritime Antarctica

The cyanobacterial flora of maritime Antarctica appears to contain many endemic species and only few cosmopolitan or wider-distributed taxa. Several morphospecies that have been erroneously identified in the past following available keys from temperate or tropical zones belong in fact to little-known and poorly described Antarctic cyanobacteria. Here we describe the taxonomy of one such example, the colonial species Gloeocapsopsis aurea . This cyanobacterium produces irregular, packet-like colonies that form black mats, films and crusts. Based on analysis of algal samples from Punta Cierva (Antarctic Peninsula) and King George Island (South Shetland Islands), this taxon is widely distributed in coastal, deglaciated areas of the maritime Antarctic. It is an important, often dominating, ecotype, mostly colonising irrigated rocks but also found in a variety of other aquatic and semi-aquatic habitats under a wide range of conductivities, pH and nutrient regimes.