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This paper evaluates trills [r] and their palatalized counterparts [rj] from the point of view of markedness. It is argued that [r]s are unmarked sounds in comparison to [rj]s which follows from the examination of the following parameters: (a) frequency of occurrence, (b) articulatory and aerodynamic characteristics, (c) perceptual features, (d) emergence in the process of language acquisition, (e) stability from a diachronic point of view, (f) phonotactic distribution, and (g) implications. Several markedness aspects of [r]s and [rj] are analyzed on the basis of Slavic languages which offer excellent material for the evaluation of trills. Their phonetic characteristics incorporated into phonetically grounded constraints are employed for a phonological OT-analysis of r-palatalization in two selected languages: Polish and Czech.
Structural and functional characterization of the dimerization region of soluble guanylyl cyclase
(2004)
Soluble guanylyl cyclase (sGC) is a ubiquitous enzyme that functions as a receptor for nitric oxide. Despite the obligate heterodimeric nature of sGC, the sequence segments mediating subunit association have remained elusive. Our initial screening for relevant interaction site(s) in the most common sGC isoenzyme, α1 β1, identified two regions in each subunit, i.e. the regulatory domains and the central regions, contributing to heterodimer formation. To map the relevant segments in the β1 subunit precisely, we constructed multiple N- and C-terminal deletion variants and cotransfected them with full-length α1 in COS cells. Immunoprecipitation revealed that a sequence segment spanning positions 204–408 mediates binding of β1 to α1 The same region of β1[204–408] was found to promote β /β1 homodimerization. Fusion of [204 β1–408] to enhanced green fluorescent protein conferred binding activity to the recipient protein. Coexpression of β1[204–408] with α1 or β1 targeted the sGC subunits for proteasomal degradation, suggesting that β1[204–408] forms structurally deficient complexes with α1 and β1. Analysis of deletion constructs lacking portions of the β1 dimerization region identified two distinct segments contributing to α1 binding, i.e. an N-terminal site covering positions 204–244 and a C-terminal site at 379–408. Both sites are crucial for sGC function because deletion of either site rendered sGC dimerization-deficient and thus functionally inactive. We conclude that the dimerization region of β1 extends over 205 residues of its regulatory and central domains and that two discontinuous sites of 41 and 30 residues, respectively, facilitate binding of β1 to the α1 subunit of sGC.
Chemically modified bases are frequently used to stabilize nucleic acids, to study the driving forces for nucleic acid structure formation and to tune DNA and RNA hybridization conditions. In particular, fluorobenzene and fluorobenzimidazole base analogues can act as universal bases able to pair with any natural base and to stabilize RNA duplex formation. Although these base analogues are compatible with an A-form RNA geometry, little is known about the influence on the fine structure and conformational dynamics of RNA. In the present study, nano-second molecular dynamics (MD) simulations have been performed to characterize the dynamics of RNA duplexes containing a central 1'-deoxy-1'-(2,4-difluorophenyl)-ß-D-ribofuranose base pair or opposite to an adenine base. For comparison, RNA with a central uridine:adenine pair and a 1'-deoxy-1'-(phenyl)-ß-D-ribofuranose opposite to an adenine was also investigated. The MD simulations indicate a stable overall A-form geometry for the RNAs with base analogues. However, the presence of the base analogues caused a locally enhanced mobility of the central bases inducing mainly base pair shear and opening motions. No stable ‘base-paired’ geometry was found for the base analogue pair or the base analogue:adenine pairs, which explains in part the universal base character of these analogues. Instead, the conformational fluctuations of the base analogues lead to an enhanced accessibility of the bases in the major and minor grooves of the helix compared with a regular base pair.
With this study, the fauna of Hispaniolan Phyllophaga is now composed of 48 species, all of which are endemic (precinctive), including 22 new species described herein (4 attributed to Woodruff and Sanderson: approxima, bonfils, jimenezi, rex; 18 to Woodruff: aceitillar, alcoa, androw, baoruco, carnegie, davidsoni, eladio, haitiensis, jaragua, larimar, marcano, nunezi, ortizi, pedernales, rawlinsi, rustica, santachloe, toni). Additionally, allotypes are described for 7 species with previously unknown males (aliada, canoa) or females (esquinada, fossoria, imprima, kenscoffi, panicula), and 6 new country records (Dominican Republic) are provided (aliada, leptospica, minutissima, panicula, permagna, recorta). Of the 48, only 1 male remains unknown (barrosa), and 9 females are missing (aceitillar, carnegie, costura, davidsoni, espina, garrota, probaporra, rustica, toni); 32 are recorded only from the Dominican Republic, and 5 are known only from Haiti. The 727 Figures include 50 habitus illustrations for all species, as well as SEM photos of male and female genitalia, and other salient morphological characters. The discovery of “sister species”, on opposite sides of the Enriquillo basin, provides significant data to support the 2 island concept; 15 species are known only from the paleo “south island”, and 23 are restricted to the “north island”.
The cloud forest amphibians and reptiles constitute the most important herpetofaunal segment in Honduras, due to the prevalence of endemic and Nuclear Middle American-restricted species. This segment, however, is subject to severe environmental threats due to the actions of humans. Of the 334 species of amphibians and reptiles currently known from Honduras, 122 are known to be distributed in cloud forest habitats. Cloud forest habitats are found throughout the mountainous interior of Honduras. They are subject to a Highland Wet climate, which features annual precipitation of >1500 mm and a mean annual temperature of <18°C. Cloud forest vegetation falls into two Holdridge formations, the Lower Montane Wet Forest and Lower Montane Moist Forest. The Lower Montane Wet Forest formation generally occurs at elevations in excess of 1500 m, although it may occur as low as 1300+ m at some localities. The Lower Montane Moist Forest formation generally occurs at 1700+ m elevation. Of the 122 cloud forest species, 18 are salamanders, 38 are anurans, 27 are lizards, and 39 are snakes. Ninety-eight of these 122 species are distributed in the Lower Montane Wet Forest formation and 45 in the Lower Montane Moist Forest formation. Twenty species are distributed in both formations. The cloud forest species are distributed among restricted, widespread, and peripheral distributional categories. The restricted species range as a group in elevation from 1340 to 2700 m, the species that are widespread in at least one of the two cloud forest formations range as a group from sea level to 2744 m, and the peripheral species range as a group from sea level to 1980 m. The 122 cloud forest species exemplify ten broad distributional patterns ranging from species whose northern and southern range termini are in the United States (or Canada) and South America, respectively, to those species that are endemic to Honduras. The largest segment of the herpetofauna falls into the endemic category, with the next largest segment being restricted in distribution to Nuclear Middle America, but not endemic to Honduras. Cloud forest species are distributed among eight ecophysiographic areas, with the largest number being found in the Northwestern Highlands, followed by the North-Central Highlands and the Southwestern Highlands. The greatest significance of the Honduran herpetofauna lies in its 125 species that are either Honduran endemics or otherwise Nuclear Middle American-restricted species, of which 83 are distributed in the country’s cloud forests. This segment of the herpetofauna is seriously endangered as a consequence of exponentially increasing habitat destruction resulting from deforestation, even given the existence of several biotic reserves established in cloud forest. Other, less clearly evident environmental factors also appear to be implicated. As a consequence, slightly over half of these 83 species (50.6%) have populations that are in decline or that have disappeared from Honduran cloud forests. These species possess biological, conservational, and economic significance, all of which appear in danger of being lost.
The conservation status of the members of the Honduran herpetofauna is discussed. Based on current and projected future human population growth, it is posited that the entire herpetofauna is endangered. The known herpetofauna of Honduras currently consists of 334 species, including 117 amphibians and 217 reptiles (including six marine reptiles, which are not discussed in this paper). The greatest number of species occur at low and moderate elevations in lowland and/or mesic forest formations, in the Northern and Southern Cordilleras of the Serranía, and the ecophysiographic areas of the Caribbean coastal plain and foothills. Slightly more than one-third of the herpetofauna consists of endemic species or those otherwise restricted to Nuclear Middle America. Honduras is an area severely affected by amphibian population decline, with close to one-half of the amphibian fauna threatened, endangered, or extinct. The principal threats to the survival of members of the herpetofauna are uncontrolled human population growth and its corollaries, habitat alteration and destruction, pollution, pest and predator control, overhunting, and overexploitation. No Honduran amphibians or reptiles are entirely free of human impact. A gauge is used to estimate environmental vulnerability of amphibian species, using measures of extent of geographic range, extent of ecological distribution, and degree of specialization of reproductive mode. A similar gauge is developed for reptiles, using the first two measures for amphibian vulnerability, and a third scale for the degree of human persecution. Based on these gauges, amphibians and reptiles show an actual range of Environmental Vulnerability Scores (EVS) almost as broad as the theoretical range. Based on the actual EVS, both amphibian and reptilian species are divided into three categories of low, medium, and high vulnerability. There are 24 low vulnerability amphibians and 47 reptiles, 43 medium vulnerability amphibians and 111 reptiles, and 50 high vulnerability amphibians and 53 reptiles. Theoretical EVS values are assessed against available information on current population status of endemic and Nuclear Middle American taxa. Almost half (48.8%) of the endemic species of Honduran amphibians are already extinct or have populations that are in decline. Populations of 40.0% of the Nuclear Middle American amphibian species are extirpated or in decline. A little less than a third (27.0%) of the endemic reptiles are thought to have declining populations. Almost six of every ten (54.5%) of the Nuclear Middle American reptilian species are thought to have declining populations. EVS values provide a useful indicator of potential for endangerment, illustrating that the species whose populations are currently in decline or are extinct or extirpated have relatively high EVS. All high EVS species need to be monitored closely for changes in population status. A set of recommendations are offered, assuming that biotic reserves in Honduras can be safeguarded, that it is hoped will lead to a system of robust, healthy, and economically self-sustaining protected areas for the country’s herpetofauna. These recommendations will have to be enacted swiftly, however, due to unremitting pressure from human population growth and the resulting deforestation.
The receptor tyrosine kinase ErbB2 (HER2) is overexpressed in multiple human tumors of epithelial origin. High ErbB2 expression is functionally involved in tumorigenesis and correlates with poor clinical prognosis. For immunotherapy of ErbB2 expressing tumors, we developed a strategy to supply the tumor cells with costimulatory activity. A bispecific fusion protein was constructed (BIg5), containing the IgV-like domain of huCD86, the CH2/CH3 domain of huIgG1 and the ErbB2-specific single chain antibody fragment scFv(FRP5). A similar fusion protein lacking the CD86 domain (Ig5) was used as a control. Upon binding of BIg5 to ErbB2 on tumor cells, these cells display CD86 on their surface and thus can deliver costimulatory signals for T-cell activation. In addition, NK cells could be activated by CD86 binding to CD28. BIg5 is secreted by eukaryotic cells as a homodimer with increased stability compared to monomers and possibly enhanced costimulatory activity due to crosslinking of CD28 on effector cells. By FACS analysis, specific binding of the scFv(FRP5) domain to ErbB2 as well as CD86 IgV binding to CTLA-4 could be demonstrated. Together with anti-CD3 antibody, BIg5 stimulates proliferation of human CD2-purified lymphocytes in vitro. After binding to ErbB2 on murine Renca-lacZ/ErbB2 tumor cells, about 50% of initially bound BIg5 is still present on the cell surface after 4 hours. For delivery of chimeric fusion proteins in vivo, we used syngeneic, stably transfected HC11 mammary epithelial cells continuously secreting the proteins. Inoculation of these bystander cells close to subcutaneously growing Renca-lacZ/ErbB2 tumors should provide a long-lasting source to achieve high local concentrations of BIg5 at the tumor site. In vivo HC11-BIg5 cells proved to be non-tumorigenic and secreted BIg5 for several weeks, causing a strong anti-BIg5 antibody response. Treatment of established Renca-lacZ/ErbB2 or ErbB2-negative Renca-lacZ tumors by peritumoral inoculation of either HC11-BIg5 or HC11-Ig5 cells led to rejection of all Renca-lacZ/ErbB2, but none of the Renca-lacZ tumors. HC11neo control cells had no effect on tumor growth. Rejection of ErbB2+ tumors led to long-term protection also against subsequent challenge with intravenously injected ErbB2- tumor cells. Intraperitoneal injection of bystander cells secreting the fusion proteins did not lead to tumor regression suggesting that high local concentrations at the tumor site are necessary to target ErbB2 on tumor cells and to overcome elimination of BIg5 or Ig5 by neutralizing antibodies. The CD86 IgV domain of BIg5 did not play a major role in the observed antitumoral immune response suggesting NK-cell mediated ADCC as the initial effector mechanism followed by activation of tumor specific T cells. Targeting of ErbB2 on tumor cells with antibody fusion proteins that interact specifically with the host immune system could be an efficient and specific approach for therapy of solid ErbB2+ tumors.
A small electrostatic storage ring is the central machine of the Frankfurt Ion Storage Experiments (FIRE) which will be built at the new Stern-Gerlach Center of Frankfurt University. As a true multiuser, multipurpose facility with ion energies up to 50 keV, it will allow new methods to analyze complex many-particle systems from atoms to very large biomolecules. With envisaged storage times of some seconds and beam emittances in the order of a few mm mrad, measurements with up to 6 orders of magnitude better resolutions as compared to single-pass experiments become possible. In comparison to earlier designs, the ring lattice was modified in many details: Problems in earlier designs were related to, e.g., the detection of light particles and highly charged ions with different charge states. Therefore, the deflectors were redesigned completely, allowing a more flexible positioning of the diagnostics. Here, after an introduction to the concept of electrostatic machines, an overview of the planned FIRE is given and the ring lattice and elements are described in detail.
The fires of January 2003 burnt much of the treeless high mountain country of Victoria, New South Wales and the Australian Capital Territory, and were the first extensive conflagration of this area since 1939. For this reason there are remarkably few studies of the response of alpine plants and vegetation to fire. A flora survey of treeless subalpine vegetation in the Kosciuszko area in late 2002 sampled 215 sites. Of the 119 sites that were burnt, 60 were relocated and re-sampled in late 2003 to assess the mode and extent of regeneration in a range of treeless plant communities. Twenty-four species (including 3 exotics) were recorded only in the pre-fire sampling. Fifty species (including 18 exotics) were recorded only in the post-fire sampling. One species, Chenopodium erosum, had not previously been recorded in Kosciuszko National Park, and is believed to be the first native chenopod recorded in alpine vegetation in Australia. There was no significant difference in mean number of species per quadrat between pre-fire and post-fire quadrats. The average number of weeds per quadrat was, however, significantly greater post-fire. Most of this difference was attributable to the significantly greater number of weeds per quadrat in bog vegetation after the fire. Of the 290 species recorded, 111 species regenerated from seed, 197 species regenerated from resprouting organs (roots, tubers and/or basal stems) and 49 species regenerated from both seed and resprouts. Based on the regeneration observed, most plant communities will return naturally to their pre-fire species composition and cover over a period between a few years and a few decades. Major exceptions will be those communities where the ‘keystone’ species appear to have been lost at least at a local scale. Principal amongst these are bog communities that incorporated significant biomass of Sphagnum cristatum pre-fire, Podocarpus lawrencei shrublands and Celmisia costiniana closed herbfields. Consideration might be given to augmenting their recovery. It will be important to exclude fire from these communities until their recovery is complete.
Respiratory chain complex I contains 8-9 iron-sulfur clusters. In several cases, the assignment of these clusters to subunits and binding motifs is still ambiguous. To test the proposed ligation of the tetranuclear iron-sulfur cluster N5 of respiratory chain complex I, we replaced the conserved histidine 129 in the 75-kDa subunit from Yarrowia lipolytica with alanine. In the mutant strain, reduced amounts of fully assembled but destabilized complex I could be detected. Deamino-NADH: ubiquinone oxidoreductase activity was abolished completely by the mutation. However, EPR spectroscopic analysis of mutant complex I exhibited an unchanged cluster N5 signal, excluding histidine 129 as a cluster N5 ligand.