Elastic properties and secondary structure formation of single-stranded DNA at monovalent and divalent salt conditions

Single-stranded DNA (ssDNA) plays a major role in several biological processes. It is therefore of fundamental interest to understand how the elastic response and the formation of secondary structures are modulated by the interplay between base pairing and electrostatic interactions. Here we measure force-extension curves (FECs) of ssDNA molecules in optical tweezers set up over two orders of magnitude of monovalent and divalent salt conditions, and obtain its elastic parameters by fitting the FECs to semiflexible models of polymers. For both monovalent and divalent salts, we find that the electrostatic contribution to the persistence length is proportional to the Debye screening length, varying as the inverse of the square root of cation concentration. The intrinsic persistence length is equal to 0.7 nm for both types of salts, and the effectivity of divalent cations in screening electrostatic interactions appears to be 100-fold as compared with monovalent salt, in line with what has been recently reported for single-stranded RNA. Finally, we propose an analysis of the FECs using a model that accounts for the effective thickness of the filament at low salt condition and a simple phenomenological description that quantifies the formation of non-specific secondary structure at low forces.

Use of recovered frying oils in chicken and rabbit feeds: effect on the fatty acid and tocol composition and on the oxidation levels of meat, liver and plasma

The addition of some fat co- and by-products to feeds is usual nowadays; however, the regulations of their use are not always clear and vary between countries. For instance, the use of recycled cooking oils is not allowed in the European Union, but they are used in other countries. However, oils recovered from industrial frying processes could show satisfactory quality for this purpose. Here we studied the effects of including oils recovered from the frying industry in rabbit and chicken feeds (at 30 and 60 g/kg, respectively) on the fatty acid (FA) and tocol (tocopherol1tocotrienol) compositon of meat, liver and plasma, and on their oxidative stability. Three dietary treatments (replicated eight times) were compared: fresh non-used oil (LOX); oil discarded from the frying industry, having a high content of secondary oxidation compounds (HOX); and an intermediate level (MOX) obtained by mixing 50 : 50 of LOX and HOX. The FA composition of oil diets and tissues was assessed by GC, their tocol content by HPLC, the thiobarbituric acid value was used to assess tissue oxidation status, and the ferrous oxidation-xylenol orange method was used to assess the susceptibility of tissues to oxidation. Our results indicate that FA composition of rabbit and chicken meat, liver and plasma was scarcely altered by the addition of recovered frying oils to feed. Differences were encountered in the FA composition between species, which might be attributed mainly to differences in the FA digestion, absorption and metabolism between species, and to some physiological dietary factors (i.e. coprophagy in rabbits that involves fermentation with FA structure modification). The a-tocopherol (aT) content of tissues was reduced in response to the lower aT content in the recovered frying oil. Differences in the content of other tocols were encountered between chickens and rabbits, which might be attributable to the different tocol composition of their feeds, as well as to species differences in the digestion and metabolism of tocols. Tissue oxidation and susceptibility to oxidation were in general low and were not greatly affected by the degree of oxidation of the oil added to the feeds. The relative content of polyunsaturated fatty acids/aT in these types of samples would explain the differences observed between species in the susceptibility of each tissue to oxidation. According to our results, oils recovered from the frying industry could be useful for feed uses.

Correlation of physical and chemical attributes of soil with sugarcane yield

The objective of this work was to evaluate the correlation between sugarcane yield and some physical and chemical attributes of soil. For this, a 42‑ha test area in Araras, SP, Brazil, was used. Soil properties were determined from samples collected at the beginning of the 2003/2004 harvest season, using a regular 100x100 m grid. Yield assessment was done with a yield monitor (Simprocana). Correlation analyses were performed between sugarcane yield and the following soil properties: pH, pH CaCl2, N, C, cone index, clay content, soil organic matter, P, K, Ca, Mg, H+AL, cation exchange capacity, and base saturation. Correlation coefficients were respectively ‑0.05, ‑0.29, 0.33, 0.41, ‑0.27, 0.22, 0.44, ‑0.24, trace, ‑0.06, 0.01, 0.32, 0.14, and 0.04. Correlations of chemical and physical attributes of soil with sugarcane yield are weak, and, per se, they are not able to explain sugarcane yield variation, which suggests that other variables, besides soil attributes, should be analysed.

Prognostic Importance of the Cuse of Renal Failure in Patients With Cirrhosis

BACKGROUND & AIMS: The prognostic value of the different causes of renal failure in cirrhosis is not well established. This study investigated the predictive value of the cause of renal failure in cirrhosis. METHODS: Five hundred sixty-two consecutive patients with cirrhosis and renal failure (as defined by serum creatinine 1.5 mg/dL on 2 successive determinations within 48 hours) hospitalized over a 6-year period in a single institution were included in a prospective study. The cause of renal failure was classified into 4 groups: renal failure associated with bacterial infections, renal failure associated with volume depletion, hepatorenal syndrome (HRS), and parenchymal nephropathy. The primary end point was survival at 3 months. RESULTS: Four hundred sixty-three patients (82.4%) had renal failure that could be classified in 1 of 4 groups. The most frequent was renal failure associated with infections (213 cases; 46%), followed by hypovolemia-associated renal failure (149; 32%), HRS (60; 13%), and parenchymal nephropathy (41; 9%). The remaining patients had a combination of causes or miscellaneous conditions. Prognosis was markedly different according to cause of renal failure, 3-month probability of survival being 73% for parenchymal nephropathy, 46% for hypovolemia-associated renal failure, 31% for renal failure associated with infections, and 15% for HRS (P .0005). In a multivariate analysis adjusted for potentially confounding variables, cause of renal failure was independently associated with prognosis, together with MELD score, serum sodium, and hepatic encephalopathy at time of diagnosis of renal failure. CONCLUSIONS: A simple classification of patients with cirrhosis according to cause of renal failure is useful in assessment of prognosis and may help in decision making in liver transplantation.

JXTAnonym: An anonymity layer for JXTA services messaging

With the evolution of the P2P research eld, new problems, such as those related with information security, have arisen. It is important to provide security mechanisms to P2P systems, since it has already become one of the key issues when evaluating them. However, even though many P2P systems have been adapted to provide a security baseline to their underlying applications, more advanced capabilities are becoming necessary. Speci cally, privacy preservation and anonymity are deemed essential to make the information society sustainable. Unfortunately, sometimes, it may be di cult to attain anonymity unless it is included into the system's initial design. The JXTA open protocols speci cation is a good example of this kind of scenario. This work studies how to provide anonymity to JXTA's architecture in a feasible manner and proposes an extension which allows deployed services to process two-way messaging without disclosing the endpoints'identities to third parties.

Chemical and biological attributes of a lowland soil affected by land leveling

The objective of this work was to evaluate the relationship between soil chemical and biological attributes and the magnitude of cuts and fills after the land leveling process of a lowland soil. Soil samples were collected from the 0 - 0.20 m layer, before and after leveling, on a 100 point grid established in the experimental area, to evaluate chemical attributes and soil microbial biomass carbon (MBC). Leveling operations altered the magnitude of soil chemical and biological attributes. Values of Ca, Mg, S, cation exchange capacity, Mn, P, Zn, and soil organic matter (SOM) decreased in the soil profile, whereas Al, K, and MBC increased after leveling. Land leveling decreased in 20% SOM average content in the 0 - 0.20 m layer. The great majority of the chemical attributes did not show relations between their values and the magnitude of cuts and fills. The relation was quadratic for SOM, P, and total N, and was linear for K, showing a positive slope and indicating increase in the magnitude of these attributes in cut areas and stability in fill areas. The relationships between these chemical attributes and the magnitude of cuts and fills indicate that the land leveling map may be a useful tool for degraded soil recuperation through amendments and organic fertilizers.

Alternative tests for correct specification of conditional predictive densities

We propose new methods for evaluating predictive densities that focus on the models' actual predictive ability in finite samples. The tests offer a simple way of evaluatingthe correct specification of predictive densities, either parametric or non-parametric.The results indicate that our tests are well sized and have good power in detecting mis-specification in predictive densities. An empirical application to the Survey ofProfessional Forecasters and a baseline Dynamic Stochastic General Equilibrium modelshows the usefulness of our methodology.

Kiinteistön sähköisen huoltokirjan kehittäminen

Ympäristöministeriö edellyttää kaikilta vuoden 2000 jälkeen valmistuneilta tai peruskorjatuilta asuinkiinteistöiltä huoltokirjaa. Huoltokirja on kiinteistön ylläpitoon liittyvä asiakirjakokonaisuus, johon kootaan kaikki tarvittavat tiedot kiinteistöstä ja sen hoidosta. Tämän diplomityön tavoitteena oli toteuttaa sähköinen huoltokirjajärjestelmä asuinkiinteistöille. Järjestelmän haluttiin palvelevan isännöitsijöiden ja huoltoyhtiöiden lisäksi myös kiinteistön omistajia, asukkaita, rakennuttajia ja kiinteistön välittäjiä. Tästä syystä järjestelmästä haluttiin Internet-selaimella käytettävä verkkopalvelu. Diplomityöhön kuului järjestelmän suunnittelu, toteutus ja testaus. Työn lopputuloksena syntynyt Pihapiiri.com järjestelmä otettiin käyttöön syksyllä 2002. Projektin aikanahavaittiin, että huoltokirjoja koskevat määrittelyt ja standardit olivat vasta kehitteillä. e-EHYT-hanke (elinkaarihallinnan yhteiset ydintie dot sähköisissä huoltokirjoissa) on merkittävä edistysaskel huoltokirjajärjestelmien sisällön ja tiedonsiirron standardoinnissa. Uusissa tuotekehityshankkeissa ja nykyisten huoltokirjajärjestelmien jatkokehityshankkeissa on olennaista huomioida e-EHYT-määritysten sekä yhteistyöverkoston merkitys. Käyttäjät ovat kritisoineet markkinoilla olevia tuotteita liian tarkoiksi. Liian teknisiä ja raskaita ratkaisuja tulee välttää varsinkin silloin kun tuotetta suunnitellaan asunto-osakeyhtiöille ja pientalo-omistajille.

Jäähdytykseen ja täyssuolanpoistoon perustuva lauhteen puhdistus soodakattilalaitoksella

Tämän diplomityön oleellisempana tavoitteena oli tutkia ioninvaihtohartsien pitkäaikaista toiminnallista lämpötilakestävyyttä kirjallisuustutkimuksin ja kuormituskokein. Lisaksi työssä optimoitiin taloudellisesti ja teknisesti paras kytkentävaihtoehto soodakattilan lauhteenpuhdistuslaitokselle. Tässä diplomityössä selvitettiin myös soodakattilan ulospuhallusveden sisältämien veden jälkiannostelukemikaalien ja epäpuhtauksien vaikutusta ioninvaihtohartsien vanhenemiseen.; Ioninvaihtohartsien lämpötilakestävyyteen liittyvät koeajot suoritettiin Stora Enso Laminating Papers Oy Kotkan tehtaalla. Koeajoja varten oli erikseen suunniteltu koeajolaitteisto, jossa lauhdenäytettä puhdistettiin patruunasuotimella ja sekavaihtimella. Sekavaihtimessa käytettiin vahvoja anioni- ja kationihartseja. Koeajoja oli yhteensä neljäkappaletta ja niissä tutkittiin hartsien lämpötilakestävyyttä ja anionihartsin silikaatti-vuodon riippuvuutta lämpötilasta. Lämpötilakestävyyskoeajoissa käytetyt hartsit lähetettiin Rohm and Haasille analysoitavaksi. Lopulta koeajojen tuloksia verrattiin kirjallisuudessa esitettyihin aikaisempiin tutkimuksiin. Lauhteenpuhdistuslaitoksen kytkentävaihtoehtojen optimoinnissa käytettiin apuna Kotkan ja UPM-Kymmene Oyj Pietarsaaren tehtaiden kokemuksia. Kytkentävaihtoehtojen energiataseet laskettiin kuudelle eri laitokselle, joiden syöttöveden virtaukset olivat 37 -180 kg/s. Lisaksi selvitettiin kytkentävaihtoehtojen investointikustannukset ja kertakäyttöhartsien vuotuiset kustannukset laitokselle, jossa syöttöveden virtaus oli 67 kg/s. Ulospuhalluksen talteenottojärjestelmän energiataseet laskettiin kuudelle eri laitokselle, joiden syöttöveden virtaukset olivat 37 - 180 kg/s. Laskelmien lähtökohtana käytettiin kunkin soodakattilan ulospuhallusveden määriä, jotka selvitettiin tehdasvierailujen yhteydessä. Ulospuhallusveden epäpuhtauksien ja jälkiannostelukemikaalien pitoisuudet arvioitiin kattilaveden perusteella. Aikaisempien kokemusten perusteella arvioitiin, että ulospuhallusvesi johdettaisiin lisäveden valmistukseen ennen suolanpoistosarjoja. loninvaihtohartsien kuormituskokeiden ja kirjallisuustutkimusten perusteella oli selkeästi nähtävissä, että etenkin anionihartsin kapasiteetti heikkeni nopeasti lämpötilan ollessa yli 60 °C. Kationihartsin suolanpoistolle kriittinen lämpötilaraja on 100 °C.Lisäksi yli 60 °C:ssa anionihartsi ei pysty poistamaan silikaattia lauhteesta. Seuraavaksi on esitelty lauhteenpuhdistuslaitoksen optimikytkentävaihtoehdot sekä vanhoille että uusille laitoksille. Vanhalle laitokselle, jossa lauhteet on puhdistettu aikaisemmin mekaanisella suotimella ja lisäveden puhdistuksessa on käytetty sekavaihdinta, paras kytkentävaihto on erilliset sekavaihtimet lauhteelle ja lisävedelle. Uudelle ja vanhalle laitokselle, jossa lauhteet on puhdistettu aikaisemmin mekaanisella suotimella ja lisäveden puhdistuksessa ei ole käytetty sekavaihdinta, paras kytkentävaihto on yhteiset sekavaihtimet lauhteelle ja lisävedelle. Lauhteen puhdistuksessa käytetyt sekavaihtimen toimintalämpötila on 45 °C molemmissa kytkentävaihtoehdoissa. Kertakäyttöhartsien käyttö osoittautui suuressa mittakaavassa kannattamattomaksi. Tämä asia tarvinnee kuitenkin jatkotutkimuksia. Ulospuhallusveden talteenotolla saadaan energiasäästöä 6-53 k¤/a riippuenlaitoksesta. Etenkin soodakattilalaitoksissa, joissa soodakattila ja vedenkäsittelylaitos sijaitsevat lähellä toisiaan, kannattaa ulospuhallusvesi johtaa lisäveden valmistukseen. Jos edellä mainittujen laitosten etäisyydet kasvavat, saattavat ulospuhallusjärjestelmän investointi-kustannukset nousta kohtuuttoman suureksi. Tämä työ osoitti myös, että ulospuhallusveden epäpuhtauksilla ei ole merkittävää vaikutusta kemiallisesti puhdistetun veden laatuun ennen suolanpoistolaitosta ja ioninvaihtohartsien vanhenemiseen.

The odd couple: contrasting phylogeographic patterns in two sympatric sibling species of woodlouse-­‐hunter spiders in the Canary Islands

Comparative phylogeography seeks for commonalities in the spatial demographic history of sympatric organisms to characterize the mechanisms that shaped such patterns. The unveiling of incongruent phylogeographic patterns in co-occurring species, on the other hand, may hint to overlooked differences in their life histories or microhabitat preferences. The woodlouse-hunter spiders of the genus Dysdera have undergone a major diversi cation on the Canary Islands. The species pair Dysdera alegranzaensis and Dysdera nesiotes are endemic to the island of Lanzarote and nearby islets, where they co-occur at most of their known localities. The two species stand in sharp contrast to other sympatric endemic Dysdera in showing no evidence of somatic (non-genitalic) differentiation. Phylogenetic and population genetic analyses of mitochondrial cox1 sequences from an exhaustive sample of D. alegranzaensis and D. nesiotes specimens, and additional mitochondrial (16S, L1, nad1) and nuclear genes (28S, H3) were analysed to reveal their phylogeographic patterns and clarify their phylogenetic relationships. Relaxed molecular clock models using ve calibration points were further used to estimate divergence times between species and populations. Striking differences in phylogeography and population structure between the two species were observed. Dysdera nesiotes displayed a metapopulation-like structure, while D. alegranzaensis was characterized by a weaker geographical structure but greater genetic divergences among its main haplotype lineages, suggesting more complex population dynamics. Our study con rms that co-distributed sibling species may exhibit contrasting phylogeographic patterns in the absence of somatic differentiation. Further ecological studies, however, will be necessary to clarify whether the contrasting phylogeographies may hint at an overlooked niche partitioning between the two species. In addition, further comparisons with available phylogeographic data of other eastern Canarian Dysdera endemics con rm the key role of lava ows in structuring local populations in oceanic islands and identify localities that acted as refugia during volcanic eruptions

Different concentrations of Mg++ ions affect nuclear matrix protein distribution during thermal stabilization of isolated nuclei.

The nuclear matrix, a proteinaceous network believed to be a scaffolding structure determining higher-order organization of chromatin, is usually prepared from intact nuclei by a series of extraction steps. In most cell types investigated the nuclear matrix does not spontaneously resist these treatments but must be stabilized before the application of extracting agents. Incubation of isolated nuclei at 37C or 42C in buffers containing Mg++ has been widely employed as stabilizing agent. We have previously demonstrated that heat treatment induces changes in the distribution of three nuclear scaffold proteins in nuclei prepared in the absence of Mg++ ions. We studied whether different concentrations of Mg++ (2.0-5 mM) affect the spatial distribution of nuclear matrix proteins in nuclei isolated from K562 erythroleukemia cells and stabilized by heat at either 37C or 42C. Five proteins were studied, two of which were RNA metabolism-related proteins (a 105-kD component of splicing complexes and an RNP component), one a 126-kD constituent of a class of nuclear bodies, and two were components of the inner matrix network. The localization of proteins was determined by immunofluorescent staining and confocal scanning laser microscope. Mg++ induced significant changes of antigen distribution even at the lowest concentration employed, and these modifications were enhanced in parallel with increase in the concentration of the divalent cation. The different sensitivity to heat stabilization and Mg++ of these nuclear proteins might reflect a different degree of association with the nuclear scaffold and can be closely related to their functional or structural role.

Value added logistics in supply and demand chains. Smile. Part 1. eBusiness between global company and itslocal sme supplier network

VALOSADE (Value Added Logistics in Supply and Demand Chains) is the research project of Anita Lukka's VALORE (Value Added Logistics Research) research team inLappeenranta University of Technology. VALOSADE is included in ELO (Ebusiness logistics) technology program of Tekes (Finnish Technology Agency). SMILE (SME-sector, Internet applications and Logistical Efficiency) is one of four subprojects of VALOSADE. SMILE research focuses on case network that is composed of small and medium sized mechanical maintenance service providers and global wood processing customers. Basic principle of SMILE study is communication and ebusiness insupply and demand network. This first phase of research concentrates on creating backgrounds for SMILE study and for ebusiness solutions of maintenance case network. The focus is on general trends of ebusiness in supply chains and networksof different industries; total ebusiness system architecture of company networks; ebusiness strategy of company network; information value chain; different factors, which influence on ebusiness solution of company network; and the correlation between ebusiness and competitive advantage. Literature, interviews and benchmarking were used as research methods in this qualitative case study. Networks and end-to-end supply chains are the organizational structures, which can add value for end customer. Information is one of the key factors in these decentralized structures. Because of decentralization of business, information is produced and used in different companies and in different information systems. Information refinement services are needed to manage information flows in company networksbetween different systems. Furthermore, some new solutions like network information systems are utilised in optimising network performance and in standardizingnetwork common processes. Some cases have however indicated, that utilization of ebusiness in decentralized business model is not always a necessity, but value-add of ICT must be defined case-specifically. In the theory part of report, different ebusiness and architecture models are introduced. These models are compared to empirical case data in research results. The biggest difference between theory and empirical data is that models are mainly developed for large-scale companies - not for SMEs. This is due to that implemented network ebusiness solutions are mainly large company centered. Genuine SME network centred ebusiness models are quite rare, and the study in that area has been few in number. Business relationships between customer and their SME suppliers are nowadays concentrated more on collaborative tactical and strategic initiatives besides transaction based operational initiatives. However, ebusiness systems are further mainly based on exchange of operational transactional data. Collaborative ebusiness solutions are in planning or pilot phase in most case companies. Furthermore, many ebusiness solutions are nowadays between two participants, but network and end-to-end supply chain transparency and information systems are quite rare. Transaction volumes, data formats, the types of exchanged information, information criticality,type and duration of business relationship, internal information systems of partners, processes and operation models (e.g. different ordering models) differ among network companies, and furthermore companies are at different stages on networking and ebusiness readiness. Because of former factors, different customer-supplier combinations in network must utilise totally different ebusiness architectures, technologies, systems and standards.

Influence of stationary phase and eluent properties on chromatographic separation of carbohydrates

In this thesis, the sorption and elastic properties of the cation-exchange resins were studied to explain the liquid chromatographic separation of carbohydrates. Na+, Ca2+ and La3+ form strong poly(styrene-co-divinylbenzene) (SCE) as well as Na+ and Ca2+ form weak acrylic (WCE) cation-exchange resins at different cross-link densities were treated within this work. The focus was on the effects of water-alcohol mixtures, mostly aqueous ethanol, and that of the carbohydrates. The carbohydrates examined were rhamnose, xylose, glucose, fructose, arabinose, sucrose, xylitol and sorbitol. In addition to linear chromatographic conditions, non-linear conditions more typical for industrial applications were studied. Both experimental and modeling aspectswere covered. The aqueous alcohol sorption on the cation-exchangers were experimentally determined and theoretically calculated. The sorption model includes elastic parameters, which were obtained from sorption data combined with elasticity measurements. As hydrophilic materials cation-exchangers are water selective and shrink when an organic solvent is added. At a certain deswelling degree the elastic resins go through glass transition and become as glass-like material. Theincreasing cross-link level and the valence of the counterion decrease the sorption of solvent components in the water-rich solutions. The cross-linkage or thecounterions have less effect on the water selectivity than the resin type or the used alcohol. The amount of water sorbed is higher in the WCE resin and, moreover, the WCE resin is more water selective than the corresponding SCE resin. Theincreased aliphatic part of lower alcohols tend to increase the water selectivity, i.e. the resins are more water selective in 2-propanol than in ethanol solutions. Both the sorption behavior of carbohydrates and the sorption differences between carbohydrates are considerably affected by the eluent composition and theresin characteristics. The carbohydrate sorption was experimentally examined and modeled. In all cases, sorption and moreover the separation of carbohydrates are dominated by three phenomena: partition, ligand exchange and size exclusion. The sorption of hydrophilic carbohydrates increases when alcohol is added into the eluent or when carbohydrate is able to form coordination complexes with the counterions, especially with multivalent counterions. Decreasing polarity of the eluent enhances the complex stability. Size exclusion effect is more prominent when the resin becomes tighter or carbohydrate size increases. On the other hand,the elution volumes between different sized carbohydrates decreases with the decreasing polarity of the eluent. The chromatographic separation of carbohydrateswas modeled, using rhamnose and xylose as target molecules. The thermodynamic sorption model was successfully implemented in the rate-based column model. The experimental chromatographic data were fitted by using only one adjustable parameter. In addition to the fitted data also simulated data were generated and utilized in explaining the effect of the eluent composition and of the resin characteristics on the carbohydrate separation.

Criterios identificadores de las perífrasis verbales del español

Dels criteris proposats per la bibliogra a per identi car les perífrasis verbals (PV) de l'espanyol, només alguns ajuden a diferenciar amb e càcia les PV de les construccions no perifràstiques (CNP). L'objectiu d'aquest article és revisar aquests criteris i avaluar-los per tal de determinar quins són realment vàlids per identi car les PV. L'avaluació s'ha dut a terme amb un grup de 15 conjunts verbals. A més, s'ha realitzat un estudi experimental amb corpus per determinar la productivitat de les PV detectades.

Verbs d'actitud

En aquest article es defi neix la classe dels verbs d'actitud, tant intensionalment, a partir de criteris sint àctics i sem àntics, com extensionalment. Quant a la sintaxi, s'observa que els verbs que pertanyen a aquest grup presenten almenys una estructura distintiva compartida; pel que fa a la sem àntica, a m és d'identifi car-hi els mateixos components de signifi cat, s'ha observat que presenten també el mateix tipus general d'estructura esdevenimental. La hipòtesi de treball és la de Levin [6] -els verbs que tenen el mateix signifi cat comparteixen el mateix comportament sintàctic-, encara que amb alguns matisos. El punt de partida és tamb é la classifi cació d'aquesta autora, sobre la qual es proposa una reagrupaci ó en funci ó dels criteris esmentats.