Effect of substituent position on optical properties of boron-dipyrromethane isomers

Three isomeric meso-SiMe3C6H4 substituted BODIPYs have been synthesized and their optical properties studied. The constitutional isomers show similar absorption properties but vastly different emissive properties as a result of their different conformational flexibility. Fluorine-19 NMR study is used to unravel the conformational state of the BODIPY isomers at a molecular level. (C) 2013 Elsevier B. V. All rights reserved.

On the systematic position of some Asian enigmatic genera of Asclepiadoideae (Apocynaceae)

The phylogenetic structure of Asclepiadoideae (Apocynaceae) has been elucidated at the tribal and subtribal levels in the last two decades. However, to date, the systematic positions of seven Asian genera, Cosmostigma, Graphistemma, Holostemma, Pentasachme, Raphistemma, Seshagiria and Treutlera, have not been investigated. In this study, we examine the evolutionary relationships among these seven small enigmatic Asian genera and clarify their positions in Asclepiadoideae, using a combination of plastid sequences of rbcL, rps16, trnL and trnL- F regions. Cosmostigma and Treutlera are resolved as members of the non-Hoya clade of Marsdenieae with strong support (maximum parsimony bootstrap support value BSMP = 96, maximum likelihood bootstrap support value BSML = 98, Bayesian-inferred posterior probability PP = 1.0). Pentasachme is resolved as sister of Stapeliinae to Ceropegieae with moderate support (BSMP = 64, BSML = 66, PP = 0.94). Graphistemma, Holostemma, Raphistemma and Seshagiria are all nested in the Asclepiadeae-Cynanchinae clade (BSMP = 97, BSML = 100, PP = 1.0). The study confirms the generally accepted tribal and subtribal structure of the subfamily. One exception is Eustegia minuta, which is placed here as sister to all Asclepiadeae (BSMP = 58, BSML = 76, PP = 0.99) and not as sister to the Marsdenieae + Ceropegieae clade. The weak support and conflicting position indicate the need for a placement of Eustegia as an independent tribe. In Asclepiadeae, a sister group position of Cynanchinae to the Asclepiadinae + Tylophorinae clade is favoured (BSMP = 84, BSML = 88, PP = 1.0), whereas Schizostephanus is retrieved as unresolved. Oxystelma appears as an early-branching member of Asclepiadinae with weak support (BSMP = 52, BSML = 74, PP = 0.69). Calciphila and Solenostemma are also associated with Asclepiadinae with weak support (BSMP = 37, BSML = 45, PP = 0.79), but all alternative positions are essentially without support. The position of Indian Asclepiadoideae in the family phylogeny is discussed. (c) 2014 The Linnean Society of London, Botanical Journal of the Linnean Society, 2014, 174, 601-619.

Sparsely populated residue conformations in protein structures: Revisiting ``experimental'' Ramachandran maps

The Ramachandran map clearly delineates the regions of accessible conformational (phi-) space for amino acid residues in proteins. Experimental distributions of phi, values in high-resolution protein structures, reveal sparsely populated zones within fully allowed regions and distinct clusters in apparently disallowed regions. Conformational space has been divided into 14 distinct bins. Residues adopting these relatively rare conformations are presented and amino acid propensities for these regions are estimated. Inspection of specific examples in a completely arid, fully allowed region in the top left quadrant establishes that side-chain and backbone interactions may provide the energetic compensation necessary for populating this region of phi- space. Asn, Asp, and His residues showed the highest propensities in this region. The two distinct clusters in the bottom right quadrant which are formally disallowed on strict steric considerations correspond to the gamma turn (C7 axial) conformation (Bin 12) and the i + 1 position of Type II turns (Bin 13). Of the 516 non-Gly residues in Bin 13, 384 occupied the i + 1 position of Type II turns. Further examination of these turn segments revealed a high propensity to occur at the N-terminus of helices and as a tight turn in hairpins. The strand-helix motif with the Type II turn as a connecting element was also found in as many as 57 examples. Proteins 2014; 82:1101-1112. (c) 2013 Wiley Periodicals, Inc.

Structure-specific nuclease activity of RAGs is modulated by sequence, length and phase position of flanking double-stranded DNA

RAGs (recombination activating genes) are responsible for the generation of antigen receptor diversity through the process of combinatorial joining of different V (variable), D (diversity) and J (joining) gene segments. In addition to its physiological property, wherein RAG functions as a sequence-specific nuclease, it can also act as a structure-specific nuclease leading to genomic instability and cancer. In the present study, we investigate the factors that regulate RAG cleavage on non-B DNA structures. We find that RAG binding and cleavage on heteroduplex DNA is dependent on the length of the double-stranded flanking region. Besides, the immediate flanking double-stranded region regulates RAG activity in a sequence-dependent manner. Interestingly, the cleavage efficiency of RAGs at the heteroduplex region is influenced by the phasing of DNA. Thus, our results suggest that sequence, length and phase positions of the DNA can affect the efficiency of RAG cleavage when it acts as a structure-specific nuclease. These findings provide novel insights on the regulation of the pathological functions of RAGs.

A Family of Domains Associated with mu-Synthesis

We introduce a family of domains-which we call the -quotients-associated with an aspect of -synthesis. We show that the natural association that the symmetrized polydisc has with the corresponding spectral unit ball is also exhibited by the -quotient and its associated unit `` -ball''. Here, is the structured singular value for the case Specifically: we show that, for such an E, the Nevanlinna-Pick interpolation problem with matricial data in a unit `` -ball'', and in general position in a precise sense, is equivalent to a Nevanlinna-Pick interpolation problem for the associated -quotient. Along the way, we present some characterizations for the -quotients.

Change in Mesoherbivore Browsing Is Mediated by Elephant and Hillslope Position

Elephant are considered major drivers of ecosystems, but their effects within small-scale landscape features and on other herbivores still remain unclear. Elephant impact on vegetation has been widely studied in areas where elephant have been present for many years. We therefore examined the combined effect of short-term elephant presence (< 4 years) and hillslope position on tree species assemblages, resource availability, browsing intensity and soil properties. Short-term elephant presence did not affect woody species assemblages, but did affect height distribution, with greater sapling densities in elephant access areas. Overall tree and stem densities were also not affected by elephant. By contrast, slope position affected woody species assemblages, but not height distributions and densities. Variation in species assemblages was statistically best explained by levels of total cations, Zinc, sand and clay. Although elephant and mesoherbivore browsing intensities were unaffected by slope position, we found lower mesoherbivore browsing intensity on crests with high elephant browsing intensity. Thus, elephant appear to indirectly facilitate the survival of saplings, via the displacement of mesoherbivores, providing a window of opportunity for saplings to grow into taller trees. In the short-term, effects of elephant can be minor and in the opposite direction of expectation. In addition, such behavioural displacement promotes recruitment of saplings into larger height classes. The interaction between slope position and elephant effect found here is in contrast with other studies, and illustrates the importance of examining ecosystem complexity as a function of variation in species presence and topography. The absence of a direct effect of elephant on vegetation, but the presence of an effect on mesoherbivore browsing, is relevant for conservation areas especially where both herbivore groups are actively managed.

An addition to the endemic Indian radiation of Eutropis: Phylogenetic position of Eutropis dissimilis Hallowell (Squamata: Scincidae)

Skinks of the genus Eutropis represent one of the most widespread and speciose lizard groups in tropical Asia. Numerous recent studies have utilized a variety of genes and methods to reconstruct the phylogeny of these lizards, however these studies have not resolved the placement of one of the widely distributed Eutropis Fitzinger, E. dissimilis. We have sequenced a specimen of E. dissimilis from the type locality and our result suggests that it is part of the Indian radiation of Eutropis and not related to African Trachylepis Fitzinger or Southeast Asian Dasia Gray as previously suggested. Furthermore, we report that the sequence of E. dissimilis used in an earlier study of the once cosmopolitan genus `Mabuya' may have been erroneously identified and appears to be a sequence of E. novemcarinata. We also demonstrate that the evolution of a clear lower eyelid, which was considered a synapomorphy for the sister genus Trachylepis, has arisen multiple times in Eutropis.

Site-Selective Addition of Maleimide to Indole at the C-2 Position: Ru(II)-Catalyzed C-H Activation

Synthesis of 3-(indol-2-yl)succinimide derivatives is presented using a directing group strategy. Selective functionalization of C-2 in the presence of highly reactive C-3 in indole derivatives has been achieved. A conjugate addition product instead of Heck-type product has been brought about by careful selection of the alkene partner (maleimides and maleate esters) such that a beta-hydride elimination is avoided.

A taxonomic mystery for more than 180 years: the identity and systematic position of Brachysaura minor (HARDWICKE & GRAY, 1827)

Brachysaura is a monotypic genus of agamid lizard found in the Indian subcontinent; the identity and systematic position of B. minor has been long debated, and it has at times been subsumed into Agama, Charasia and Laudakia, with some authors suggesting affinities to Calotes. We constructed nuclear and mitochondrial phylogenetic trees including Brachysaura and allied agamid genera to resolve its phylogenetic position. We also compared osteology and external morphology with the genera Agama, Calotes and Laudakia. Hemipenial morphology was compared with Calotes and some other agamids from South Asia. Both nuclear and mitochondrial phylogenies demonstrate that Brachysaura is nested within the widespread South and Southeast Asian genus Calotes, with which it also shares certain external morphological, osteological and hemipenial characters. Adaptations to ground dwelling in Brachysaura minor has resulted in unique modifications to its body plan, which is likely why generic allocation has been long confused. This study also highlights the need for an integrated systematic approach to resolve taxonomic ambiguity in Asian agamids.

Biochemical Characterization of Nonamer Binding Domain of RAG1 Reveals its Thymine Preference with Respect to Length and Position

RAG complex consisting of RAG1 and RAG2 is a site-specific endonuclease responsible for the generation of antigen receptor diversity. It cleaves recombination signal sequence (RSS), comprising of conserved heptamer and nonamer. Nonamer binding domain (NBD) of RAG1 plays a central role in the recognition of RSS. To investigate the DNA binding properties of the domain, NBD of murine RAG1 was cloned, expressed and purified. Electrophoretic mobility shift assays showed that NBD binds with high affinity to nonamer in the context of 12/23 RSS or heteroduplex DNA. NBD binding was specific to thymines when single stranded DNA containing poly A, C, G or T were used. Biolayer interferometry studies showed that poly T binding to NBD was robust and comparable to that of 12RSS. More than 23 nt was essential for NBD binding at homothymidine stretches. On a double-stranded DNA, NBD could bind to A:T stretches, but not G:C or random sequences. Although NBD is indispensable for sequence specific activity of RAGs, external supplementation of purified nonamer binding domain to NBD deleted cRAG1/cRAG2 did not restore its activity, suggesting that the overall domain architecture of RAG1 is important. Therefore, we define the sequence requirements of NBD binding to DNA.

Position-dependent velocity of an effective temperature point for the estimation of the thermal diffusivity of solids

A new approach is proposed to estimate the thermal diffusivity of optically transparent solids at ambient temperature based on the velocity of an effective temperature point (ETP), and by using a two-beam interferometer the proposed concept is corroborated. 1D unsteady heat flow via step-temperature excitation is interpreted as a `micro-scale rectilinear translatory motion' of an ETP. The velocity dependent function is extracted by revisiting the Fourier heat diffusion equation. The relationship between the velocity of the ETP with thermal diffusivity is modeled using a standard solution. Under optimized thermal excitation, the product of the `velocity of the ETP' and the distance is a new constitutive equation for the thermal diffusivity of the solid. The experimental approach involves the establishment of a 1D unsteady heat flow inside the sample through step-temperature excitation. In the moving isothermal surfaces, the ETP is identified using a two-beam interferometer. The arrival-time of the ETP to reach a fixed distance away from heat source is measured, and its velocity is calculated. The velocity of the ETP and a given distance is sufficient to estimate the thermal diffusivity of a solid. The proposed method is experimentally verified for BK7 glass samples and the measured results are found to match closely with the reported value.

Influencia de la fertilización nitrogenada y densidad de siembra en el rendimiento agronómico e industrial de tomate (Lycopersicum esculentum Mill) variedades UC-82 y topacio en el Valle de Sébaco, Matagalpa

El presente estudio se realizó en la Estación Experimental " Raúl González" del Valle de Sebaco en el período del 5 de junio al 16 de septiembre de 1992. Se evaluaron las variedades, UC-82 y Topacio, las densidades de siembra de 27,777 y 50,000 plantas/ha y cuatro niveles de nitrógeno, O Kg/ha, 75 Kg/ha, 150 Kg/ha y 225 Kg/ha. Se desarrolló el estudio con tres factores y se estableció un diseño de Bloques Completos al Azar, evaluándose los parámetros de crecimiento del cultivo, así como, lo relacionado al rendimiento agronómico e industrial. Los datos obtenidos se sometieron al análisis de varianza y a la prueba de SNK al 5%, Los resultados en cuanto a crecimiento y desarrollo fueron los siguientes: La mayor altura la presentó la variedad UC-82 en combinación con la densidad de 50,OOO plantas/ha y con la aplicación de 75 Kg/ha de Nitrógeno; e1 mayor número de hijos se obtuvo con la misma variedad y densidad y la aplicación de 225 Kg/ha de Nitrógeno. En cuanto a floración y fructificación los mejores resultados se alcanzaron con la variedad UC-82, la densidad de 27,111 plantas/ha y con 75 Kg/ha de Nitrógeno. Respecto al rendimiento agronómico, el mejor tratamiento fue la variedad uc-82, con la densidad de 50,000 plantas/ha y una aplicación de 75 Kg/ha de Nitrógeno. En el rendimiento industrial la variedad Topacio, con la densidad de 50,000 plantas/ha y 225 Kg/ha de Nitrógeno reporta los mejores resultados.

Utilización de "microorganismos efectivos" en el manejo de insectos-plagas del cultivo del tomate (Lycopersicum esculentum Mill) variedad UC-82 en el Valle de Sébaco, Matagalpa

El trabajo se realizó de Octubre de 1996 a Marzo de 1997, en la Estación Experimental "Raúl González" del valle de Sébaco, Matagalpa. Se evaluó la utilización de "Microorganismos Efectivos" en el manejo de insectos-plagas y enfermedades en el cultivo del tomate (Lycopersicum esculentum Mili), variedad UC-82. Los tratamientos utilizados fueron: Tratamiento 1, Productos Químicos; Tratamiento 2, Neem (Azadirachta indica); Tratamiento 3, EM-5B (extracto de hierbas y microorganismos); Tratamiento 4, EM-5 (microorganismos); Tratamiento 5, Testigo absoluto (sin ningún tipo de aplicación). En la etapa de semillero los tratamientos EM-5 y EM-5B mostraron un efecto reductor sobre las poblaciones de mosca blanca (Bemisia tabaci Genn). Después del trasplante la mayor densidad de mosca blanca se observó en el tratamiento a base de productos químicos. El mayor porcentaje de poblaciones de Lyriomiza spp. lo obtuvieron los tratamientos químicos y EM-5. En cuanto al porcentaje de población de Diabrotica spp. no se presentaron diferencias significativas a lo largo del experimento. Referente al daño causado por Heliothis spp. se observó a los 77 DDT (días después del trasplante), los tratamientos en los que menos daños se presentaron fueron neem y químico. Sin embargo estos mismos tratamientos mostraron mayor incidencia de virosis a los 42 DDT, asi mismo no se observó diferencias estadísticas. La mayor altura la presentó el tratamiento EM-5B y el mayor número de hijos lo obtuvo el tratamiento químico y EM-5. También se presentaron resultados positivos entre los caracteres grosor del mesocarpio y diámetro polar y ecuatorial obteniendo los mejores resultados EM- 5 y EM-5B. En cuanto al rendimiento comercial de producción el tratamiento que dio valores más aceptables fue el de Neem con 26,974 Kg/Ha de frutos comercializables con rendimiento total 27,979 Kg/Ha; haciendo la salvedad que este tratamiento fue fertilizado con el biofertilizante EM-Bokashi

Influencia de dos cultivos antecesores y control de malezas sobre la cenosis y el crecimiento, desarrollo y rendimiento del tomate (Lycopersicon esculentum L.) c.v UC-82

El ensayo se realizó a partir de Diciembre de 1989 hasta Abril de 1990, en la Cooperativa "Rubén Duarte", Managua, con el obJetivo de "Determinar la influencia de diferentes cultivos antecesores y métodos de control de malezas sobre el crecimiento. desarrollo y rendimiento en el cultivo del tomate". El experimente se estableció en un diseño de Bloques Completos al azar en parcelas divididas con cuatro repeticiones por tratamientos en estudio. Los resultados indican que la mayor abundancia total de malezas se presentó cuando el cultivo antecesor fue el fríjol, reportandose la menor abundancia total en el control mecánico. El mayor peso seco total de malezas se presentó cuando antecedió el cultivo del frijol siendo mayores en las Poáceas y Dicotiledóneas, en el control con Metribuzin fueron las Poáceas y en el control con FluazHop las Dicotiledóneas. En cuanto a la diversidad se reportó que para ambos cultivos antecesores existió alta diversidad, los métodos de control reportaron alta diversidad al comienzo del ciclo disminuyendo al final del ciclo a excepción del control con FluazHop el cual presentó igual diversidad tanto al inicio como al final del ciclo. Con respecto al comportamiento general de las variables de crecimiento y componentes del rendimiento podemos decir que fue similar, presentando llgeramente diferencias la rotación del frijol - tomate y el control mecánico con azadon.