Development of a mungbean (Vigna radiata) RFLP linkage map and its comparison with lablab (Lablab purpureus) revelas a high level of colinearity between the two genomes

A genetic linkage map of mungbean (Vigna radiata, 2n = 2x = 22) consisting of 255 RFLP loci was developed using a recombinant inbred population of 80 individuals. The population was derived from an intersubspecific cross between the cultivated mungbean variety 'Berken' and a wild mungbean genotype 'ACC 41' (V radiata subsp. sublobata). The total length of the map, which comprised 13 linkage groups, spanned 737.9 cM with an average distance between markers of 3.0 cM and a maximum distance between linked markers of 15.4 cM. The mungbean map was compared to a previously published map of lablab (Lablab purpureus, 2n = 2x = 24) using a common set of 65 RFLP probes. In contrast to some other comparative mapping studies among members of the Fabaceae, where a high level of chromosomal rearrangement has been observed, marker order between mungbean and lablab was found to be highly conserved. However, the two genomes have apparently accumulated a large number of duplications/deletions after they diverged.

Multiple axon guidance cues establish the olfactory topographic map: how do these cues interact?

Each primary olfactory neuron stochastically expresses one of similar to1000 odorant receptors. The total population of these neurons therefore consists of similar to1,000 distinct subpopulations, each of which are mosaically dispersed throughout one of four semi-annular zones in the nasal cavity. The axons of these different subpopulations are initially intermingled within the olfactory nerve. However, upon reaching the olfactory bulb, they sort out and converge so that axons expressing the same odorant receptor typically target one or two glomeruli. The spatial location of each of these 1800 glomeruli are topographically-fixed in the olfactory bulb and are invariant from animal to animal. Thus, while odorant receptors are expressed mosaically by neurons throughout the olfactory neuroepithelium their axons sort out, converge and target the same glomerulus within the olfactory bulb. How is such precise and reproducible topographic targeting generated? While some of the mechanisms governing the growth cone guidance of olfactory sensory neurons are understood, the cues responsible for homing axons to their target site remain elusive.

The paternity of the price-quality 'value map'

In the literature on firm strategy and product differentiation, consumer price-quality trade-offs are sometimes represented using consumer 'value maps'. These involve the geometric representation of indifferent price and quality combinations as points along curves that are concave to the 'quality' axis. In this paper, it is shown that the value map for price-quality tradeoffs may be derived from a Hicksian compensated demand curve for product quality. The paper provides the theoretical link between analytical methods employed in the existing literature on firm strategy and competitive advantage with the broader body of economic analysis.

Epitope map for a growth hormone receptor agonist monoclonal antibody, MAb 263

Monoclonal antibody (MAb) 263 is a widely used monoclonal antibody that recognizes the extracellular domain (ECD) of the GH receptor. It has been shown to act as a GH agonist both in vitro and in vivo, and we report here that it must be divalent to exert its effect on the full-length receptor. To understand the mechanism of its agonist action, we have determined the precise epitope for this antibody using a novel random PCR mutagenesis approach together with expression screening in yeast. A library of 5200 clones of rabbit GH receptor ECD mutants were screened both with MAb 263 and with an anticarboxy-tag antibody to verify complete ECD expression. Sequencing for clones that expressed complete ECD but were not MAb 263 positive identified 20 epitope residues distributed in a discontinuous manner throughout the ECD. The major part of the epitope, as revealed after mapping onto the crystal structure model of the ECD molecule, was located on the side and upper portion of domain 1, particularly within the D - E strand disulfide loop 79 - 96. Molecular dynamics docking of an antibody of the same isotype as MAb 263 was used to dock the bivalent antibody to the 1528-Angstrom(2) epitope and to visualize the likely consequences of MAb binding. The minimized model enables the antibody to grasp two receptors in a pincer-like movement from opposite sides, facilitating alignment of the receptor dimerization domains in a manner similar to, but not identical with, GH.

A genetic map of macadamia based on randomly amplified DNA fingerprinting (RAF) markers

The first genetic linkage map of macadamia (Macadamia integrifolia and M. tetraphylla) is presented. The map is based on 56 F-1 progeny of cultivars 'Keauhou' and 'A16'. Eighty-four percent of the 382 markers analysed segregated as Mendelian loci. The two-way pseudo-testcross mapping strategy allowed construction of separate parental cultivar maps. Ninety bridging loci enabled merging of these maps to produce a detailed genetic map of macadamia, 1100 cM in length and spanning 70-80% of the genome. The combined map comprised 24 linkage groups with 265 framework markers: 259 markers from randomly amplified DNA fingerprinting (RAF), five random amplified polymorphic DNA (RAPD), and one sequence-tagged microsatellite site (STMS). The RAF marker system unexpectedly revealed 16 codominant markers, one of them a putative microsatellite locus and exhibiting four distinct alleles in the cross. This molecular study is the most comprehensive examination to date of genetic loci of macadamia, and is a major step towards developing marker-assisted selection for this crop.

Variabilidade espacial do estado nutricional do cafeeiro conilon utilizando índice DRIS

A combinação da agricultura de precisão e do Sistema Integrado de Recomendação Foliar (DRIS) possibilita monitorar espacialmente o balanço nutricional dos cafezais para fornecer recomendações de adubação mais equilibradas e mais ajustadas economicamente. O objetivo deste trabalho foi avaliar a variabilidade espacial do estado nutricional do cafeeiro conilon, utilizando o Índice de Balanço Nutricional (IBN) e sua relação com a produtividade. A produtividade das plantas em cada ponto amostral foi determinada e construiu-se o seu mapa considerando a variabilidade espacial; determinou-se o Índice de Equilíbrio Nutricional (IBN) das plantas em cada ponto amostral e construiu-se o seu mapa; e utilizou-se a análise de componentes principais (ACP) para estimar o IBN do cafeeiro por cokrigagem. Os dados do cafeeiro conilon foram coletados em fazenda experimental, no município de Cachoeiro de Itapemirim-ES. O IBN do cafeeiro e a sua produtividade foram analisados por meio de geoestatística, com base nos modelos e parâmetros dos semivariogramas, utilizando o método de interpolação krigagem ordinária para estimar valores para locais não amostrados. O índice de Balanço Nutricional da lavoura do cafeeiro conilon apresentou dependência espacial, porém não apresentou correlação linear e nem espacial com a produtividade. A lavoura em estudo se encontra em desequilíbrio nutricional, sendo que entre os macronutrientes, o Potássio foi o que apresentou maior desequilíbrio na área, entre os micronutrientes, o Zinco e o Ferro foram os que apresentaram menores concentrações nas folhas. A confecção dos mapas possibilitou a distinção de regiões com maior e menor desequilíbrio nutricional e produtividade, o que possibilita adotar o manejo de forma diferenciada e localizada. A análise multivariada baseada em componentes principais fornece componentes com alta correlação com as variáveis originais P, Ca, Zn , Cu, K e B. A cokrigagem utilizando as componentes principais permite estimar o IBN e a produtividade da área.

Variabilidade espacial e temporal de atributos químicos do solo em povoamento de eucalipto

Nos anos mais recentes, observa-se aumento na adoção das técnicas de silvicultura de precisão em florestas plantadas no Brasil. Os plantios de eucalipto ocorrem preferencialmente em áreas com baixa fertilidade de solo e consequentemente baixa produtividade. Logo, para otimizar ao máximo a produção, é necessário saber o quanto essa cultura pode produzir em cada local (sítio). Objetivou-se aplicar uma metodologia que utiliza técnicas de estatística, geoestatística e geoprocessamento, no mapeamento da variabilidade espacial e temporal de atributos químicos do solo cultivado com eucalipto, em área de 10,09 ha, situada no sul do estado do Espírito Santo. Os atributos químicos da fertilidade do solo estudados foram: fósforo (P), potássio (K), cálcio (Ca) e magnésio (Mg), no ano da implantação do povoamento do eucalipto, em 2008, e três anos após, em 2011. O solo foi amostrado em duas profundidades, 0-0,2 m e 0,2-0,4 m, nos 94 pontos de uma malha regular, com extensão de 33 x 33 m. Os dados foram analisados pela estatística descritiva e, em seguida, pela geoestatística, por meio do ajuste de semivariogramas. Diferentes métodos de interpolação foram testados para produzir mapas temáticos mais precisos e facilitar as operações algébricas utilizadas. Com o auxílio de índices quantitativos, realizou-se uma análise geral da fertilidade do solo, por meio da álgebra de mapas. A metodologia utilizada neste estudo possibilitou mapear a variabilidade espacial e temporal de atributos químicos do solo. A análise variográfica mostrou que todos os atributos estudados apresentaram-se estruturados espacialmente, exceto para o atributo P, no Ano Zero (camada 0-0,2 m) e no Ano Três (ambas as camadas). Os melhores métodos de interpolação para o mapeamento de cada atributo químico do solo foram identificados com a ajuda gráfica do Diagrama de Taylor. Mereceram destaque, os modelos esférico e exponencial nas interpolações para a maioria dos atributos químicos do solo avaliados. Apesar de a variação espacial e temporal dos atributos estudados apresentar-se, em média, com pequena variação negativa, a metodologia usada mostrou variações positivas na fertilidade do solo em várias partes da área de estudo. Além disso, os resultados demonstram que os efeitos observados são majoritariamente em função da cultura, uma vez que não foram coletadas amostras de solo em locais adubados. A produtividade do sítio florestal apresentou-se com tendências semelhantes às variações ocorridas na fertilidade do solo, exceto para o magnésio, que se mostrou com tendências espaciais para suporte de elevadas produtividades, de até 50 m3 ha-1 ano-1. Além de mostrar claramente as tendências observadas para as variações na fertilidade do solo, a metodologia utilizada confirma um caminho operacional acessível para empresas e produtores florestais para o manejo nutricional em florestas plantadas. O uso dos mapas facilita a mobilização de recursos para melhorar a aplicação de fertilizantes e corretivos necessários.

Building a bicycle suitability map for Coimbra

The adoption of faster modes of transportation (mainly the private car) has changed profoundly the spatial organisation of cities. The increase in distance covered due to increased speed of travel and to urban sprawl leads to an increase in energy consumption, being the transportation sector a huge consumer responsible for 61.5% of total world oil consumption and a global final energy consumption of 31.6% in EU-27 (2007). Due to unsustainable transportation conditions, many cities suffer from congestion and various other traffic problems. Such situations get worse with solutions mostly seen in the development of new infrastructure for motorized modes of transportation, and construction of car parking structures. The bicycle, considered the most efficient among all modes of transportation including walking, is a travel mode that can be adopted in most cities contributing for urban sustainability given the associated environmental, economic and social advantages. In many nations a large number of policy initiatives have focused on discouraging the use of private cars, encouraging the use of sustainable modes of transportation, like public transportation and other forms such as bicycling. Given the importance of developing initiatives that favour the use of bicycle as an urban transportation mode, an analysis of city suitability, including distances and slopes of street network, is crucial in order to help decision-makers to plan the city for bicycle. In this research Geographical Information Systems (GIS) technology was used for this purpose and some results are presented concerning the city of Coimbra.

Compression Efficiency Analysis of Wyner-Ziv Video Coding with Motion Compensated Side Information Interpolation

The Wyner-Ziv video coding (WZVC) rate distortion performance is highly dependent on the quality of the side information, an estimation of the original frame, created at the decoder. This paper, characterizes the WZVC efficiency when motion compensated frame interpolation (MCFI) techniques are used to generate the side information, a difficult problem in WZVC especially because the decoder only has available some reference decoded frames. The proposed WZVC compression efficiency rate model relates the power spectral of the estimation error to the accuracy of the MCFI motion field. Then, some interesting conclusions may be derived related to the impact of the motion field smoothness and the correlation to the true motion trajectories on the compression performance.

Image upsampling algorithms applied on Nuclear Medicine: comparision of hqnx and nxSaI algorithms families with two interpolation algorithms - nearest neighbour and bicubic interpolation

Introduction: Image resizing is a normal feature incorporated into the Nuclear Medicine digital imaging. Upsampling is done by manufacturers to adequately fit more the acquired images on the display screen and it is applied when there is a need to increase - or decrease - the total number of pixels. This paper pretends to compare the “hqnx” and the “nxSaI” magnification algorithms with two interpolation algorithms – “nearest neighbor” and “bicubic interpolation” – in the image upsampling operations. Material and Methods: Three distinct Nuclear Medicine images were enlarged 2 and 4 times with the different digital image resizing algorithms (nearest neighbor, bicubic interpolation nxSaI and hqnx). To evaluate the pixel’s changes between the different output images, 3D whole image plot profiles and surface plots were used as an addition to the visual approach in the 4x upsampled images. Results: In the 2x enlarged images the visual differences were not so noteworthy. Although, it was clearly noticed that bicubic interpolation presented the best results. In the 4x enlarged images the differences were significant, with the bicubic interpolated images presenting the best results. Hqnx resized images presented better quality than 4xSaI and nearest neighbor interpolated images, however, its intense “halo effect” affects greatly the definition and boundaries of the image contents. Conclusion: The hqnx and the nxSaI algorithms were designed for images with clear edges and so its use in Nuclear Medicine images is obviously inadequate. Bicubic interpolation seems, from the algorithms studied, the most suitable and its each day wider applications seem to show it, being assumed as a multi-image type efficient algorithm.

Harvesting dynamic aspects from a real rational map : the bulb of period 5

This journal provides immediate open access to its content on the principle that making research freely available to the public supports a greater global exchange of knowledge.

Aedes aegypti entomological indices in an endemic area for dengue in Sao Paulo State, Brazil

OBJECTIVE: To evaluate the most productive types of properties and containers for Aedes aegypti and the spatial distribution of entomological indices.METHODS: Between December 2006 and February 2007, the vector's immature forms were collected to obtain entomological indices in 9,875 properties in the Jaguare neighborhood of Sao Jose do Rio Preto, SP, Southeastern Brazil. In March and April 2007, a questionnaire about the conditions and characteristics of properties was administered. Logistic regression was used to identify variables associated with the presence of pupae at the properties. Indices calculated per block were combined with a geo-referenced map, and thematic maps of these indices were obtained using statistical interpolation.RESULTS: The properties inspected had the following Ae. aegypti indices: Breteau Index = 18.9, 3.7 larvae and 0.42 pupae per property, 5.2 containers harboring Ae. aegypti per hectare, 100.0 larvae and 11.6 pupae per hectare, and 1.3 larvae and 0.15 pupae per inhabitant. The presence of yards, gardens and animals was associated with the presence of pupae.CONCLUSIONS: Specific types of properties and containers that simultaneously had low frequencies among those positive for the vector and high participation in the productivity of larvae and pupae were not identified. The use of indices including larval and pupal counts does not provide further information beyond that obtained from the traditional Stegomyia indices in locations with characteristics similar to those of São José do Rio Preto. The indices calculated per area were found to be more accurate for the spatial assessment of infestation. The Ae. aegypti infestation levels exhibited extensive spatial variation, indicating that the assessment of infestation in micro areas is needed.

Using a prioritized medium access control protocol for incrementally obtaining an interpolation of sensor readings

This paper addresses sensor network applications which need to obtain an accurate image of physical phenomena and do so with a high sampling rate in both time and space. We present a fast and scalable approach for obtaining an approximate representation of all sensor readings at high sampling rate for quickly reacting to critical events in a physical environment. This approach is an improvement on previous work in that after the new approach has undergone a startup phase then the new approach can use a very small sampling period.

Spatial operators for collaborative map handling

MSC Dissertation in Computer Engineering