Evidence of recombination in putative ancient asexuals.

Ancient asexuals have been considered to be a contradiction of the basic tenets of evolutionary theory. Barred from rearranging genetic variation by recombination, their reduced number of gene arrangements is thought to hamper their response to changing environments. For the same reason, it should be difficult for them to avoid the build-up of deleterious mutations. Several groups of taxonomically diverse organisms are thought to be ancient asexuals, although clear evidence for or against the existence of recombination events is scarce. Several methods have recently been developed for predicting recombination events by analyzing aligned sequences of a given region of DNA that all originate from one species. The methods are based on phylogenetic, substitution, and compatibility analyses. Here we present the results of analyses of sequence data from different loci studied in several groups of evolutionarily distant species that are considered to be ancient asexuals, using seven different types of analysis. The groups of organisms were the arbuscular mycorrhizal fungi (Glomales), Darwinula stevensoni (Darwinuloidea crustacean ostracods) and the bdelloid rotifers (Bdelloidea), which are thought to have been asexual for the last 400, 25-100, and 35-40 Myr, respectively. The seven different analytical methods evaluated the evolutionary relationships among haplotypes, and these methods had previously been shown to be reliable for predicting the occurrence of recombination events. Despite the different degree of genetic variation among the different groups of organisms, at least some evidence for recombination was found in all species groups. In particular, predictions of recombination events in the arbuscular mycorrhizal fungi were frequent. Predictions of recombination were also found for sequence data that have previously been used to infer the absence of recombination in bdelloid rotifers. Although our results have to be taken with some caution because they could signal very ancient recombination events or possibly other genetic variation of nonrecombinant origin, they suggest that some cryptic recombination events may exist in these organisms.

The Application of 3D Reconstruction Techniques in the Analysis of Ancient Tarraco’s Urban Topography

The widespread implementation of GIS-based 3D topographical models has been a great aid in the development and testing of archaeological hypotheses. In this paper, a topographical reconstruction of the ancient city of Tarraco, the Roman capital of the Tarraconensis province, is presented. This model is based on topographical data obtained through archaeological excavations, old photographic documentation, georeferenced archive maps depicting the pre-modern city topography, modern detailed topographical maps and differential GPS measurements. The addition of the Roman urban architectural features to the model offers the possibility to test hypotheses concerning the ideological background manifested in the city shape. This is accomplished mainly through the use of 3D views from the main city accesses. These techniques ultimately demonstrate the ‘theatre-shaped’ layout of the city (to quote Vitrubius) as well as its southwest oriented architecture, whose monumental character was conceived to present a striking aspect to visitors, particularly those arriving from the sea.

IX ASMOSIA International Conference Interdisciplinary Studies on Ancient Stone: Tarragona, 8-13th June 2009 (Book of abstracts)

Aquesta obra recull els resums de les comunicacions orals i pòsters que es van presentar durant el IX Congrés Internacional de l’Association for the Study of Marbles and Other Stones in Antiquity (ASMOSIA), organitzat per l’ICAC en el marc del programa de recerca HAR2008-04600/HIST, amb el suport del programa d’Ajuts ARCS 2008 (referència expedient IR036826) de la Generalitat de Catalunya i del Ministeri de Ciència i Innovació (Accions Complementàries HAR2008-03181-E/HIST), i celebrat a Tarragona entre el 8 i el 13 de juny del 2009.

Desenvolvimento do fruto da lichieira (Litchi chinensis Sonn.) 'Bengal'

Estudou-se o desenvolvimento do fruto da lichieira (Litchi chinensis Sonn.) 'Bengal'. Realizaram-se amostragens semanais, com início aos 35 dias após a antese e término no início da senescência dos frutos. A partir do 77º dia após a antese, os frutos foram decompostos em pericarpo, semente e arilo. A antese ocorreu na primeira semana de setembro. Foram ajustados modelos sigmoidais simples para acúmulo de matéria seca, comprimento e diâmetro. Para o acúmulo de matéria seca, uma fase inicial, de crescimento lento, prolongou-se até o 63º dia após a antese e coincidiu com um período de intensa queda natural de frutos. Do 63º ao 98º dia após a antese, houve uma fase de rápido acúmulo de matéria seca. Até o 77º dia, pericarpo e semente foram os principais responsáveis pelo acúmulo de matéria seca. Oitenta e oito por cento do comprimento e 65% do diâmetro máximos foram atingidos nesse período. Do 84º ao 98º dia após a antese, o desenvolvimento do fruto foi determinado basicamente pelo arilo. As dimensões e a matéria seca do fruto estabilizaram-se a partir do 98º dia após a antese. O ponto de colheita comercial dos frutos, caracterizado pela coloração avermelhada do pericarpo, ocorreu a partir do 112º dia após a antese. Verificou-se um quadro senescente nos frutos a partir do 119º dia após a antese.

Raleio de frutos em lichieira 'Bengal'

Originária da região sudeste da China, a lichieira tem apresentado significativo crescimento em área cultivada nos últimos anos devido aos excelentes sabor e aroma dos frutos. Porém, alternâncias de produção, associadas ao baixo vingamento de frutos, são problemas importantes da cultura. O raleio de frutos pode contribuir para a redução da alternância de produção e aumentar o percentual de frutos comercializáveis e de melhor qualidade, através do ganho em tamanho. Objetivou-se, neste trabalho, avaliar o efeito do raleio de frutos em lichieira 'Bengal' para as condições de cultivo em Viçosa, Minas Gerais. O experimento foi conduzido no delineamento experimental em blocos casualizados, com 5 tratamentos e 7 repetições, sendo cada planta uma repetição. Os tratamentos consistiram em diferentes intensidades de raleio manual representados pelo número de frutos deixados nas panículas do ramo terminal, sendo: T1: 3 frutos/ramo; T2: 6 frutos/ramo; T3: 9 frutos/ramo; T4: 12 frutos/ramo; T5: sem raleio (controle). Analisaramse o comprimento longitudinal e equatorial dos frutos (cm), a massa de fruto (g); a massa da casca, polpa e semente (g); o teor de sólidos solúveis totais (ºBrix); a acidez titulável da polpa (% ácido málico); a percentagem de matéria seca da polpa, casca e semente (%) e a percentagem de queda natural (%). Observou-se efeito do raleio somente para as variáveis teor de sólidos solúveis totais, percentagem de queda natural e massa de matéria seca da casca, não se justificando o raleio em frutos de lichieira.

Ancient Bronze Horse Muzzles of the Iberian Peninsula

[spa]Los bozales y las muserolas en bronce para caballo constituyen unos excepcionales complementos ecuestres cuyo conocimiento se encuentra disperso en una extensa bibliografía. De muchos ejemplares apenas se ha publicado una breve descripción y nunca hasta el presente han sido objeto de un estudio monográfico, quizás por el desaliento que produce el desconocimiento de su procedencia en unos casos, o la superficial noticia del contexto de aparición en la mayoría de ellos, hecho que ha limitado las consideraciones cronológicas y de asociación. La identificación de nuevos ejemplares inéditos en los museos de Barcelona y Lleida ha animado a los autores a emprender un trabajo que por primera vez reúne y revisa los ejemplares conocidos de la Península Ibérica, para los que se propone una descripción normalizada, una clasificación tipológica y, en determinadas piezas, una sustancial revisión de las escenas decorativas y cronologías comúnmente admitidas. La seriación formal y la propuesta de datación implican la referencia de los ejemlares aparecidos en Grecia e Italia. Esa ampliación espacial conduce a replantear los agentes sociales que pueden estar detrás de la propagación de ese complemento ecuestre hasta la peninsua más occidental del Mediterráneo. [eng] Horse muzzles and Bronze muzzles are unique equestrian tools that have been referred to in scattered accounts throughout history. Nevertheless, the majority of these objects have received short descriptions and an overall study is still missing. The lack of a comprehensive study hinges on the over looked importance of these items and the superficial manner that have characterized their documentation. Both these reasons have limited observations on chronology and archaeological investigation. The recent identification of new unpublished exemplars among the Museums" collections in Barcelona and Lleida has encouraged the authors of this paper to start a new study dedicated to these objects. Starting from a catalogue inclusive of all muzzles and muzzles currently known in the Iberian Peninsula, an attempt will be made to propose an accurate description, typological classification and, for some of the items, a revision of the decorative scenes that have marked their place in bronze horse muzzle and muzzle chronology. The formal development and the chronological framework here proposed refer to those of the exemplars found in Greece and in Italy. The broadening of the geographical area will allow reconsideration of those social phenomena that have in the past determined the diffusion of elements in horse tack throughout most of the western Peninsula in the Mediterranean.

Uso de tratamento hidrotérmico e ácido clorídrico na qualidade de lichia 'Bengal'

Um dos maiores problemas na pós-colheita da lichia é o escurecimento do pericarpo, cuja cor vermelha se torna totalmente escurecida em 48 horas, sob 25 ºC. Tecnologias que possam controlar o escurecimento do pericarpo são valiosas, e é o foco principal da pesquisa na área de pós-colheita. O objetivo deste trabalho foi avaliar a vida útil de lichias 'Bengal', armazenadas a 20 ºC e 82 %UR após o tratamento hidrotérmico e/ou imersão em solução de HCl. O delineamento experimental foi o inteiramente casualizado, em esquema fatorial 4 x 7, com 3 repetições, onde o primeiro fator correspondeu aos tratamentos: testemunha; imersão em HCl a 1%, por 6 minutos; tratamento hidrotérmico, com imersão em água a 52 ºC por 1 minuto, seguido de resfriamento em água a 10 ºC, por 6 minutos; e tratamento hidrotérmico, seguido de resfriamento em HCl a 1%, a 10 ºC, por 6 minutos. O segundo fator foram os períodos de armazenamento: 0; 1; 2; 3;6; 9 e 12 dias. A combinação entre tratamento hidrotérmico (52 ºC por 1 minuto) e resfriamento em HCl a 1% permite conservar a coloração das lichias 'Bengal' por até dois dias. Mesmo assim há escurecimento em 25% da superfície.

The UlaG protein familly defines novel structural and functional motifs grafted on an ancient RNase fold

Background: Bacterial populations are highly successful at colonizing new habitats and adapting to changing environmental conditions, partly due to their capacity to evolve novel virulence and metabolic pathways in response to stress conditions and to shuffle them by horizontal gene transfer (HGT). A common theme in the evolution of new functions consists of gene duplication followed by functional divergence. UlaG, a unique manganese-dependent metallo-b-lactamase (MBL) enzyme involved in L-ascorbate metabolism by commensal and symbiotic enterobacteria, provides a model for the study of the emergence of new catalytic activities from the modification of an ancient fold. Furthermore, UlaG is the founding member of the so-called UlaG-like (UlaGL) protein family, a recently established and poorly characterized family comprising divalent (and perhaps trivalent)metal-binding MBLs that catalyze transformations on phosphorylated sugars and nucleotides. Results: Here we combined protein structure-guided and sequence-only molecular phylogenetic analyses to dissect the molecular evolution of UlaG and to study its phylogenomic distribution, its relatedness with present-day UlaGL protein sequences and functional conservation. Phylogenetic analyses indicate that UlaGL sequences are present in Bacteria and Archaea, with bona fide orthologs found mainly in mammalian and plant-associated Gramnegative and Gram-positive bacteria. The incongruence between the UlaGL tree and known species trees indicates exchange by HGT and suggests that the UlaGL-encoding genes provided a growth advantage under changing conditions. Our search for more distantly related protein sequences aided by structural homology has uncovered that UlaGL sequences have a common evolutionary origin with present-day RNA processing and metabolizing MBL enzymes widespread in Bacteria, Archaea, and Eukarya. This observation suggests an ancient origin for the UlaGL family within the broader trunk of the MBL superfamily by duplication, neofunctionalization and fixation. Conclusions: Our results suggest that the forerunner of UlaG was present as an RNA metabolizing enzyme in the last common ancestor, and that the modern descendants of that ancestral gene have a wide phylogenetic distribution and functional roles. We propose that the UlaGL family evolved new metabolic roles among bacterial and possibly archeal phyla in the setting of a close association with metazoans, such as in the mammalian gastrointestinal tract or in animal and plant pathogens, as well as in environmental settings. Accordingly, the major evolutionary forces shaping the UlaGL family include vertical inheritance and lineage-specific duplication and acquisition of novel metabolic functions, followed by HGT and numerous lineage-specific gene loss events.

Electrical signature of modern and ancient tectonic processes in the crust of the Atlas mountains of Morocco.

The Atlas Mountains in Morocco are considered as type examples of intracontinental chains, with high topography that contrasts with moderate crustal shortening and thickening. Whereas recent geological studies and geodynamic modeling have suggested the existence of dynamic topography to explain this apparent contradiction, there is a lack of modern geophysical data at the crustal scale to corroborate this hypothesis. Newly-acquired magnetotelluric data image the electrical resistivity distribution of the crust from the Middle Atlas to the Anti-Atlas, crossing the tabular Moulouya Plain and the High Atlas. All the units show different and unique electrical signatures throughout the crust reflecting the tectonic history of development of each one. In the upper crust electrical resistivity values may be associated to sediment sequences in the Moulouya and Anti-Atlas and to crustal scale fault systems in the High Atlas developed during the Cenozoic times. In the lower crust the low resistivity anomaly found below the Mouluya plain, together with other geophysical (low velocity anomaly, lack of earthquakes and minimum Bouguer anomaly) and geochemical (Neogene-Quaternary intraplate alkaline volcanic fields) evidence, infer the existence of a small degree of partial melt at the base of the lower crust. The low resistivity anomaly found below the Anti-Atlas may be associated with a relict subduction of Precambrian oceanic sediments, or to precipitated minerals during the release of fluids from the mantle during the accretion of the Anti-Atlas to the West African Supercontinent during the Panafrican orogeny ca. 685 Ma).

Ácido cítrico e quitosana na conservação de lichias 'Bengal'

Este trabalho teve como objetivo avaliar a aplicação de ácido cítrico em duas concentrações, associadas ou não à quitosana, na manutenção da qualidade de lichias 'Bengal'. Após a colheita e seleção, os frutos no estádio de maturação maduro foram imersos por 1 minuto nas seguintes soluções de ácido cítrico e de quitosana: [1] Testemunha - sem imersão; [2] ácido cítrico a 300 g L-1; [3] ácido cítrico a 300 g L-1 + 0,3% quitosana; [4] ácido cítrico a 300 g L-1 + 0,6% quitosana; [5] ácido cítrico a 600 g L-1; [6] ácido cítrico a 600 g L-1 + 0,3% quitosana; [7] ácido cítrico a 600 g L-1 + 0,6% quitosana. Após a imersão, os frutos foram colocados em gôndolas para escorrer o excesso de solução. Em seguida, foram armazenados em câmara fria, previamente higienizada, a 5ºC, durante 20 dias. O experimento foi conduzido seguindo um delineamento inteiramente casualizado, num esquema fatorial composto por sete soluções de recobrimento e cinco datas de amostragem. A cada cinco dias, foi avaliada a perda de massa fresca dos frutos, a coloração, o teor de antocianinas e a atividade das enzimas polifenoloxidase e peroxidase da casca. A solução de ácido cítrico a 600 g L-1, associada ou não à quitosana, e a combinação de quitosana 0,3% com 300 g L-1 de ácido cítrico foram as mais eficientes para a manutenção da cor avermelhada e a redução do escurecimento da casca de lichias 'Bengal' por 20 dias, a 5ºC.

Back to Gondwanaland: can ancient vicariance explain (some) Indian Ocean disjunct plant distributions?

Oceans, or other wide expanses of inhospitable environment, interrupt present day distributions of many plant groups. Using molecular dating techniques, generally incorporating fossil evidence, we can estimate when such distributions originated. Numerous dating analyses have recently precipitated a paradigm shift in the general explanations for the phenomenon, away from older geological causes, such as continental drift, in favour of more recent, long-distance dispersal (LDD). For example, the 'Gondwanan vicariance' scenario has been dismissed in various studies of Indian Ocean disjunct distributions. We used the gentian tribe Exaceae to reassess this scenario using molecular dating with minimum (fossil), maximum (geological), secondary (from wider analyses) and hypothesis-driven age constraints. Our results indicate that ancient vicariance cannot be ruled out as an explanation for the early origins of Exaceae across Africa, Madagascar and the Indian subcontinent unless a strong assumption is made about the maximum age of Gentianales. However, both the Gondwanan scenario and the available evidence suggest that there were also several, more recent, intercontinental dispersals during the diversification of the group.

Allelic diversity and population structure in Vibrio cholerae O139 Bengal based on nucleotide sequence analysis

Comparative analysis of gene fragments of six housekeeping loci, distributed around the two chromosomes of Vibrio cholerae, has been carried out for a collection of 29 V. cholerae O139 Bengal strains isolated from India during the first epidemic period (1992 to 1993). A toxigenic O1 ElTor strain from the seventh pandemic and an environmental non-O1/non-O139 strain were also included in this study. All loci studied were polymorphic, with a small number of polymorphic sites in the sequenced fragments. The genetic diversity determined for our O139 population is concordant with a previous multilocus enzyme electrophoresis study in which we analyzed the same V. cholerae O139 strains. In both studies we have found a higher genetic diversity than reported previously in other molecular studies. The results of the present work showed that O139 strains clustered in several lineages of the dendrogram generated from the matrix of allelic mismatches between the different genotypes, a finding which does not support the hypothesis previously reported that the O139 serogroup is a unique clone. The statistical analysis performed in the V. cholerae O139 isolates suggested a clonal population structure. Moreover, the application of the Sawyer's test and split decomposition to detect intragenic recombination in the sequenced gene fragments did not indicate the existence of recombination in our O139 population.

Topworking of 'Bengal' lychee trees in the state of São Paulo, Brazil

This study aimed to evaluate the performance of 'Feizixiao', 'Nuomici', 'Heiye', 'Kway May Pink' and 'Bengal' lychee cultivars topworked onto bearing 'Bengal' trees. The experiments were carried out in commercial orchard at Rio das Pedras Farm in Jundiaí, state of São Paulo. The experimental design consisted of randomized blocks in a subdivided parcel arrangement, in which the parcel consisted of five cultivars and the sub-parcel consisted of six evaluation periods. Five replicates of three plants per parcel and six grafts per plant, (with two grafts per main branch) were used. The trees were approximately 10 years old propagated by air layering and planted with 6 x 4 m (416 plants/ha) spacing. The following characteristics were evaluated: success rate of the grafts, number of shoots, shoot length, number of nodes, number of leaves and chlorophyll content (SPAD). The control ('Bengal'/'Bengal') had the highest grafting success rate with 89.9%. On the other hand, 'Heiye', 'Feizixião', 'Nuomici' and 'Kway May Pink' had, respectively, 60.6, 55.0, 52.6 and 47.0% grafting success rates. All of the shoot grafts had normal growth with no signs of incompatibility. Therefore, the cultivars studied are compatible with 'Bengal' and may be used on commercial orchards.

Influência de tratamento térmico e sistemas de embalagens na qualidade de lichia 'Bengal

Estudaram-se oito tratamentos quanto à eficiência de banhos hidrotérmicos com ou sem adição de produtos químicos na conservação da qualidade de lichias acondicionadas em bandejas de PET com tampa (BT) e cobertas com filme de PVC de 15 µm (BF), sendo submetidas a banhos hidrotérmicos, tais como:T1-BT e T2-BF - sem tratamento; T3-BT- água a 55ºC por 20 s; T4-BF- água a 55ºC por 20 s; T5-BT- água a 55ºC por 10 s e em ácido cítrico 60% por 10 s; T6-BF- água a 55ºC por 10 s e banho de ácido cítrico 60% por 10 s ; T7-BT- ácido cítrico 60% por 20 s; T8-BF-ácido cítrico 60% por 20 s. Avaliaram-se as principais alterações físicas, químicas, sensoriais e presença de doença em lichias armazenadas a 4ºC e a 25ºC. De forma geral, ao final do estudo, as lichias ficaram ligeiramente menos ácidas, com leve aumento no pH e com discreta redução de sólidos solúveis, e após dois dias a 25ºC todos os tratamentos apresentaram infestação por fungos.Os tratamentos T5, T6, T7 e T8 foram considerados inaceitáveis (>4) a partir de 15 dias; T1, T2, T3 e T4 aceitáveis até 21 dias, pela avaliação visual. Quanto à manutenção da cor vermelha, os melhores tratamentos foram T1 e T4. O tratamento T2 apresentou os maiores valores de firmeza da casca, mostrando que o filme de PVC protegeu contra a perda de firmeza, de umidade e ao murchamento. A menor perda de massa foi nos tratamentos T6 e T8 (0,4%), ambos com filme de PVC, e a maior perda de massa foi nas amostras T5 (5,6%) acondicionadas nas bandejas perfuradas, além de apresentar menor firmeza na casca.