Academic literature on the topic '1. Phylogenetic distance'

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Journal articles on the topic "1. Phylogenetic distance"

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Fischer, Mareike, and Steven Kelk. "On the Maximum Parsimony Distance Between Phylogenetic Trees." Annals of Combinatorics 20, no. 1 (2015): 87–113. http://dx.doi.org/10.1007/s00026-015-0298-1.

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Jansson, Jesper, Konstantinos Mampentzidis, Ramesh Rajaby, and Wing-Kin Sung. "Computing the Rooted Triplet Distance Between Phylogenetic Networks." Algorithmica 83, no. 6 (2021): 1786–828. http://dx.doi.org/10.1007/s00453-021-00802-1.

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AbstractThe rooted triplet distance measures the structural dissimilarity of two phylogenetic trees or phylogenetic networks by counting the number of rooted phylogenetic trees with exactly three leaf labels (called rooted triplets, or triplets for short) that occur as embedded subtrees in one, but not both, of them. Suppose that $$N_1 = (V_1, E_1)$$ N 1 = ( V 1 , E 1 ) and $$N_2 = (V_2, E_2)$$ N 2 = ( V 2 , E 2 ) are phylogenetic networks over a common leaf label set of size n, that $$N_i$$ N i has level $$k_i$$ k i and maximum in-degree $$d_i$$ d i for $$i \in \{1,2\}$$ i ∈ { 1 , 2 } , and t
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Ponce-de-Leon-Senti, Eunice, Elva Diaz, Hector Guardado-Muro, et al. "A Distance Measure for Building Phylogenetic Trees: A First Approach." Research in Computing Science 139, no. 1 (2017): 149–62. http://dx.doi.org/10.13053/rcs-139-1-12.

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Kelk, Steven, and Mareike Fischer. "On the Complexity of Computing MP Distance Between Binary Phylogenetic Trees." Annals of Combinatorics 21, no. 4 (2017): 573–604. http://dx.doi.org/10.1007/s00026-017-0361-1.

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Jäger, Gerhard. "Phylogenetic Inference from Word Lists Using Weighted Alignment with Empirically Determined Weights." Language Dynamics and Change 3, no. 2 (2013): 245–91. http://dx.doi.org/10.1163/22105832-13030204.

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The paper investigates the task of inferring a phylogenetic tree of languages from the collection of word lists made available by the Automated Similarity Judgment Project. This task involves three steps: (1) computing pairwise word distances, (2) aggregating word distances to a distance measure between languages and inferring a phylogenetic tree from these distances, and (3) evaluating the result by comparing it to expert classifications. For the first task, weighted alignment will be used, and a method to determine weights empirically will be presented. For the second task, a novel method wi
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Erdős, Péter L., Andrew Francis, and Tamás Róbert Mezei. "Rooted NNI moves and distance-1 tail moves on tree-based phylogenetic networks." Discrete Applied Mathematics 294 (May 2021): 205–13. http://dx.doi.org/10.1016/j.dam.2021.02.016.

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Berkemer, Sarah J., and Shawn E. McGlynn. "A New Analysis of Archaea–Bacteria Domain Separation: Variable Phylogenetic Distance and the Tempo of Early Evolution." Molecular Biology and Evolution 37, no. 8 (2020): 2332–40. http://dx.doi.org/10.1093/molbev/msaa089.

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Abstract Comparative genomics and molecular phylogenetics are foundational for understanding biological evolution. Although many studies have been made with the aim of understanding the genomic contents of early life, uncertainty remains. A study by Weiss et al. (Weiss MC, Sousa FL, Mrnjavac N, Neukirchen S, Roettger M, Nelson-Sathi S, Martin WF. 2016. The physiology and habitat of the last universal common ancestor. Nat Microbiol. 1(9):16116.) identified a number of protein families in the last universal common ancestor of archaea and bacteria (LUCA) which were not found in previous works. He
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Hai, Nguyen Hong, Yousef Erfanifard, Tran Quang Bao, Any Mary Petritan, Trinh Hien Mai, and Ion Catalin Petritan. "Phylogenetic Community and Nearest Neighbor Structure of Disturbed Tropical Rain Forests Encroached by Streblus macrophyllus." Forests 11, no. 7 (2020): 722. http://dx.doi.org/10.3390/f11070722.

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Although woody plant encroachment of tropical forest ecosystems has been related to altered disturbance regimes, its impacts on the nearest neighborhood structures and community phylogenetics are still poorly understood. Streblus macrophyllus is a light-demanding species during its early life stages and is shade-tolerant as a mature tree. S. macrophyllus can be found in tropical karst evergreen forests in northern Vietnam. It often regenerates at high densities in anthropogenic disturbed forest stands. To understand the structural patterns of disturbed forests encroached by S. macrophyllus at
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VAN DER MESCHT, LUTHER, IRINA S. KHOKHLOVA, ELIZABETH M. WARBURTON, and BORIS R. KRASNOV. "Revisiting the role of dissimilarity of host communities in driving dissimilarity of ectoparasite assemblages: non-linear vs linear approach." Parasitology 144, no. 10 (2017): 1365–74. http://dx.doi.org/10.1017/s003118201700066x.

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SUMMARYWe revisited the role of dissimilarity of host assemblages in shaping dissimilarity of flea assemblages using a non-linear approach. Generalized dissimilarity models (GDMs) were applied using data from regional surveys of fleas parasitic on small mammals in four biogeographical realms. We compared (1) model fit, (2) the relative effects of host compositional and phylogenetic turnover and geographic distance on flea compositional and phylogenetic turnover, and (3) the rate of flea turnover along gradients of host turnover and geographic distance with those from earlier application of a l
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SEVİNDİK, Emre, Hüseyin UYSAL, and Zehra Tuğba MURATHAN. "Genetic Diversity Based on ISSR Markers of Apple Genotypes in Ardahan/Turkey." Notulae Scientia Biologicae 10, no. 4 (2018): 554–58. http://dx.doi.org/10.15835/nsb10410347.

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Within the present study, it was conducted a genetic diversity analysis using ISSR markers for some apple genotypes grown in Ardahan region, Turkey. Total genomic DNA (gDNA) isolation from apple leaves was performed using commercial kits. Five ISSR primers were used to determine the genetic diversity among the genotypes studied. Polymerase Chain Reaction (PCR) was performed with all gDNA samples to produce bands to score. PCR products were run in agarose gel and visualized under UV light. Bands on the gels were scored as “1”, while no bands at the corresponding positions were scored as “0”, to
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Dissertations / Theses on the topic "1. Phylogenetic distance"

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AZEVEDO, Rodrigo Carvalho de. "Evidências experimentais para a associação entre o nível de relação filogenética e a intensidade de competição entre espécies de gramíneas exóticas e nativa." Universidade Federal de Goiás, 2009. http://repositorio.bc.ufg.br/tede/handle/tde/2583.

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Made available in DSpace on 2014-07-29T16:21:21Z (GMT). No. of bitstreams: 1 Rodrigo Carvalho.pdf: 354139 bytes, checksum: 4f557de5909b41993211b240c60d40cd (MD5) Previous issue date: 2009-06-05<br>Biological invasions has been a major threat to whole biomes around the world, affecting communities and ecossistems with consequences to the trophic web. At the same time it is a huge biogeographical experiment that allows the formulation of hypotheses about the rules for communitie assembly. This study tested the hypothesis that the level of phylogenetic relationship is positively correlated with
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Book chapters on the topic "1. Phylogenetic distance"

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Jansson, Jesper. "Phylogenetic Tree Construction from a Distance Matrix." In Encyclopedia of Algorithms. Springer New York, 2016. http://dx.doi.org/10.1007/978-1-4939-2864-4_292.

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Boinski, Sue. "Geographic Variation in Behavior of a Primate Taxon: Stress Responses as a Proximate Mechanism in the Evolution of Social Behavior." In Geographic Variation in Behavior. Oxford University Press, 1999. http://dx.doi.org/10.1093/oso/9780195082951.003.0009.

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Temperament is a complex behavioral trait that describes characteristic patterns of response to environmental, particularly social, conditions and perturbations. Disparities in the tendency to approach or avoid novelty or readiness to engage in aggressive interactions have been documented in comparisons between species (Christian 1970), subspecies (Gonzalez et al. 1981), populations within species (Champoux et al. 1994), inbred lines of laboratory animals (Scott and Fuller 1965), domesticated versus wild populations (Price 1984), and individuals within a species (Benus et al. 1992). Differences in physiological stress response systems (Selye 1937) are commonly identified as an important proximate mechanism underlying these temperament differences (Huntingford and Turner 1987, Kagan et al. 1988). Social systems of animals are perceived as emerging from relationships between individuals (Hinde 1983). Individual interactions, in turn, are hypothesized to reflect individual behavioral strategies which maximize inclusive fitness (Silk 1987). Selection on a physiological system, which can dramatically affect the pattern and outcomes of individual interactions, could produce evolutionary change in social organization and social behavior. Many workers explicitly suggest that temperament differences among primate species are adaptive in many instances, yet admit that the specific ecological and social selection pressures to which the neuroendocrine system is responding are often unclear (Thierry 1985, Clarke et al. 1988, Richard et al. 1989). Species-level comparisons have not offered many testable comparative models, probably because of confounding effects such as large phylogentic distances or uncertain phylogeny, inadequate knowledge of ecological and social conditions in the wild, drift, and convergent evolution. In short, little progress has been made toward understanding the evolution of stress-response patterns in primates. In this chapter I suggest that comparisons of geographically and genetically separated primate populations or subspecies may be an alternative and more successful approach to addressing the evolution of stress responses and the disparate social behaviors that result. Population and geographic comparisons are likely to be profitable for three reasons: (1) comparisons are less likely to be confounded by phylogenetic disparities (Arnold 1992), (2) the factors imposing different selective regimes among localities can perhaps be more readily identified, (3) hypothesis testing may be facilitated because populations suitable for testing a model will be easier to identify than new species.
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Conference papers on the topic "1. Phylogenetic distance"

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Krasnoshtanova, Alla, and Alesya Yudina. "PRODUCTION OF ANTIBODIES FROM POULTRY YOLK (IgY) AND INVESTIGATION OF THEIR IMMUNOCHEMICAL PROPERTIES." In GEOLINKS Conference Proceedings. Saima Consult Ltd, 2021. http://dx.doi.org/10.32008/geolinks2021/b1/v3/17.

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"A particularly important aspect of immunology is to develop non-invasive methods of obtaining antibodies which could be a great alternative to traditional ones that based on the harmful procedure of isolation of immunoglobulins from animal blood sera. That’s why the extraction of antibodies from poultry egg yolks (IgY) is the most promising. Due to the fact of variation of IgY structural features that determine the definite immunochemical properties, yolk antibodies in comparison with mammalian immunoglobulins (IgG) does not interact with rheumatoid factor (Rf), contribute to the activation o
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