Relevant bibliographies by topics / Phylogeney

Contents

  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Phylogeney'

Author: Grafiati
Published: 18 May 2024
Last updated: 31 July 2025

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Journal articles on the topic "Phylogeney"

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Zeb, Umar, Xiukang Wang, Sajid Fiaz, et al. "Novel insights into Pinus species plastids genome through phylogenetic relationships and repeat sequence analysis." PLOS ONE 17, no. 1 (2022): e0262040. http://dx.doi.org/10.1371/journal.pone.0262040.

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Pinus is one of the most economical and ecological important conifers, model specie for studying sequence divergence and molecular phylogeney of gymnosperms. The less availability of information for genome resources enable researchers to conduct evolutionary studies of Pinus species. To improve understanding, we firstly reported, previously released chloroplast genome of 72 Pinus species, the sequence variations, phylogenetic relationships and genome divergence among Pinus species. The results displayed 7 divergent hotspot regions (trnD-GUC, trnY-GUA, trnH-GUG, ycf1, trnL-CAA, trnK-UUU and trn
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YU, YONG-XIU, YU-HANG LU, QING TIAN, and ASHA J. DISSANAYAKE. "Byssosphaeria vaginata, a new species of Melanommataceae from Magnolia officinalis in Sichuan Province, China." Phytotaxa 705, no. 1 (2025): 35–49. https://doi.org/10.11646/phytotaxa.705.1.3.

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During an investigation of ascomycetous fungi on Magnolia officinalis (Magnoliaceae) in Sichuan Province, Southwest China, a novel species, Byssosphaeria vaginata, is introduced. The taxonomic placement of the species was confirmed based on morphology and muti-gene phylogeney. Though our new species resembles B. clematidis, it differs from the type species (B. clematidis) in having larger ascomata with pale yellowish pigment around the pore and wider and shorter ascospores with clear mucilaginous sheaths. The phylogenetic analysis based on LSU, SSU, ITS, and tef1-α sequence data generated from
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LÖRZ, ANNE-NINA. "Deep-sea Rhachotropis (Crustacea: Amphipoda: Eusiridae) from New Zealand and the Ross Sea with key to the Pacific, Indian Ocean and Antarctic species." Zootaxa 2482, no. 1 (2010): 22. http://dx.doi.org/10.11646/zootaxa.2482.1.2.

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The amphipod genus Rhachotropis has a worldwide distribution. Four species new to science are described, increasing the total number of Rhachotropis species to 59. Only one species was previously known from New Zealand and none from the Ross Sea. Two species Rhachotropis chathamensis sp. nov. and R. delicata sp. nov. were collected at the same station in 420 m depth off eastern New Zealand; R. rossi sp. nov. and R. abyssalis sp. nov. were collected below 3000 m depth in the Ross Sea, Antarctica. Investigation of recently collected material as well as historic material from the NIWA Invertebrat
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Gawel, Nick J., Rory Mellinger, Eric Stout, and R. Sauve. "RAPD Analysis of Acer." HortScience 30, no. 4 (1995): 813F—813. http://dx.doi.org/10.21273/hortsci.30.4.813f.

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DNA from 27 Acer species was used for RAPD analysis. A relatively high number of phylogenically informative polymorphisms were detected, as would be expected in intraspecific comparisons. Principle coordinates analysis was used to discern groupings among the species and a RAPD-based phylogeny was constructed. As expected when making comparisons among species, very high levels of polymorphism were found. Cultivars that grouped together in the principle components analysis also grouped together in the phylogenic analysis. Parts of the phylogenic analysis do not agree with morphology-based phylog
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Kulman, Ethan, Rui Kuang, and Quaid Morris. "Orchard: Building large cancer phylogenies using stochastic combinatorial search." PLOS Computational Biology 20, no. 12 (2024): e1012653. https://doi.org/10.1371/journal.pcbi.1012653.

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Phylogenies depicting the evolutionary history of genetically heterogeneous subpopulations of cells from the same cancer, i.e., cancer phylogenies, offer valuable insights about cancer development and guide treatment strategies. Many methods exist that reconstruct cancer phylogenies using point mutations detected with bulk DNA sequencing. However, these methods become inaccurate when reconstructing phylogenies with more than 30 mutations, or, in some cases, fail to recover a phylogeny altogether. Here, we introduce Orchard, a cancer phylogeny reconstruction algorithm that is fast and accurate
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Ma, Tengfei, Haijiao Liu, Yafei Chen, et al. "Familial Reclassification Within Order Lysobacterales and Proposal of Four Novel Species." Microorganisms 13, no. 6 (2025): 1212. https://doi.org/10.3390/microorganisms13061212.

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The order Lysobacterales consists of three families (Rhodanobacteraceae, Lysobacteraceae and Marinicellaceae), many members of which are important pathogenic and beneficial bacteria. Previous classifications of members within order Lysobacterales have relied heavily on 16S rRNA gene sequences, leading to taxonomic ambiguities at the familial level. With the advancement of sequencing technologies, an increasing number of whole-genome sequences have been available, providing an opportunity to revisit the taxonomy of families in Lysobacterales. In this study, we revisited the taxonomy of Lysobact
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Golding, G. Brian. "Reconstructing the Prior Probabilities of Allelic Phylogenies." Genetics 161, no. 2 (2002): 889–96. http://dx.doi.org/10.1093/genetics/161.2.889.

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Abstract In general when a phylogeny is reconstructed from DNA or protein sequence data, it makes use only of the probabilities of obtaining some phylogeny given a collection of data. It is also possible to determine the prior probabilities of different phylogenies. This information can be of use in analyzing the biological causes for the observed divergence of sampled taxa. Unusually “rare” topologies for a given data set may be indicative of different biological forces acting. A recursive algorithm is presented that calculates the prior probabilities of a phylogeny for different allelic samp
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Stadler, Tanja, and Jana Smrckova. "Estimating shifts in diversification rates based on higher-level phylogenies." Biology Letters 12, no. 10 (2016): 20160273. http://dx.doi.org/10.1098/rsbl.2016.0273.

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Macroevolutionary studies recently shifted from only reconstructing the past state, i.e. the species phylogeny, to also infer the past speciation and extinction dynamics that gave rise to the phylogeny. Methods for estimating diversification dynamics are sensitive towards incomplete species sampling. We introduce a method to estimate time-dependent diversification rates from phylogenies where clades of a particular age are represented by only one sampled species. A popular example of this type of data is phylogenies on the genus- or family-level, i.e. phylogenies where one species per genus or
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Palmer, Marike, Stephanus N. Venter, Alistair R. McTaggart, et al. "The synergistic effect of concatenation in phylogenomics: the case in Pantoea." PeerJ 7 (April 16, 2019): e6698. http://dx.doi.org/10.7717/peerj.6698.

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With the increased availability of genome sequences for bacteria, it has become routine practice to construct genome-based phylogenies. These phylogenies have formed the basis for various taxonomic decisions, especially for resolving problematic relationships between taxa. Despite the popularity of concatenating shared genes to obtain well-supported phylogenies, various issues regarding this combined-evidence approach have been raised. These include the introduction of phylogenetic error into datasets, as well as incongruence due to organism-level evolutionary processes, particularly horizonta
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Purvis, Andy, Susanne A. Fritz, Jesús Rodríguez, Paul H. Harvey, and Richard Grenyer. "The shape of mammalian phylogeny: patterns, processes and scales." Philosophical Transactions of the Royal Society B: Biological Sciences 366, no. 1577 (2011): 2462–77. http://dx.doi.org/10.1098/rstb.2011.0025.

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Mammalian phylogeny is far too asymmetric for all contemporaneous lineages to have had equal chances of diversifying. We consider this asymmetry or imbalance from four perspectives. First, we infer a minimal set of ‘regime changes’—points at which net diversification rate has changed—identifying 15 significant radiations and 12 clades that may be ‘downshifts’. We next show that mammalian phylogeny is similar in shape to a large set of published phylogenies of other vertebrate, arthropod and plant groups, suggesting that many clades may diversify under a largely shared set of ‘rules’. Third, we
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Dissertations / Theses on the topic "Phylogeney"

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Chatterjee, Chandranath. "Phylogeney of bufonidae on the basis of sperm ultrastructure and DNA analysis studies." Thesis, University of North Bengal, 2003. http://hdl.handle.net/123456789/930.

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Bernt, Matthias. "Gene order rearrangement methods for the reconstruction of phylogeny." Doctoral thesis, Universitätsbibliothek Leipzig, 2010. http://nbn-resolving.de/urn:nbn:de:bsz:15-qucosa-38666.

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The study of phylogeny, i.e. the evolutionary history of species, is a central problem in biology and a key for understanding characteristics of contemporary species. Many problems in this area can be formulated as combinatorial optimisation problems which makes it particularly interesting for computer scientists. The reconstruction of the phylogeny of species can be based on various kinds of data, e.g. morphological properties or characteristics of the genetic information of the species. Maximum parsimony is a popular and widely used method for phylogenetic reconstruction aiming for an explan
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Jacobson, Herbert R. "Generic revision, phylogenic classification, and phylogeny of the termitophilous tribe corotocini(Coleoptera; staphylinidae)." Doctoral thesis, Universite Libre de Bruxelles, 1985. http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/213647.

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Kanouh, Mohamad. "Etudes taxonomiques de deux genres d'acariens prédateurs de la famille des Phytoseiidae (Acari Mesostigmata) : Phytoseiulus Evans et Neoseiulella Muma." Electronic Thesis or Diss., Montpellier, SupAgro, 2010. http://www.theses.fr/2010NSAM0029.

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La classification actuelle de la famille des Phytoseiidae n'est pas basée sur de réelles études phylogénétiques et par conséquent, de nombreuses questions se posent sur la validité des taxa supra-spécifiques mais également vis-à-vis des taxa spécifiques. Ce travail de thèse avait donc pour objectif de répondre à de telles questions pour deux genres : Phytoseiulus et Neoseiulella, en utilisant pour la première fois des approches phylogénétiques moléculaires et morphologiques. Ces études phylogénétiques ont été également associées à des études biogéographiques. Les résultats obtenus par ces deux
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Wirth, Stefan. "Phylogeny, biology and character transformations of the Histiostomatidae (Acari, Astigmata) Phylogenie, Biologie und Merkmals-Transformationen der Histiostomatidae (Acari, Astigmata) /." [S.l. : s.n.], 2004. http://www.diss.fu-berlin.de/2004/312/index.html.

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Tekle, Yonas Isaak. "Phylogeny and Taxonomy of Childia (Acoela) : New characters for unraveling acoel phylogenies from molecules, ultrastructure, immunocytochemistry and confocal microscopy." Doctoral thesis, Uppsala : Acta Universitatis Upsaliensis : Universitetsbiblioteket [distributör], 2006. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-6315.

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Kanouh, Mohamad. "Etudes taxonomiques de deux genres d'acariens prédateurs de la famille des Phytoseiidae (Acari Mesostigmata) : Phytoseiulus Evans et Neoseiulella Muma." Thesis, Montpellier, SupAgro, 2010. http://www.theses.fr/2010NSAM0029/document.

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La classification actuelle de la famille des Phytoseiidae n'est pas basée sur de réelles études phylogénétiques et par conséquent, de nombreuses questions se posent sur la validité des taxa supra-spécifiques mais également vis-à-vis des taxa spécifiques. Ce travail de thèse avait donc pour objectif de répondre à de telles questions pour deux genres : Phytoseiulus et Neoseiulella, en utilisant pour la première fois des approches phylogénétiques moléculaires et morphologiques. Ces études phylogénétiques ont été également associées à des études biogéographiques. Les résultats obtenus par ces deux
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Varón, González Ceferino. "Shape and phylogeny." Thesis, University of Manchester, 2014. https://www.research.manchester.ac.uk/portal/en/theses/shape-and-phylogeny(f432d494-9755-41f9-b067-431023ad3248).html.

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Geometric morphometrics, the science about the study of shape, has developed much in the last twenty years. In this thesis I first study the reliability of the phylogenies built using geometric morphometrics. The effect of different evolutionary models, branch-length combinations, dimensionality and degrees of integration is explored using computer simulations. Unfortunately in the most common situations (presence of stabilizing selection, short distance between internal nodes and presence of integration) the reliability of the phylogenies is very low. Different empirical studies are analysed
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Poe, Stephen Joseph. "Phylogeny of anoles /." Full text (PDF) from UMI/Dissertation Abstracts International, 2000. http://wwwlib.umi.com/cr/utexas/fullcit?p3004359.

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Rehm, Peter [Verfasser]. "Cumacea (Crustacea; Peracarida) of the Antarctic shelf - diversity, biogeography, and phylogeny = Cumacea (Crustacea; Peracarida) des antarktischen Schelfs - Diversität, Biogeographie und Phylogenie / Peter Rehm." Bremerhaven : AWI, Alfred-Wegener-Institut für Polar- und Meeresforschung, 2009. http://d-nb.info/1010171909/34.

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Books on the topic "Phylogeney"

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Steel, Mike. Phylogeny. Society for Industrial and Applied Mathematics, 2016. http://dx.doi.org/10.1137/1.9781611974485.

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Szalay, Frederick S., Michael J. Novacek, and Malcolm C. McKenna, eds. Mammal Phylogeny. Springer New York, 1993. http://dx.doi.org/10.1007/978-1-4615-7381-4.

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Szalay, Frederick S., Michael J. Novacek, and Malcolm C. McKenna, eds. Mammal Phylogeny. Springer New York, 1993. http://dx.doi.org/10.1007/978-1-4613-9246-0.

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Szalay, Frederick S., Michael J. Novacek, and Malcolm C. McKenna, eds. Mammal Phylogeny. Springer New York, 1993. http://dx.doi.org/10.1007/978-1-4613-9249-1.

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S, Szalay Frederick, Novacek Michael J, McKenna Malcolm C, and North Atlantic Treaty Organization, eds. Mammal phylogeny. Springer-Verlag, 1993.

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Gould, Stephen Jay. Ontogeny and phylogeny. Harvard University Press, 1985.

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Forey, Peter L., and Norman MacLeod. Morphology, shape and phylogeny. Taylor & Francis, 2002.

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J, Novacek Michael, and Wheeler Quentin 1954-, eds. Extinction and phylogeny. Columbia University Press, 1992.

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1967-, Purvis Andy, Gittleman John L, and Brooks Thomas, eds. Phylogeny and conservation. Cambridge University Press, 2005.

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Flanagan, Kathryn M., and Jason A. Lillegraven, eds. Vertebrates, Phylogeny, and Philosophy. University of Wyoming, 1986. http://dx.doi.org/10.2113/gsrocky.24.special_paper_3.1.

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Book chapters on the topic "Phylogeney"

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Sommer, Marianne. "10. About Treeing…" In The Diagrammatics of ‘Race’. Open Book Publishers, 2024. http://dx.doi.org/10.11647/obp.0396.12.

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With Ernst Haeckel, phylogenetic tree building became not only standard in biology and anthropology, but the tree also entered the public sphere as the icon to support and spread the ideas of evolution and phylogeny. The phylogenetic tree was widely used in publications for wider readerships and lantern slides of tree diagrams accompanied public lectures. Additionally, the phylogenetic tree was used as pedagogic tool to teach a particular view of the living world to school children. With regard to human phylogenies, fossil kin was added – ‘Neanderthal, Cro-Magnon, Heidelberg Man’, and Pithecan
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Frank, J. Howard, J. Howard Frank, Michael C. Thomas, et al. "Phylogeny." In Encyclopedia of Entomology. Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-6359-6_2936.

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Moreira, David. "Phylogeny." In Encyclopedia of Astrobiology. Springer Berlin Heidelberg, 2011. http://dx.doi.org/10.1007/978-3-642-11274-4_1209.

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Kovář, I. "Phylogeny." In Ecology of Coccinellidae. Springer Netherlands, 1996. http://dx.doi.org/10.1007/978-94-017-1349-8_2.

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Prado, José Luis, and María Teresa Alberdi. "Phylogeny." In The Latin American Studies Book Series. Springer International Publishing, 2017. http://dx.doi.org/10.1007/978-3-319-55877-6_4.

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Lichtwardt, Robert W. "Phylogeny." In The Trichomycetes. Springer New York, 1986. http://dx.doi.org/10.1007/978-1-4612-4890-3_12.

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Moreira, David. "Phylogeny." In Encyclopedia of Astrobiology. Springer Berlin Heidelberg, 2015. http://dx.doi.org/10.1007/978-3-662-44185-5_1209.

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Mackenstedt, Ute. "Phylogeny." In Encyclopedia of Parasitology. Springer Berlin Heidelberg, 2016. http://dx.doi.org/10.1007/978-3-662-43978-4_2423.

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Saitou, Naruya. "Phylogeny." In Introduction to Evolutionary Genomics. Springer International Publishing, 2018. http://dx.doi.org/10.1007/978-3-319-92642-1_4.

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Moreira, David. "Phylogeny." In Encyclopedia of Astrobiology. Springer Berlin Heidelberg, 2023. http://dx.doi.org/10.1007/978-3-662-65093-6_1209.

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Conference papers on the topic "Phylogeney"

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Faisal, Fahim, and Antonios Anastasopoulos. "Phylogeny-Inspired Adaptation of Multilingual Models to New Languages." In Proceedings of the 2nd Conference of the Asia-Pacific Chapter of the Association for Computational Linguistics and the 12th International Joint Conference on Natural Language Processing (Volume 1: Long Papers). Association for Computational Linguistics, 2022. http://dx.doi.org/10.18653/v1/2022.aacl-main.34.

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Oliveira, Alberto, and Anderson Rocha. "Multiple Parenting Relationships in Image Phylogeny: Tracking Down Forgeries and Their Creators Online*." In XXIX Concurso de Teses e Dissertações da SBC. Sociedade Brasileira de Computação - SBC, 2020. http://dx.doi.org/10.5753/ctd.2016.9138.

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Due to the large amount of images shared on the web, tracking the spread and evolution of their content have become an increasingly important problem. As an image might be a composition created through the combination of the semantic information existent in two or more source images, establishing a relationship between the sources and the composite is an ever-growing problem of interest. We name as Multiple Parenting Phylogeny the problem of identifying such relationships in a set containing near-duplicate subsets of source and composition images. To tackle this problem, this work presents a t
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Wright, David F. "TIME, STRATIGRAPHY, AND FOSSIL PHYLOGENIES: RE-EVALUATING THE USE OF TEMPORAL DATA IN PHYLOGENY RECONSTRUCTION AND TRAIT EVOLUTION." In 66th Annual GSA Southeastern Section Meeting - 2017. Geological Society of America, 2017. http://dx.doi.org/10.1130/abs/2017se-290918.

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Gusfield, Dan. "Persistent phylogeny." In BCB '15: ACM International Conference on Bioinformatics, Computational Biology and Biomedicine. ACM, 2015. http://dx.doi.org/10.1145/2808719.2808765.

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Akimova, E. S., I. S. Koryakov, and An Kh Baymiev. "The strategy for choosing nodule bacteria by perennial leguminous plants, depending on the stage of their vegetation." In 2nd International Scientific Conference "Plants and Microbes: the Future of Biotechnology". PLAMIC2020 Organizing committee, 2020. http://dx.doi.org/10.28983/plamic2020.012.

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Bonizzoni, Paola, Simone Ciccolella, Gianluca Della Vedova, and Mauricio Soto. "Beyond Perfect Phylogeny." In BCB '17: 8th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics. ACM, 2017. http://dx.doi.org/10.1145/3107411.3107441.

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Rogers, John, and DeAngelo Wilson. "Comparing phylogeny by compression to phylogeny by NJp and Bayesian Inference." In 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, 2020. http://dx.doi.org/10.1109/bibm49941.2020.9313237.

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Araújo, Graziela S., Guilherme P. Telles, Maria Emília M. T. Walter, and Nalvo F. Almeida. "Distance-based Live Phylogeny." In 8th International Conference on Bioinformatics Models, Methods and Algorithms. SCITEPRESS - Science and Technology Publications, 2017. http://dx.doi.org/10.5220/0006224501960201.

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Gusfield, Dan. "Haplotyping as perfect phylogeny." In the sixth annual international conference. ACM Press, 2002. http://dx.doi.org/10.1145/565196.565218.

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Jones, Jeff A., and Katherine A. Yelick. "Parallelizing the phylogeny problem." In the 1995 ACM/IEEE conference. ACM Press, 1995. http://dx.doi.org/10.1145/224170.224224.

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Reports on the topic "Phylogeney"

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Tiffani L. Williams. High-Performance Phylogeny Reconstruction. Office of Scientific and Technical Information (OSTI), 2004. http://dx.doi.org/10.2172/834325.

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Hutterer, R., Mark T. Swanson, Jacob A. Esselstyn, and Lawrence R. Heaney. Supplemental materials for 'The shrew of Nagaland : a remarkable new genus and species from northeast India, with a discussion of the phylogeny and classification of the Soricidae (Mammalia) (Bulletin of the American Museum of Natural History, no. 474)'. American Museum of Natural History, 2025. https://doi.org/10.5531/sd.sp.75.

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Supplemental materials for 'The shrew of Nagaland : a remarkable new genus and species from northeast India, with a discussion of the phylogeny and classification of the Soricidae (Mammalia) (Bulletin of the American Museum of Natural History, no. 474)' - https://hdl.handle.net/2246/7508
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Moret, Bernard M., and Tandy Warnow. Advances in Phylogeny Reconstruction from Gene Order and Content Data. Defense Technical Information Center, 2004. http://dx.doi.org/10.21236/ada482523.

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Стригунов, Володимир Іванович, Іван Сергійович Митяй, and Олександр Володимирович Мацюра. Egg shape in the taxonomy and phylogeny of birds of prey. МДПУ імені Богдана Хмельницького, 2016. http://dx.doi.org/10.31812/0564/1510.

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Swinstrom, Kirsten, Roy Caldwell, H. Matthew Fourcade, and Jeffrey L. Boore. The First Complete Mitochondrial Genome Sequences for Stomatopod Crustaceans: Implications for Phylogeny. Office of Scientific and Technical Information (OSTI), 2005. http://dx.doi.org/10.2172/960399.

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Foster, Michael S. Support for a Symposium on Molecular Approaches to Phylogeny, Evolution and Biogeography. Defense Technical Information Center, 1992. http://dx.doi.org/10.21236/ada262112.

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Kalgutkar, R. M., and A. R. Sweet. Morphology, taxonomy and phylogeny of the fossil fungal genus Pesavis from northwestern Canada. Natural Resources Canada/ESS/Scientific and Technical Publishing Services, 1988. http://dx.doi.org/10.4095/126976.

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Ksepka, Daniel, and Kristin Lamm. Systematics and Biodiversity Conservation. American Museum of Natural History, 2012. http://dx.doi.org/10.5531/cbc.ncep.0024.

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This exercise uses a fictional group of turtles to demonstrate how to implement cladistic methodology. Using a step-by-step guide, students work to find the most parsimonious cladogram for these fictional turtles. Part I involves delineating characters and building a most parsimonious cladogram based on the distribution of character states, while Part II presents additional challenges by introducing homoplasy. This exercise is designed to familiarize students with the concepts of phylogeny and cladistics, expand their skills of phylogenetic analysis, and use phylogenetic information to determi
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Eiserhardt, Wolf. Molekularbiologische Untersuchungen zur Phylogenie der cheilanthoiden Farne (Pteridaceae-Cheilanthoideae) des südlichen Afrika. BEE-Press, 2007. http://dx.doi.org/10.7809/thesis.examen.001.

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Pandya, Gagan A., Michael H. Holmes, Jeannine M. Petersen, et al. Whole-Genome Single Nucleotide Polymorphism Based Phylogeny of Francisella tularensis and Its Application to the Development of a Strain Typing Assay. Defense Technical Information Center, 2009. http://dx.doi.org/10.21236/ada513240.

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