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The Effect of Gene Flow on Coalescent‐based Species‐Tree Inference [PDF]
Systematic Biology, 2017 .— Most current methods for inferring species‐level phylogenies under the coalescent model assume that no gene flow occurs following speciation. Several studies have examined the impact of gene flow (e.g., Eckert and Carstens 2008; Chung and Ané 2011 ...
Colby Long, L. Kubatko
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Large-Scale Species Tree Estimation
, 2023 Species tree estimation is a complex problem, due to the fact that different parts of the genome can have different evolutionary histories than the genome itself. One of the causes for this discord is incomplete lineage sorting (also called deep coalescence), which is a population-level process that produces gene trees that differ from the species tree.
Molloy, Erin, Warnow, Tandy
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RECONCILIATION WITH NON-BINARY SPECIES TREES [PDF]
Computational Systems Bioinformatics, 2007 Reconciliation extracts information from the topological incongruence between gene and species trees to infer duplications and losses in the history of a gene family. The inferred duplication-loss histories provide valuable information for a broad range of biological applications, including ortholog identification, estimating gene duplication times ...
B, Vernot +3 more
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Frontiers in Genetics, 2022 Dalbergia odorifera is a rare and precious rosewood specie, whose wood is a very high-quality material for valuable furniture and carving crafts. However, limited information is available about the process of wood formation in D. odorifera.
Wenxiu Zhao +10 more
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STAG: Species Tree Inference from All Genes
bioRxiv, 2018 Species tree inference is fundamental to our understanding of the evolution of life on earth. However, species tree inference from molecular sequence data is complicated by gene duplication events that limit the availably of suitable data for ...
David M. Emms, S. Kelly
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Lianas Suppress Seedling Growth and Survival of 14 Tree Species in a Panamanian Tropical Forest [PDF]
, 2016 Lianas are a common plant growth form in tropical forests, where they compete intensely with trees, decreasing tree recruitment, growth, and survival. If the detrimental effects of lianas vary significantly with tree species identity, as is often assumed,
Andrade +65 more
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Bioinform., 2015 Motivation: The estimation of species phylogenies requires multiple loci, since different loci can have different trees due to incomplete lineage sorting, modeled by the multi-species coalescent model.
S. Mirarab, T. Warnow
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Journal of Forest Science, 2015 In the framework of an international IUFRO provenance research of grand fir (Abies grandis/D. Don/ Lindl.), a series of research plots was established in the Czech Republic in 1980-1982. This paper focuses on an evaluation of experimental plot No.
R. Krejzek +4 more
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Status, distribution and use of threatened tree species in the walnut-fruit forests of Kyrgyzstan [PDF]
, 2014 Information is lacking on the status of threatened tree species in Central Asia. This paper aims to provide preliminary information for 10 fruit and nut tree species of Kyrgyzstan. A field survey was conducted throughout the range of walnut-fruit forests
Buttenschon RM +6 more
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HorticulturaeIndocalamus Nakai, a genus within the tribe Arundinarieae, has significant horticultural and economic value. However, its classification has long been challenging, and due to limited sampling, both intra- and intergeneric phylogenetic relationships, as ...
Chengkun Wang +8 more
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