Results 11 to 20 of about 14,913 (198)

Integrative chloroplast genomics unravels phylogenetic discordance in Glehnia (Apiaceae)

Industrial Crops and Products
The Glehnia F. Schmidt ex Miq. is a monotypic genus exhibiting a trans-Pacific disjunction pattern across East Asia and western North America. It comprises G. littoralis F. Schmidt ex Miq., located in East Asia, and its western North American subspecies,
Mimi Li, Maolin Geng, Yifeng Zhou, Baocheng Wu, Yueqi Sun, Shiyu Hu, Pan Li   +6 more
doaj   +2 more sources

Phylogenetic Discordance between Species Tree and Functional Gene Trees of Fagaceous Genera

Environmental Sciences Proceedings, 2022
Fagaceae species predominate a diverse range of habitats in the northern hemisphere and are critical to the ecosystem and economy. The high morphological and genetic diversity of these species serves as the foundation for adaptation to environmental ...
Min-Xin Luo, Chien-Ti Chao, Jui-Tse Chang, Pei-Chun Liao   +3 more
doaj   +2 more sources

Reconciling taxonomy and phylogenetic inference: formalism and algorithms for describing discord and inferring taxonomic roots [PDF]

Algorithms for Molecular Biology, 2011
Although taxonomy is often used informally to evaluate the results of phylogenetic inference and find the root of phylogenetic trees, algorithmic methods to do so are lacking.
A Stamatakis, Aaron Gallagher, D Dalevi, D McDonald, E Bachoore, Frederick A Matsen, HL Bodlaender, J Hein, M Price, O Ponta, R Tatusov, S Moran, S Moran, VB Yap   +13 more
core   +9 more sources

Comparative Analyses of 3,654 Plastid Genomes Unravel Insights Into Evolutionary Dynamics and Phylogenetic Discordance of Green Plants. [PDF]

Front Plant Sci, 2022
The plastid organelle is essential for many vital cellular processes and the growth and development of plants. The availability of a large number of complete plastid genomes could be effectively utilized to understand the evolution of the plastid genomes and phylogenetic relationships among plants.
Yang T, Sahu SK, Yang L, Liu Y, Mu W, Liu X, Strube ML, Liu H, Zhong B.   +8 more
europepmc   +7 more sources

Phylogenomics and Pervasive Genome-Wide Phylogenetic Discordance Among Fin Whales (Balaenoptera physalus). [PDF]

Syst Biol
Abstract Phylogenomics has the power to uncover complex phylogenetic scenarios across the genome. In most cases, no single topology is reflected across the entire genome as the phylogenetic signal differs among genomic regions due to processes, such as introgression and incomplete lineage sorting.
Furni F, Secchi ER, Speller C, DenDanto D, Ramp C, Larsen F, Mizroch S, Robbins J, Sears R, Urbán R J, Bérubé M, Palsbøll PJ.   +11 more
europepmc   +5 more sources

Interrogating Phylogenetic Discordance Resolves Deep Splits in the Rapid Radiation of Old World Fruit Bats (Chiroptera: Pteropodidae). [PDF]

Syst Biol, 2021
Abstract The family Pteropodidae (Old World fruit bats) comprises $>$200 species distributed across the Old World tropics and subtropics. Most pteropodids feed on fruit, suggesting an early origin of frugivory, although several lineages have shifted to nectar-based diets.
Nesi N, Tsagkogeorga G, Tsang SM, Nicolas V, Lalis A, Scanlon AT, Riesle-Sbarbaro SA, Wiantoro S, Hitch AT, Juste J, Pinzari CA, Bonaccorso FJ, Todd CM, Lim BK, Simmons NB, McGowen MR, Rossiter SJ.   +16 more
europepmc   +8 more sources

Confusion will be my epitaph: genome-scale discordance stifles phylogenetic resolution of Holothuroidea [PDF]

Proceedings of the Royal Society B: Biological Sciences, 2022
Sea cucumbers (Holothuroidea) are a diverse clade of echinoderms found from intertidal waters to the bottom of the deepest oceanic trenches. Their reduced skeletons and limited number of phylogenetically informative traits have long obfuscated morphological classifications.
Nicolás Mongiardino Koch, Ekin Tilic, Allison K. Miller, Josefin Stiller, Greg W. Rouse   +4 more
openaire   +4 more sources

INSTRAL: Discordance-aware Phylogenetic Placement using Quartet Scores [PDF]

Systematic Biology, 2018
ABSTRACTPhylogenomic analyses have increasingly adopted species tree reconstruction using methods that account for gene tree discordance using pipelines that require both human effort and computational resources. As the number of available genomes continues to increase, a new problem is facing researchers.
Rabiee, Maryam, Mirarab, Siavash
openaire   +2 more sources

The Potential Role of Androgenesis in Cytoplasmic–Nuclear Phylogenetic Discordance [PDF]

Systematic Biology, 2010
In many organisms, gene trees based on nuclear mark ers and those based on cytoplasmic markers (chloroplasts or mitochondria) sometimes indicate quite different re lationships among the species being studied (e.g., Rieseberg and Soltis 1991; Rieseberg et al. 1996; Cathey et al. 1998; Bergthorsson et al. 2003; Avise 2004; Croucher et al.
Shannon M, Hedtke, David M, Hillis
openaire   +2 more sources

Genome-partitioning strategy, plastid and nuclear phylogenomic discordance, and its evolutionary implications of Clematis (Ranunculaceae)

Frontiers in Plant Science, 2022
Clematis is one of the largest genera of Ranunculaceae with many phylogenetic problems left to be resolved. Clematis species have considerable genome size of more than 7 Gbp, and there was no whole-genome reference sequence published in this genus.
Jiamin Xiao, Rudan Lyu, Jian He, Mingyang Li, Jiaxin Ji, Jin Cheng, Lei Xie   +6 more
doaj   +1 more source