Weighted ASTRID: fast and accurate species trees from weighted internode distances
Algorithms for Molecular Biology, 2023 Background Species tree estimation is a basic step in many biological research projects, but is complicated by the fact that gene trees can differ from the species tree due to processes such as incomplete lineage sorting (ILS), gene duplication and loss (
Baqiao Liu, Tandy Warnow
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Discordance Between Mitochondrial and Nuclear Contact Zones Within Antelope Ground Squirrels (Ammospermophilus) [PDF]
, 2020 A common biogeographic pattern found in many co-distributed species along the Baja California peninsula is the genetic divergence in the Vizcaíno Desert.
Gray, Shannon
core
Three geographically separate domestications of Asian rice [PDF]
, 2015 Domesticated rice (Oryza sativa L.) accompanied the dawn of Asian civilization(1) and has become one of world's staple crops. From archaeological and genetic evidence various contradictory scenarios for the origin of different varieties of cultivated ...
AJ Garris +23 more
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Advanced Science, EarlyView.Mature red blood cells (RBCs) can capture extracellular DNA, with short fragments homologous to cfDNA. This uptake is mediated by apoptotic bodies, which induce RBC oxidative stress, deformation, and accelerated in vivo clearance. The rbcDNA abundance correlates with tumor burden and therapeutic response, highlighting its potential as a liquid biopsy ...
Zihang Zeng +20 more
wiley +1 more source
Multiplexed ISSR genotyping by sequencing distinguishes two precious coral species (Anthozoa: Octocorallia: Coralliidae) that share a mitochondrial haplotype [PDF]
PeerJ, 2019 Background Precious corals known as coralliid corals (Anthozoa: Octocorallia) play an important role in increasing the biodiversity of the deep sea.
Kenji Takata +7 more
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Plasmodium vivax-like genome sequences shed new insights into Plasmodium vivax biology and evolution [PDF]
, 2018 Although Plasmodium vivax is responsible for the majority of malaria infections outside Africa, little is known about its evolution and pathway to humans. Its closest genetic relative, P.
Arnathau, Céline +15 more
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Advanced Science, EarlyView.This study identifies the transcription factor ETV1 as a key driver of CD4⁺ T cell‐mediated intestinal inflammation in inflammatory bowel disease (IBD). ETV1 promotes CD4⁺ T cell activation, proliferation, and Th17 differentiation by activating the amino acid transporter SLC7A5, fueling metabolic reprogramming.
Yan Shi +8 more
wiley +1 more source
Molecular footprints of the Holocene retreat of dwarf birch in Britain [PDF]
, 2014 © 2014 The Authors. Molecular Ecology Published by John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original ...
Atkinson MD +14 more
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Fast Algorithms for Reconciliation under Hybridization and Incomplete Lineage Sorting
, 2012 Reconciling a gene tree with a species tree is an important task that reveals much about the evolution of genes, genomes, and species, as well as about the molecular function of genes. A wide array of computational tools have been devised for this task under certain evolutionary events such as hybridization, gene duplication/loss, or incomplete lineage
Yu, Yun, Nakhleh, Luay
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Retroposon Insertion Patterns of Neoavian Birds: Strong Evidence for an Extensive Incomplete Lineage Sorting Era [PDF]
Molecular Biology and Evolution, 2012 More than 150 Ma, the avian lineage separated from that of other dinosaurs and later diversified into the more than 10,000 species extant today. The early neoavian bird radiations most likely occurred in the late Cretaceous (more than 65 Ma) but left behind few if any molecular signals of their archaic evolutionary past.
Andreas, Matzke +7 more
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