Results 91 to 100 of about 2,113,711 (315)

Cotton Duplicated Genes Produced by Polyploidy Show Significantly Elevated and Unbalanced Evolutionary Rates, Overwhelmingly Perturbing Gene Tree Topology

Frontiers in Genetics, 2020
A phylogenetic tree can be used to illustrate the evolutionary relationship between a group of genes, especially duplicated genes, which are sources of genetic innovation and are often a hotspot of research.
Fanbo Meng, Yuxin Pan, Jinpeng Wang, Jigao Yu, Chao Liu, Zhikang Zhang, Chendan Wei, He Guo, Xiyin Wang, Xiyin Wang   +9 more
doaj   +1 more source

Autopolyploidization‐Induced Chromatin Remodeling Regulates Leaf Size Variation in Brassica rapa

Advanced Science, EarlyView.
This study demonstrates that monoploid, diploid, and autotetraploid Brassica rapa lines derived from the same genome exhibit distinct leaf morphology. Ploidy changes remodel chromatin accessibility and histone modifications to regulate gene expression, while key transcription factors BrGRF13 and BrARF11 control leaf size and polarity, driving ...
Haoyuan Dong, Yanhong Liu, Yuanming Liu, Shuxin Xuan, Huanhuan Chen, Lai Wei, Guibao Zhang, Hongcui Pei, Zilong Dai, Yanhua Wang, Jinzhu Qiao, Shuangxia Luo, Xueping Chen, Yiguo Hong, Jianjun Zhao, Shuxing Shen, Zefu Lu, Aixia Gu   +17 more
wiley   +1 more source

Comparison of phylogenetic trees defined on different but mutually overlapping sets of taxa: A review

Ecology and Evolution
Phylogenetic trees represent the evolutionary relationships and ancestry of various species or groups of organisms. Comparing these trees by measuring the distance between them is essential for applications such as tree clustering and the Tree of Life ...
Wanlin Li, Aleksandr Koshkarov, Nadia Tahiri   +2 more
doaj   +1 more source

Minimum variance rooting of phylogenetic trees and implications for species tree reconstruction

PLoS ONE, 2017
Phylogenetic trees inferred using commonly-used models of sequence evolution are unrooted, but the root position matters both for interpretation and downstream applications.
U. Mai, Erfan Sayyari, S. Mirarab
semanticscholar   +1 more source

A Trypsin‐Like Serine Protease ZmNAL1a Fine‐Tunes Maize Floral Transition and Flowering Time

Advanced Science, EarlyView.
This study identifies a trypsin‐like serine protease, ZmNAL1a, that moves from leaves to the shoot apical meristem. ZmNAL1a promotes the floral transition by degrading TOPLESS‐like corepressor REL2, which thereby enhances the expression of key flowering genes through elevating histone acetylation and relieving REL2–ZmEREBP147‐mediated transcriptional ...
Nan Li, Qiang Ning, Zhen Li, Qian Zhang, Peilu Zhu, Jimin Zhan, Yunfu Li, Zhen Li, Liang Dong, Qing Xiong, Jiahao Liao, Jie Liu, David Jackson, Munenori Kitagawa, Zuxin Zhang, Lei Liu   +15 more
wiley   +1 more source

How can Sequence Alignment Method Affect the Phylogenetic Relationship Results?

Scientific Papers Animal Science and Biotechnologies, 2023
Sequence alignment is a fundamental step before analysing the phylogenetic relationships between organisms. The effect of the alignment method on the phylogenetic relationship results has not been well studied.
Hossam F. Abou-Shaara
doaj  

STRING v10: protein–protein interaction networks, integrated over the tree of life

Nucleic Acids Res., 2014
The many functional partnerships and interactions that occur between proteins are at the core of cellular processing and their systematic characterization helps to provide context in molecular systems biology.
Damian Szklarczyk, Andrea Franceschini, S. Wyder, K. Forslund, Davide Heller, J. Huerta-Cepas, M. Simonovic, Alexander C. J. Roth, Alberto Santos, K. Tsafou, Michael Kuhn, P. Bork, L. Jensen, C. V. Mering   +13 more
semanticscholar   +1 more source

Modern and Ancient Genomes Reveal Neolithic Paternal Expansions of Millet and Rice Farmers and Demic Diffusion from China into Mainland Southeast Asia

Advanced Science, EarlyView.
This study clarifies the genetic patterns of paternal lineages across East Asia and Mainland Southeast Asia. Han populations are relatively homogeneous, whereas southern ethnolinguistic minorities display regional structures. Shared Y‐chromosome lineages indicate Neolithic expansions and extensive north‐south gene flow, supporting demic diffusion ...
Yunhui Liu, Lintao Luo, Yutong Jiang, Minzhu Zhao, Ting Yang, Zhiyong Wang, Lisiteng Luo, Yuhang Feng, Zihao Zhu, Yuzhu Wang, Limei Zhang, Bofeng Zhu, Chao Liu, Renkuan Tang, Mengge Wang, Guanglin He   +15 more
wiley   +1 more source

Phylogenetic search through partial tree mixing

BMC Bioinformatics, 2012
Background Recent advances in sequencing technology have created large data sets upon which phylogenetic inference can be performed. Current research is limited by the prohibitive time necessary to perform tree search on a reasonable number of ...
Sundberg Kenneth, Clement Mark, Snell Quinn, Ventura Dan, Whiting Michael, Crandall Keith   +5 more
doaj   +1 more source

PhyloPattern: regular expressions to identify complex patterns in phylogenetic trees

BMC Bioinformatics, 2009
Background To effectively apply evolutionary concepts in genome-scale studies, large numbers of phylogenetic trees have to be automatically analysed, at a level approaching human expertise.
Pontarotti Pierre, Thompson Julie D, Gouret Philippe   +2 more
doaj   +1 more source