Results 111 to 120 of about 850,464 (362)

Transforming phylogenetic networks: Moving beyond tree space [PDF]

arXiv, 2016
Phylogenetic networks are a generalization of phylogenetic trees that are used to represent reticulate evolution. Unrooted phylogenetic networks form a special class of such networks, which naturally generalize unrooted phylogenetic trees. In this paper we define two operations on unrooted phylogenetic networks, one of which is a generalization of the ...
arxiv  

Shrimp Virus Regulates ROS Dynamics via the Nrf2 Pathway to Facilitate Viral Replication

Advanced Science, EarlyView.
Viruses manipulate host ROS as a strategy to achieve successful infection. WSSV exploits Nrf2 pathway to maintain ROS homeostasis and establishes a positive feedback loop to facilitate WSSV replication. Wsv220 competitively binds to Keap1 to activate Nrf2. Nrf2 up‐regulates LvG6PDH to produce more NADPH and GSH to eliminate excessive ROS.
Honghui He, Kai Yuan, Junming Pan, Shaoping Weng, Chaozheng Li, Yihong Chen, Jianguo He   +6 more
wiley   +1 more source

TNT, a free program for phylogenetic analysis

, 2008
The main features of the phylogeny program TNT are discussed. Windows versions have a menu interface, while Macintosh and Linux versions are command‐driven.
P. Goloboff, J. Farris, K. Nixon
semanticscholar   +1 more source

Unveiling Structural Heterogeneity and Evolutionary Adaptations of Heteromultimeric Bacterioferritin Nanocages

Advanced Science, EarlyView.
This study explores the structural heterogeneity and evolutionary adaptations of heteromultimeric bacterioferritins. Hetero‐Bfrs, evolved from either a homo‐Bfr or Ftn by gene duplications, differ from homo‐Bfrs substantially in the mechanisms underpinning iron oxidation and reduction despite high similarity in overall structure.
Yingxi Li, Weiwei Wang, Wei Wang, Xing Zhang, Jinghua Chen, Haichun Gao   +5 more
wiley   +1 more source

Phylogenetic diversity and biodiversity indices on phylogenetic networks [PDF]

arXiv, 2017
In biodiversity conservation it is often necessary to prioritize the species to conserve. Existing approaches to prioritization, e.g. the Fair Proportion Index and the Shapley Value, are based on phylogenetic trees and rank species according to their contribution to overall phylogenetic diversity.
arxiv  

Unrealistic phylogenetic trees may improve phylogenetic footprinting [PDF]

Bioinformatics, 2017
Abstract Motivation The computational investigation of DNA binding motifs from binding sites is one of the classic tasks in bioinformatics and a prerequisite for understanding gene regulation as a whole.
Nettling, Martin, Treutler, Hendrik, Cerquides, Jesús, Grosse, Ivo   +3 more
openaire   +4 more sources

Correlation Between Fecal Microbiota and Corticosteroid Responsiveness in Primary Immune Thrombocytopenia: an Exploratory Study

Advanced Science, EarlyView.
This study uses gut microbiome data to predict corticosteroid response in patients with immune thrombocytopenia (ITP). Fecal samples from 212 patients with ITP are sequenced. Six machine‐learning algorithms are used to train predictive models. The support vector machine‐based model integrated clinical data and selected microbial species, diversities ...
Feng‐Qi Liu, Zhuo‐Yu An, Li‐Juan Cui, Meng‐Yu Xiao, Ye‐Jun Wu, Wei Li, Bang‐Shuo Zhang, Li Yu, Jia Feng, Zhuo‐Gang Liu, Ru Feng, Zhong‐Xing Jiang, Rui‐Bin Huang, Hong‐Mei Jing, Jin‐Hai Ren, Xiao‐Yu Zhu, Yun‐Feng Cheng, Yu‐Hua Li, He‐Bing Zhou, Da Gao, Yi Liu, Fan Yu, Xin Wang, Jian‐Lin Qiao, Dai‐Hong Hu, Lu‐Lu Wang, Meng‐Tong Zang, Qi Chen, Qing‐Yuan Qu, Jian‐Ying Zhou, Meng‐Lin Li, Yu‐Xiu Chen, Qiu‐Sha Huang, Hai‐Xia Fu, Yue‐Ying Li, Qian‐Fei Wang, Xiao‐Jun Huang, Xiao‐hui Zhang, the Cooperative ITP Working Group   +38 more
wiley   +1 more source

TESTING FOR PHYLOGENETIC SIGNAL IN COMPARATIVE DATA: BEHAVIORAL TRAITS ARE MORE LABILE

Evolution; international journal of organic evolution, 2003
The primary rationale for the use of phylogenetically based statistical methods is that phylogenetic signal, the tendency for related species to resemble each other, is ubiquitous. Whether this assertion is true for a given trait in a given lineage is an
S. Blomberg, T. Garland, A. Ives
semanticscholar   +1 more source

Genome‐Wide Association Studies Reveal the Genetic Architecture of Ionomic Variation in Grains of Tartary Buckwheat

Advanced Science, EarlyView.
In this study, variation and genetic basis of ionome among Tartary buckwheat population are investigated, illuminating their significance in the domestication and diversification of Tartary buckwheat. And three genes (FtACA13 for Na content, FtYPQ1 for Zn content, FtNHX2 for As content) are identified with the dominant haplotypes and functional ...
Zhirong Wang, Yuqi He, Mengyu Zhao, Xiang‐Qian Liu, Hao Lin, Yaliang Shi, Kaixuan Zhang, Guijie Lei, Dili Lai, Tong Liu, Xiaoyang Peng, Jiayue He, Wei Li, Xiangru Wang, Sun‐Hee Woo, Muriel Quinet, Alisdair R. Fernie, Xin‐Yuan Huang, Meiliang Zhou   +18 more
wiley   +1 more source

TreeOTU: Operational Taxonomic Unit Classification Based on Phylogenetic Trees [PDF]

arXiv, 2013
Our current understanding of the taxonomic and phylogenetic diversity of cellular organisms, especially the bacteria and archaea, is mostly based upon studies of sequences of the small- subunit rRNAs (ssu-rRNAs). To address the limitation of ssu-rRNA as a phylogenetic marker, such as copy number variation among organisms and complications introduced by
arxiv