Results 71 to 80 of about 149,860 (254)

Stability analysis of phylogenetic trees [PDF]

Bioinformatics, 2012
Abstract Motivation: Phylogenetics, or reconstructing the evolutionary relationships of organisms, is critical for understanding evolution. A large number of heuristic algorithms for phylogenetics have been developed, some of which enable estimates of trees with tens of thousands of taxa. Such trees may not be robust, as small changes in
Saad I. Sheikh, Tamer Kahveci, Sanjay Ranka, J. Gordon Burleigh   +3 more
openaire   +2 more sources

A Pentaradial and Bilateral Combined Photoreception System in the Sea Cucumber is Mediated by a Blue Light‐Sensitive R‐Opsin

Advanced Science, EarlyView.
The sea cucumber Holothuria leucospilota detects blue and adjacent wavelengths of light via an r‐opsin with a maximum absorption at 459 nm. In the oral tentacles, papillae, and tube feet, distinct light‐sensing structures with specialized morphologies are formed, constituting a unique pentaradial and bilateral combined photoreception system.
Jiasheng Huang, Chunhua Ren, Zhou Qin, Yimeng Cui, Bingbing Zhang, Peng Luo, Xuan Wang, Yaoqi Xie, Xin Zhang, Aifen Yan, Yang Zhang, Dingding Fan, Yang Liu, Wenjie Pan, Xiao Jiang, Lihong Yuan, Haipeng Qin, David M. Irwin, Chaoqun Hu, Yang Liu, Ting Chen   +20 more
wiley   +1 more source

Mean and Variance of Phylogenetic Trees [PDF]

Systematic Biology, 2019
Abstract We describe the use of the Fréchet mean and variance in the Billera–Holmes–Vogtmann (BHV) treespace to summarize and explore the diversity of a set of phylogenetic trees. We show that the Fréchet mean is comparable to other summary methods, and, despite its stickiness property, is more likely to be binary than the majority-rule ...
Brown, Daniel G., Owen, Megan
openaire   +3 more sources

Cross Kingdom Metabolic Engineering Paradigm Elevating Sustainable Protein Production

Advanced Science, EarlyView.
ABSTRACT Confronting the dual crisis of escalating global protein demand and unsustainable agriculture necessitates transformative solutions. Here, we pioneer evolutionary insights from maize nitrogen optimization via asparagine synthetase (ASNS) to rewire metabolism in Pichia pastoris.
Yuanyuan Du, Changyu Pi, Kai Hong, Le Gao, Xin Wu   +4 more
wiley   +1 more source

Adaptation to Leaf Traits of Individual Trees in a Forest Appears Rare in Caterpillars

Ecology and Evolution
High herbivore abundances on trees surrounded by distantly related neighbors (phylogenetic isolation) might in part be due to local adaptation of herbivores to host trees, but this has not been tested.
Freerk Molleman, Anna Sokół‐Łętowska, Soumen Mallick, Andreas Prinzing, Urszula Walczak   +4 more
doaj   +1 more source

Two Routes to Land: Genomic Underpinnings of Parallel Aerial Egg Deposition in Aquatic Old‐World Pila and New‐World Pomacea (Ampullariidae)

Advanced Science, EarlyView.
Comparative genomics of Gondwana‐diverged Pila and Pomacea reveals parallel evolution of aerial oviposition. Convergent chromosomal rearrangements reshape regulatory landscapes within topologically associating domains. Lineage‐specific gene family expansions and viral‐derived perivitelline proteins (PV1) underpin desiccation resistance.
Yufei Zhou, Huawei Mu, Xueying Nie, Yue Gao, Hui Wang, Ling Fang, Tiangang Luan, Monthon Ganmanee, Jian‐Wen Qiu, Jin Sun, Jack Chi‐Ho Ip   +10 more
wiley   +1 more source

PhyloJS: Bridging phylogenetics and web development with a JavaScript utility library

Ecology and Evolution
There is an increasing number of libraries devoted to parsing, manipulating and visualising phylogenetic trees in JavaScript. Many of these libraries bundle tree manipulation with visualisation, but have limited ability to manipulate trees and lack ...
Leo A. Featherstone, Wytamma Wirth
doaj   +1 more source

MFPD: A Multiple Fungal Pathogen Detection Pipeline Across Diverse Habitats

Advanced Science, EarlyView.
The MFPD pipeline integrates a comprehensive ITS reference database of fungal pathogens, optimized parameters, and algorithms tailored for both full‐length and subregion sequences that balance accuracy and computational efficiency; it enables high‐throughput, species‐level identification from amplicon sequencing data, supporting large‐scale ...
Yi Shen, Xinrun Yang, Jiabao Yu, Yaozhong Zhang, Tianjie Yang, Yang Gao, Xiaofang Wang, Alexandre Jousset, Waseem Raza, Fang‐Jie Zhao, Qirong Shen, Gaofei Jiang, Zhong Wei, Yangchun Xu   +13 more
wiley   +1 more source

Polychip‐A High‐Throughput Droplet Microfluidics Platform for Interrogating Microbial Interactions

Advanced Science, EarlyView.
Polychip, a fully integrated droplet microfluidics platform, enables high‐throughput, single‐cell resolution screening of polymicrobial interactions. By seamlessly combining six automated microfluidics operations on a single chip, the system accelerates antimicrobial discovery by 11 to 14 times compared to traditional robotic methods.
Jeong Jae Han, Adrian Ryan Guzman, Aifen Zhou, Han Zhang, Rohit Gupte, Haemin Jung, Kaylee Delgado, Sini Skariah, Ali Sultan, Arul Jayaraman, Paul de Figueiredo, Arum Han   +11 more
wiley   +1 more source

Discovery and Engineering of a Rat Endogenous Retrovirus Reverse Transcriptase for Efficient Prime Editing

Advanced Science, EarlyView.
We screened 558 reverse transcriptases and engineered an optimized rat endogenous retrovirus‐derived variant, enRERV‐RT, via structure‐guided engineering and deep mutational scanning. This enhanced prime editor, based on the engineered RT, outperforms conventional M‐MLV‐RT systems across plant and animal cells, particularly at hard‐to‐edit loci ...
Linsha Ma, Pengcheng Yao, Shengqi Wu, Yuanyuan Shi, Lang Qin, Baitao Li, Jiayi Zhu, Minhua Huang, Yichong Zhu, Yuwen Song, Jinhuan Pang, Ziping Guo, Guochuan Wu, Chen Wang, Kewei Xu, Ruihua Huang, Quan Kuang, Liang Qu, Changtian Pan, Xianrong Xie, Qinlong Zhu, Jiaying Huang, Qiupeng Lin   +22 more
wiley   +1 more source