Results 21 to 30 of about 209,245 (257)

The highly rearranged mitochondrial genomes of the crabs Maja crispata and Maja squinado (Majidae) and gene order evolution in Brachyura [PDF]

, 2017
We sequenced the mitochondrial genomes of the spider crabs Maja crispata and Maja squinado (Majidae, Brachyura). Both genomes contain the whole set of 37 genes characteristic of Bilaterian genomes, encoded on both \u3b1- and \u3b2-strands.
AD Miller, AE Smith, AH Sahyoun, AT Beckenbach, BQ Minh, C Hahn, C Moritz, DR Wolstenholme, DV Lavrov, E Negrisolo, F Jühling, F Kilpert, FJ Lin, G Shi, G Shi, G Sotelo, G Tan, G Tang, H Ma, H Shen, H Shimodaira, H Sun, I Marcadé, IM Fearnley, J Yang, JD Thompson, JL Boore, JL Boore, JL Boore, JL Boore, JM Sung, JM Sung, JS Ki, K Strimmer, K Tamura, LM Tsang, LS Quang, LT Nguyen, M Babbucci, M Bernt, M Bernt, M Bernt, M Dowton, M Hui, MH Tan, MH Tan, MM Yamauchi, N Lartillot, NT Perna, O Rota-Stabelli, P Cantatore, P Salvato, R Lanfear, R Raimond, RD Segawa, S Grave De, S Montelli, S Saito, SF Altschul, SJ Kim, SL Cameron, TA Rawlings, TM Lowe, X Wang, Y Xing, YK Ji, YQ Yu, Z Yang   +67 more
core   +1 more source

Going nuclear: gene family evolution and vertebrate phylogeny reconciled [PDF]

, 2002
Gene duplications have been common throughout vertebrate evolution, introducing paralogy and so complicating phylogenctic inference from nuclear genes.
James A. Cotton, Janvier P., Mallatt J., Pamilo P., Roderic D. M. Page, Zardoya R., Zardoya R.   +6 more
core   +4 more sources

Integrated pipeline for inferring the evolutionary history of a gene family embedded in the species tree: a case study on the STIMATE gene family

BMC Bioinformatics, 2017
Background Because phylogenetic inference is an important basis for answering many evolutionary problems, a large number of algorithms have been developed.
Jia Song, Sisi Zheng, Nhung Nguyen, Youjun Wang, Yubin Zhou, Kui Lin   +5 more
doaj   +1 more source

Hierarchy and Feedback in the Evolution of the E. coli Transcription Network [PDF]

, 2007
The E.coli transcription network has an essentially feedforward structure, with, however, abundant feedback at the level of self-regulations. Here, we investigate how these properties emerged during evolution.
Atkinson, B. Bassetti, Babu, Becskei, Charlebois, Conant, Dekel, Gough, H. Isambert, Harbison, Lagomarsino, Lee, M. Cosentino Lagomarsino, Ma, Ma, Madan Babu, Mazurie, Milo, P. Jona, P  l, Rosenfeld, Salgado, Schneider, Shen-Orr, Teichmann, Thieffry, Thomas, Wall, Warren   +28 more
core   +2 more sources

Multiple Optimal Reconciliations Under the Duplication-Loss-Coalescence Model

IEEE/ACM Transactions on Computational Biology & Bioinformatics, 2019
Gene trees can differ from species trees due to a variety of biological phenomena, the most prevalent being gene duplication, horizontal gene transfer, gene loss, and coalescence.
Haoxing Du, Yi Sheng Ong, Marina Knittel, Ross Mawhorter, Nuo Liu, Gianluca Gross, Reiko Tojo, R. Libeskind-Hadas, Yi-Chieh Wu   +8 more
semanticscholar   +1 more source

Network Models of Phage-Bacteria Coevolution [PDF]

, 2006
Bacteria and their bacteriophages are the most abundant, widespread and diverse groups of biological entities on the planet. In an attempt to understand how the interactions between bacteria, virulent phages and temperate phages might affect the ...
Dodd, Ian B., Krishna, Sandeep, Rosvall, Martin, Sneppen, Kim   +3 more
core   +2 more sources

Fast and accurate methods for phylogenomic analyses

BMC Bioinformatics, 2011
Background Species phylogenies are not estimated directly, but rather through phylogenetic analyses of different gene datasets. However, true gene trees can differ from the true species tree (and hence from one another) due to biological processes such ...
Warnow Tandy, Yang Jimmy
doaj   +1 more source

Genomic Expansion of Magnetotactic Bacteria Reveals an Early Common Origin of Magnetotaxis with Lineage-specific Evolution [PDF]

, 2018
The origin and evolution of magnetoreception, which in diverse prokaryotes and protozoa is known as magnetotaxis and enables these microorganisms to detect Earth’s magnetic field for orientation and navigation, is not well understood in evolutionary ...
A Gurevich, A Stamatakis, A Stamatakis, ACV Araujo, Andrew P. Roberts, B Ji, C Esser, C Jogler, C Jogler, C Jogler, CT Lefèvre, CT Lefèvre, CT Lefèvre, CT Lefèvre, CT Lefèvre, D Darriba, DA Bazylinski, DD Kang, Dennis A. Bazylinski, DH Parks, EF DeLong, EK Field, F Abreu, F Abreu, Greig A. Paterson, H Fullerton, HH Lin, I Letunic, JB Rioux, JL Kirschvink, K Anantharaman, K Laufer, K Tamura, KT Konstantinidis, LC Benjamin, LM Rodriguez-R, M Winklhofer, MN Price, MP Ferla, N Segata, R Uebe, RB Frankel, RC Edgar, S Kolinko, S Kolinko, S Kolinko, S Nurk, S Schübbe, S Spring, S Spring, S Ullrich, SF Altschul, SL Simmons, T Sakaguchi, T Seemann, V Morillo, W Li, W Lin, W Lin, W Lin, W Lin, W Lin, W Lin, W Lin, Wei Lin, Wensi Zhang, Xiang Zhao, Yongxin Pan   +67 more
core   +3 more sources

The UlaG protein family defines novel structural and functional motifs grafted on an ancient RNase fold

BMC Evolutionary Biology, 2011
Background Bacterial populations are highly successful at colonizing new habitats and adapting to changing environmental conditions, partly due to their capacity to evolve novel virulence and metabolic pathways in response to stress conditions and to ...
Coll Miquel, Baldomà Laura, Aguilar Juan, López-Estepa Miguel, Garces Fernando, Fernandez Francisco J, Badia Josefa, Vega M Cristina   +7 more
doaj   +1 more source

Expansive evolution of the TREHALOSE-6-PHOSPHATE PHOSPHATASE gene family in Arabidopsis [PDF]

, 2012
Trehalose is a nonreducing sugar used as a reserve carbohydrate and stress protectant in a variety of organisms. While higher plants typically do not accumulate high levels of trehalose, they encode large families of putative trehalose biosynthesis genes.
Avonce, Nelson, Beeckman, Tom, Feil, Regina, Lammens, Willem, Lopez Galvis, Lorena, Lunn, John E, Maere, Steven, Rolland, Filip, Van Dijck, Patrick, Vandesteene, Lies, Vanneste, Kevin   +10 more
core   +2 more sources