Life in space by Levin, S

“…It has helped explain social behaviours across the tree of life, including, via the major transitions view of evolution, the history of life itself. …”

The Phytomonas cell surface proteome: Insights into the evolution of the parasite-host interface in Trypanosomatids by Jaskowska, E

“…<p>The trypanosomatids are a diverse group of obligate parasitic eukaryotes that have adapted to colonise multicellular and unicellular hosts that span the eukaryotic tree of life. The genetic resources that have enabled trypanosomatids to colonise such a diverse range of hosts are largely unknown. …”

Density dependent environments can select for extremes of body size by Coulson, T, Felmy, A, Potter, T, Passoni, G, Montgomery, RA, Gaillard, J-M, Hudson, PJ, Travis, J, Bassar, RD, Tuljapurkar, SD, Marshall, D, Clegg, SM

“…Empirical application of the approach we develop has potential to help explain the enigma of body size variation across the tree of life.…”

A light-sensing system in the common ancestor of the fungi by Galindo, LJ, Milner, DS, Gomes, SL, Richards, TA

“…Our data imply, independently of how the fungal tree of life is rooted, that the apparatus for a CyclOp-organelle light perception system was an ancestral feature of the fungi.…”

Mapping whole genome shotgun sequence and variant calling in mammalian species without their reference genomes [v2; ref status: indexed, http://f1000r.es/2x3] by Ted Kalbfleisch, Michael P Heaton

“…However, the number of species with reference genomes is small compared to those needed for studying molecular evolutionary relationships in the tree of life.  For example, among the even-toed ungulates there are approximately 300 species whose phylogenetic relationships have been calculated in the 10k trees project.  …”
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Bursts of Genomic Instability Potentiate Phenotypic and Genomic Diversification in Saccharomyces cerevisiae by Lydia R. Heasley, Juan Lucas Argueso

“…Stochastic phenotype switching, a particularly fascinating adaptive approach observed in numerous species across the tree of life, introduces phenotypic diversity into a population through mechanisms which have remained difficult to define. …”
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Understanding Diversity, Evolution, and Structure of Small Heat Shock Proteins in Annelida Through in Silico Analyses by Mercedes de la Fuente, Marta Novo

“…Here, a data set of 23 species spanning the annelid tree of life, including mostly transcriptomes but also two genomes, was interrogated and 228 novel putative sHsps were identified and manually curated. …”
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Bacterial Microbiome in the Phyllo-Endosphere of Highly Specialized Rock Spleenwort by Valerie F. Masocha, Hongmei Liu, Pingshan Zhan, Kaikai Wang, Kaikai Wang, Ao Zeng, Sike Shen, Sike Shen, Harald Schneider

“…To understand the ecological and evolutionary impact of these mutualistic associations, it is important to explore the vast unknown territory of bacterial genomic diversity and their functional contributions associated with the major branches of the tree-of-life. Arguably, this aim can be achieved by profiling bacterial communities by applying high throughput sequencing approaches, besides establishing model plant organisms to test key predictions. …”
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Phylogenetic Analyses Support the Monophyly of the Genus <i>Lispe</i> Latreille (Diptera: Muscidae) with Insights into Intrageneric Relationships by Yunyun Gao, Yingqiang Ge, Liping Yan, Nikita E. Vikhrev, Qike Wang, Nathan J. Butterworth, Dong Zhang

“…To address the phylogenetic placement of <i>Lispe</i> and to fill its gap in the Tree of Life Web Project, 58 <i>Lispe</i> spp. (covering 11 out of 13 acknowledged <i>Lispe</i> species groups) were selected to reconstruct a phylogeny using Maximum likelihood (ML) estimates, Maximum Parsimony (MP) analyses, and Bayesian inference (BI) based on two mitochondrial protein-coding genes (cytochrome c oxidase subunit I (COXI) and cytochrome b gene (CYTB)) and one nuclear gene (a fragment of the carbamoyl phosphate synthetase region of the CAD gene). …”
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BPhyOG: An interactive server for genome-wide inference of bacterial phylogenies based on overlapping genes by Lin Kui, Zhang Da-Yong, Fu Cong, Luo Yingqin

“…It is a useful tool for analyzing the tree of life and overlapping genes from a genomic standpoint.…”
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More Than DNA Methylation: Does Pleiotropy Drive the Complex Pattern of Evolution of Dnmt1? by Ashley U. Amukamara, Joshua T. Washington, Zachary Sanchez, Elizabeth C. McKinney, Allen J. Moore, Robert J. Schmitz, Patricia J. Moore

“…Variation in the level of DNA methylation and gains and losses in the maintenance methyltransferase, DNMT1, across the insect tree of life suggests that there is much we don't understand about DMNT1 function and evolution. …”
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Adaptive divergence in shell morphology in an ongoing gastropod radiation from Lake Malawi by Bert Van Bocxlaer, Claudia M. Ortiz-Sepulveda, Pieter R. Gurdebeke, Xavier Vekemans

“…As a result, we lack accurate knowledge on the drivers of diversification for most evolutionary radiations along the tree of life. Freshwater mollusks present an enigmatic example: Putatively adaptive radiations are being described in various families, typically from long-lived lakes, whereas other taxa represent celebrated model systems in the study of ecophenotypic plasticity. …”
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Occurrence and Diversity of Biofilm Producing Multidrug Resistant Escherichia coli in Dug Wells Used for Domestic Purposes in Ile-Ife, Southwest Nigeria by B. Odetoyin

“…The diversity of the isolates was investigated using (GTG)5-PCR, and a dendrogram was drawn with interactive-tree-of-life software. Overall, 45 of 60 (75%) isolates produced biofilms, comprising strong (n=15; 25%), moderate (n=16; 26.7%), and weak (n=14; 23.3%) producers. …”
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Palps across the tree – the neuronal innervation and development of sensory head appendages in Annelida by Paul Kalke, Samira S. Linder, Patrick Beckers, Conrad Helm

“…With special focus on the palp-like appendages, our data provides a closer look into the development of the larval anterior nervous system and the related sensory structures of three polychaete families representing major groups of the annelid tree of life. Hence, we investigate members of the palaeoannelid Magelonidae as well as basally-branching Amphinomidae, and the pleistoannelid Spionidae forming a taxon deeply nested within Sedentaria. …”
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Structure and evolution of the plant cation diffusion facilitator family of ion transporters by Zanis Michael J, Gustin Jeffery L, Salt David E

“…Among these, 5 of the 7 groups are likely to have originated at the base of the tree of life, and 2 of 7 groups appear to be derived from a duplication event prior to or coincident with land plant evolution. …”
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Joint inference of evolutionary transitions to self-fertilization and demographic history using whole-genome sequences by Stefan Strütt, Thibaut Sellinger, Sylvain Glémin, Aurélien Tellier, Stefan Laurent

“…The evolution from outcrossing to selfing occurred recently across the eukaryote tree of life in plants, animals, fungi, and algae. Despite short-term advantages, selfing is hypothetically an evolutionary dead-end reproductive strategy. …”
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Population-specific association of Clock gene polymorphism with annual cycle timing in stonechats by Hannah Justen, Timo Hasselmann, Juan Carlos Illera, Kira E. Delmore, David Serrano, Heiner Flinks, Masayuki Senzaki, Kazuhiro Kawamura, Barbara Helm, Miriam Liedvogel

“…Abstract Timing is essential for survival and reproduction of organisms across the tree of life. The core circadian clock gene Clk is involved in the regulation of annual timing events and shows highly conserved sequence homology across vertebrates except for one variable region of poly-glutamine repeats. …”
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Dollo-CDP: a polynomial-time algorithm for the clade-constrained large Dollo parsimony problem by Junyan Dai, Tobias Rubel, Yunheng Han, Erin K. Molloy

“…Dollo parsimony, which requires traits/mutations to be gained at most once but allows them to be lost any number of times, is widely used for tumor phylogenetics as well as species phylogenetics, for example analyses of low-homoplasy retroelement insertions across the vertebrate tree of life. This motivated us to implement our algorithm in a software package, called Dollo-CDP, and evaluate its utility for analyzing retroelement insertion presence / absence patterns for bats, birds, toothed whales as well as simulated data. …”
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‘Piazzale Loreto’ in Milan, from the ‘20s to the Present. Architectural and Historical Memories from a Space of Dis/Affection by Silvia Colombo

“…All these difficulties are still demonstrated by the most recent debate, based on the (unrealized) idea that piazzale Loreto should house the Tree of Life Expo 2015. …”
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Evolutionary Study of Disorder in Protein Sequences by Kristina Kastano, Gábor Erdős, Pablo Mier, Gregorio Alanis-Lobato, Vasilis J. Promponas, Zsuzsanna Dosztányi, Miguel A. Andrade-Navarro

“…IDPs are present across the tree of life, with great variability of IDR type and frequency even between closely related taxa. …”
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