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https://www.readbyqxmd.com/read/28731831/toward-a-predictive-framework-for-convergent-evolution-integrating-natural-history-genetic-mechanisms-and-consequences-for-the-diversity-of-life
#1
Anurag A Agrawal
A charm of biology as a scientific discipline is the diversity of life. Although this diversity can make laws of biology challenging to discover, several repeated patterns and general principles govern evolutionary diversification. Convergent evolution, the independent evolution of similar phenotypes, has been at the heart of one approach to understand generality in the evolutionary process. Yet understanding when and why organismal traits and strategies repeatedly evolve has been a central challenge. These issues were the focus of the American Society of Naturalists Vice Presidential Symposium in 2016 and are the subject of this collection of articles...
August 2017: American Naturalist
https://www.readbyqxmd.com/read/28731801/diversification-of-trait-combinations-in-coevolving-plant-and-insect-lineages
#2
John N Thompson, Christopher Schwind, Magne Friberg
Closely related species often have similar traits and sometimes interact with the same species. A crucial problem in evolutionary ecology is therefore to understand how coevolving species diverge when they interact with a set of closely related species from another lineage rather than with a single species. We evaluated geographic differences in the floral morphology of all woodland star plant species (Lithophragma, Saxifragaceae) that are pollinated by Greya (Prodoxidae) moths. Flowers of each woodland star species differed depending on whether plants interact locally with one, two, or no pollinating moth species...
August 2017: American Naturalist
https://www.readbyqxmd.com/read/28731800/natural-history-constrains-the-macroevolution-of-foot-morphology-in-european-plethodontid-salamanders
#3
Dean C Adams, Dana Korneisel, Morgan Young, Annamaria Nistri
The natural history of organisms can have major effects on the tempo and mode of evolution, but few examples show how unique natural histories affect rates of evolution at macroevolutionary scales. European plethodontid salamanders (Plethodontidae: Hydromantes) display a particular natural history relative to other members of the family. Hydromantes commonly occupy caves and small crevices, where they cling to the walls and ceilings. On the basis of this unique and strongly selected behavior, we test the prediction that rates of phenotypic evolution will be lower in traits associated with climbing...
August 2017: American Naturalist
https://www.readbyqxmd.com/read/28731798/most-colorful-example-of-genetic-assimilation-exploring-the-evolutionary-destiny-of-recurrent-phenotypic-accommodation
#4
Alexander V Badyaev, Ahva L Potticary, Erin S Morrison
Evolution of adaptation requires both generation of novel phenotypic variation and retention of a locally beneficial subset of this variation. Such retention can be facilitated by genetic assimilation, the accumulation of genetic and molecular mechanisms that stabilize induced phenotypes and assume progressively greater control over their reliable production. A particularly strong inference into genetic assimilation as an evolutionary process requires a system where it is possible to directly evaluate the extent to which an induced phenotype is progressively incorporated into preexisting developmental pathways...
August 2017: American Naturalist
https://www.readbyqxmd.com/read/28731794/a-neutral-model-for-the-evolution-of-diet-breadth
#5
Matthew L Forister, Stephen H Jenkins
Variation in diet breadth among organisms is a pervasive feature of the natural world that has resisted general explanation. In particular, trade-offs in the ability to use one resource at the expense of another have been expected but rarely detected. We explore a spatial model for the evolution of specialization, motivated by studies of plant-feeding insects. The model is neutral with respect to the causes and consequences of diet breadth: the number of hosts utilized is not constrained by trade-offs, and specialization or generalization does not confer a direct advantage with respect to the persistence of populations or the probability of diversification...
August 2017: American Naturalist
https://www.readbyqxmd.com/read/28731541/demography-and-genome-divergence-of-lake-and-stream-populations-of-an-east-african-cichlid-fish
#6
Bernd Egger, Marius Rösti, Astrid Böhne, Olivia Roth, Walter Salzburger
Disentangling the processes and mechanisms underlying divergent selection in diversification is facilitated by the comparative study of replicate population pairs that have diverged along a similar environmental gradient. Such a setting is realized in a cichlid fish from southern Lake Tanganyika, Astatotilapia burtoni, which occurs both within the lake proper as well as in various affluent rivers. Previous studies demonstrated that independent lake and stream populations show respectively similar adaptations to the two habitat regimes...
July 21, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28730959/chemometric-analysis-of-inter-and-intra-molecular-diversification-factors-by-a-training-simplex-approach-a-review-and-research-on-astragalus-saponins
#7
Abir Sarraj-Laabidi, Habib Messai, Asma Hammami-Semmar Hammami-Semmar, Nabil Semmar
Metabolisms represent highly organized systems characterized by strong regulations obeying to mass conservation principle. This makes the whole chemical resource to be competitively shared at both intra-and inter-molecular scales. Whole resource sharing can be statistically associated to a constant sum-unit constraint which represents the basis of simplex mixture rule. In this work, a new simplex-based simulation approach was developed to learn scaffold information on metabolic processes controlling molecular diversity from a wide set of observed chemical structures...
July 19, 2017: Current Topics in Medicinal Chemistry
https://www.readbyqxmd.com/read/28729652/a-genomic-glance-through-the-fog-of-plasticity-and-diversification-in-pocillopora
#8
Erika C Johnston, Zac H Forsman, Jean-François Flot, Sebastian Schmidt-Roach, Jorge H Pinzón, Ingrid S S Knapp, Robert J Toonen
Scleractinian corals of the genus Pocillopora (Lamarck, 1816) are notoriously difficult to identify morphologically with considerable debate on the degree to which phenotypic plasticity, introgressive hybridization and incomplete lineage sorting obscure well-defined taxonomic lineages. Here, we used RAD-seq to resolve the phylogenetic relationships among seven species of Pocillopora represented by 15 coral holobiont metagenomic libraries. We found strong concordance between the coral holobiont datasets, reads that mapped to the Pocillopora damicornis (Linnaeus, 1758) transcriptome, nearly complete mitochondrial genomes, 430 unlinked high-quality SNPs shared across all Pocillopora taxa, and a conspecificity matrix of the holobiont dataset...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28727934/phylogenomics-reveals-a-complex-evolutionary-history-of-lobed-leaf-white-oaks-in-western-north-america
#9
John D McVay, Duncan Hauser, Andrew L Hipp, Paul Manos
Quercus (oak) species hybridize in complex patterns that have yet to be fully explored with phylogenomic data. Analyses to date have recovered reasonable divergent patterns, suggesting that the impact of introgression may not always be obvious in inferred oak phylogenies. We explore this phenomenon using RADseq data for 136 samples representing 54 oak species by conducting phylogenetic analyses designed to distinguish signals of lineage diversification and hybridization, focusing on the lobed-leaf species Quercus gambelii, Q...
July 20, 2017: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/28727933/genotype-specific-acquisition-evolution-and-adaptation-of-characteristic-mutations-in-hepatitis-e-virus
#10
Aqsa Ikram, Mohamad S Hakim, Jian-Hua Zhou, Wenshi Wang, Maikel P Peppelenbosch, Qiuwei Pan
Hepatitis E virus (HEV) infection is a major cause of acute hepatitis but also provokes chronic infection in immunocompromised patients. Although the pathogenesis and treatment outcome involve complex interplay between the virus and host, the nature of adaptive responses of HEV to the host immune system remain obscure at best. In this study, we employed large-scale proteomic bioinformatics to profile characteristic mutations in human HEV isolates associated to ribavirin treatment failure, chronic hepatitis, hepatic failure or altered immunoreactivity...
July 20, 2017: Virulence
https://www.readbyqxmd.com/read/28727278/phylogeny-determines-flower-size-dependent-sex-allocation-at-flowering-in-a-hermaphroditic-family
#11
A L Teixido, B Guzmán, V G Staggemeier, F Valladares
1.In animal-pollinated hermaphroditic plants, optimal floral allocation determines relative investment into sexes, which is ultimately dependent on flower size. Larger flowers disproportionally increase maleness whereas smaller and less rewarding flowers favor female function. Although floral traits are thought to be strongly conserved, phylogenetic relationships in the interspecific patterns of resource allocation to floral sex remain overlooked. We investigated these patterns in Cistaceae, a hermaphroditic family...
July 20, 2017: Plant Biology
https://www.readbyqxmd.com/read/28725387/origins-of-two-hemiclonal-hybrids-among-three-hexagrammos-species-teleostei-hexagrammidae-genetic-diversification-through-host-switching
#12
Hiroyuki Munehara, Miho Horita, Motoko R Kimura-Kawaguchi, Aya Yamazaki
Two natural, hemiclonal hybrid strains were discovered in three Hexagrammos species. The natural hybrids, all of which were females that produced haploid eggs containing only the Hexagrammos octogrammus genome (maternal ancestor; hereafter Hoc), generated F1 hybrid-type offspring by fertilization with haploid sperm of Hexagrammos agrammus or Hexagrammos otakii (paternal species; Hag and Hot, respectively). This study was performed to clarify the extent of diversification between the two hybrids and the maternal ancestor...
October 2016: Ecology and Evolution
https://www.readbyqxmd.com/read/28724593/less-is-more-independent-loss-of-function-ocimene-synthase-alleles-parallel-pollination-syndrome-diversification-in-monkeyflowers-mimulus
#13
Foen Peng, Kelsey J R P Byers, Harvey D Bradshaw
PREMISE OF THE STUDY: Pollinator-mediated selection on flower phenotypes (e.g., shape, color, scent) is key to understanding the adaptive radiation of angiosperms, many of which have evolved specialized relationships with a particular guild of animal pollinators (e.g., birds, bats, moths, bees). E-β-Ocimene, a monoterpene produced by OCIMENE SYNTHASE (OS) in Mimulus lewisii, is a floral scent important in attracting the species' bumblebee pollinators. The taxa closely related to M. lewisii have evolved several different pollination syndromes, including hummingbird pollination and self pollination (autogamy)...
July 19, 2017: American Journal of Botany
https://www.readbyqxmd.com/read/28724401/deciphering-functional-diversification-within-the-lichen-microbiota-by-meta-omics
#14
Tomislav Cernava, Armin Erlacher, Ines Aline Aschenbrenner, Lisa Krug, Christian Lassek, Katharina Riedel, Martin Grube, Gabriele Berg
BACKGROUND: Recent evidence of specific bacterial communities extended the traditional concept of fungal-algal lichen symbioses by a further organismal kingdom. Although functional roles were already assigned to dominant members of the highly diversified microbiota, a substantial fraction of the ubiquitous colonizers remained unexplored. We employed a multi-omics approach to further characterize functional guilds in an unconventional model system. RESULTS: The general community structure of the lichen-associated microbiota was shown to be highly similar irrespective of the employed omics approach...
July 19, 2017: Microbiome
https://www.readbyqxmd.com/read/28724069/a-distinct-genetic-cluster-in-cultivated-chickpea-as-revealed-by-genome-wide-marker-discovery-and-genotyping
#15
Stefano Pavan, Concetta Lotti, Angelo R Marcotrigiano, Rosa Mazzeo, Nicoletta Bardaro, Valentina Bracuto, Francesca Ricciardi, Francesca Taranto, Nunzio D'Agostino, Adalgisa Schiavulli, Claudio De Giovanni, Cinzia Montemurro, Gabriella Sonnante, Luigi Ricciardi
The accurate description of plant biodiversity is of utmost importance to efficiently address efforts in conservation genetics and breeding. Herein, we report the successful application of a genotyping-by-sequencing (GBS) approach in chickpea ( L.), resulting in the characterization of a cultivated germplasm collection with 3187 high-quality single nucleotide polymorphism (SNP) markers. Genetic structure inference, principal component analysis, and hierarchical clustering all indicated the identification of a genetic cluster corresponding to black-seeded genotypes traditionally cultivated in Southern Italy...
July 2017: Plant Genome
https://www.readbyqxmd.com/read/28723902/seed-size-and-its-rate-of-evolution-correlate-with-species-diversification-across-angiosperms
#16
Javier Igea, Eleanor F Miller, Alexander S T Papadopulos, Andrew J Tanentzap
Species diversity varies greatly across the different taxonomic groups that comprise the Tree of Life (ToL). This imbalance is particularly conspicuous within angiosperms, but is largely unexplained. Seed mass is one trait that may help clarify why some lineages diversify more than others because it confers adaptation to different environments, which can subsequently influence speciation and extinction. The rate at which seed mass changes across the angiosperm phylogeny may also be linked to diversification by increasing reproductive isolation and allowing access to novel ecological niches...
July 19, 2017: PLoS Biology
https://www.readbyqxmd.com/read/28722748/evolution-and-plasticity-divergence-of-song-discrimination-is-faster-in-birds-with-innate-song-than-in-song-learners-in-neotropical-passerine-birds
#17
Benjamin G Freeman, Graham A Montgomery, Dolph Schluter
Plasticity is often thought to accelerate trait evolution and speciation. For example, plasticity in birdsong may partially explain why clades of song learners are more diverse than related clades with innate song. This "song learning" hypothesis predicts that 1) differences in song traits evolve faster in song learners, and 2) behavioral discrimination against allopatric song (a proxy for premating reproductive isolation) evolves faster in song learners. We tested these predictions by analyzing acoustic traits and conducting playback experiments in allopatric Central American sister pairs of song learning oscines (N = 42) and non-learning suboscines (N = 27)...
July 19, 2017: Evolution; International Journal of Organic Evolution
https://www.readbyqxmd.com/read/28722181/historical-biome-distribution-and-recent-human-disturbance-shape-the-diversity-of-arbuscular-mycorrhizal-fungi
#18
Meelis Pärtel, Maarja Öpik, Mari Moora, Leho Tedersoo, Robert Szava-Kovats, Søren Rosendahl, Matthias C Rillig, Ylva Lekberg, Holger Kreft, Thorunn Helgason, Ove Eriksson, John Davison, Francesco de Bello, Tancredi Caruso, Martin Zobel
The availability of global microbial diversity data, collected using standardized metabarcoding techniques, makes microorganisms promising models for investigating the role of regional and local factors in driving biodiversity. Here we modelled the global diversity of symbiotic arbuscular mycorrhizal (AM) fungi using currently available data on AM fungal molecular diversity (small subunit (SSU) ribosomal RNA (rRNA) gene sequences) in field samples. To differentiate between regional and local effects, we estimated species pools (sets of potentially suitable taxa) for each site, which are expected to reflect regional processes...
July 19, 2017: New Phytologist
https://www.readbyqxmd.com/read/28720872/associating-transcription-factors-and-conserved-rna-structures-with-gene-regulation-in-the-human-brain
#19
Nikolai Hecker, Stefan E Seemann, Asli Silahtaroglu, Walter L Ruzzo, Jan Gorodkin
Anatomical subdivisions of the human brain can be associated with different neuronal functions. This functional diversification is reflected by differences in gene expression. By analyzing post-mortem gene expression data from the Allen Brain Atlas, we investigated the impact of transcription factors (TF) and RNA secondary structures on the regulation of gene expression in the human brain. First, we modeled the expression of a gene as a linear combination of the expression of TFs. We devised an approach to select robust TF-gene interactions and to determine localized contributions to gene expression of TFs...
July 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28720816/functional-divergence-and-origin-of-the-dag-like-gene-family-in-plants
#20
Meijie Luo, Manjun Cai, Jianhua Zhang, Yurong Li, Ruyang Zhang, Wei Song, Ke Zhang, Hailin Xiao, Bing Yue, Yonglian Zheng, Yanxin Zhao, Jiuran Zhao, Fazhan Qiu
The nuclear-encoded DAG-like (DAL) gene family plays critical roles in organelle C-to-U RNA editing in Arabidopsis thaliana. However, the origin, diversification and functional divergence of DAL genes remain unclear. Here, we analyzed the genomes of diverse plant species and found that: DAL genes are specific to spermatophytes, all DAL genes share a conserved gene structure and protein similarity with the inhibitor I9 domain of subtilisin genes found in ferns and mosses, suggesting that DAL genes likely arose from I9-containing proproteases via exon shuffling...
July 18, 2017: Scientific Reports
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