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https://www.readbyqxmd.com/read/29143964/signatures-of-selection-in-embryonic-transcriptomes-of-lizards-adapting-in-parallel-to-cool-climate
#1
Nathalie Feiner, Alfredo Rago, Geoffrey M While, Tobias Uller
Populations adapting independently to the same environment provide important insights into the repeatability of evolution at different levels of biological organization. In the 20(th) century, common wall lizards (Podarcis muralis) from southern and western Europe were introduced to England, north of their native range. Non-native populations of both lineages have adapted to the shorter season and lower egg incubation temperature by increasing the absolute rate of embryonic development. Here we tested if this adaptation is accompanied by signatures of directional selection in the transcriptomes of early embryos and, if so, if non-native populations show adaptive convergence...
November 16, 2017: Evolution; International Journal of Organic Evolution
https://www.readbyqxmd.com/read/29143302/convergent-selection-pressures-drive-the-evolution-of-rhodopsin-kinetics-at-high-altitudes-via-non-parallel-mechanisms
#2
Gianni M Castiglione, Ryan K Schott, Frances E Hauser, Belinda S W Chang
Convergent evolution in response to similar selective pressures is a well-known phenomenon in evolutionary biology. Less well understood is how selection drives convergence in protein function, and the underlying mechanisms by which this can be achieved. Here we investigate functional convergence in the visual system of two distantly related lineages of high-altitude adapted Andean and Himalayan catfishes. Statistical analyses revealed in the two high-altitude lineages, a parallel acceleration of evolutionary rates in rhodopsin, the dim-light visual pigment...
November 16, 2017: Evolution; International Journal of Organic Evolution
https://www.readbyqxmd.com/read/29136411/shoot-apical-meristem-and-plant-body-organization-a-cross-species-comparative-study
#3
Renáta Schnablová, Tomáš Herben, Jitka Klimešová
Background and Aims: The shoot apical meristem (SAM) is the key organizing element in the plant body and is responsible for the core of plant body organization and shape. Surprisingly, there are almost no comparative data that would show links between parameters of the SAM and whole-plant traits as drivers of the plant's response to the environment. Methods: Interspecific differences in SAM anatomy were examined in 104 perennial herbaceous angiosperms. Key Results: There were differences in SAM parameters among individual species, their phylogenetic patterns, and how their variation is linked to variation in plant above-ground organs and hence species' environmental niches...
November 10, 2017: Annals of Botany
https://www.readbyqxmd.com/read/29134094/the-evolution-of-giant-flightless-birds-and-novel-phylogenetic-relationships-for-extinct-fowl-aves-galloanseres
#4
Trevor H Worthy, Federico J Degrange, Warren D Handley, Michael S Y Lee
The extinct dromornithids, gastornithids and phorusrhacids are among the most spectacular birds to have ever lived, with some giants exceeding 500 kg. The affinities and evolution of these and other related extinct birds remain contentious, with previous phylogenetic analyses being affected by widespread convergence and limited taxon sampling. We address these problems using both parsimony and tip-dated Bayesian approaches on an expansive taxon set that includes all key extinct flightless and flighted (e...
October 2017: Royal Society Open Science
https://www.readbyqxmd.com/read/29121482/feasibility-of-coupling-a-thermal-optical-carbon-analyzer-to-a-quadrupole-mass-spectrometer-for-enhanced-pm2-5-speciation
#5
Gustavo M Riggio, Judith C Chow, Paul M Cropper, Xiaoliang Wang, Reddy L N Yatavelli, Xufei Yang, John G Watson
A thermal/optical carbon analyzer (TOA), normally used for quantification of organic carbon (OC) and elemental carbon (EC) in PM2.5 speciation networks, was adapted to direct thermally-evolved gases to an electron impact quadrupole mass spectrometer (QMS), creating a TOA-QMS. This approach produces spectra similar to those obtained by the Aerodyne Aerosol Mass Spectrometer (AMS), but the ratios of the mass to charge (m/z) signals differ and must be re-measured using laboratory-generated standards. Linear relationships are found between TOA-QMS signals and ammonium (NH4(+)), nitrate (NO3(-)), and sulfate (SO4(2-)) standards...
November 9, 2017: Journal of the Air & Waste Management Association
https://www.readbyqxmd.com/read/29117739/cardiac-autonomic-denervation-and-expression-of-neurotrophins-ngf-and-bdnf-and-their-receptors-during-experimental-chagas-disease
#6
Natália Katley Oliveira, Rodrigo Novaes Ferreira, Sara Delaine Nogueira Lopes, Egler Chiari, Elizabeth Ribeiro da Silva Camargos, Patricia Massara Martinelli
Although cardiac dysautonomia is a distinctive feature of Chagas disease, its clinical and functional significance is still being speculated. Neurotrophic factors are potentially involved; however, studies of their effect in this infection are rare. Ultrastructural abnormalities in autonomic varicosities, levels of both nerve growth factor (NGF), and brain-derived neurotrophic factor (BDNF), as well as the expression of their receptors, were analysed in the heart of a rat model of Trypanosoma infection. Predominantly, at the early stage of the infection, cardiac autonomic varicosities displayed several signs of degeneration parallel to the elevation of cardiac levels of NGF, as well as expression of the receptors TrkA and p75NTR...
November 8, 2017: Growth Factors
https://www.readbyqxmd.com/read/29117356/spatio-temporal-genomic-heterogeneity-phylogeny-and-metastatic-evolution-in-salivary-adenoid-cystic-carcinoma
#7
Bin Liu, Yoshitsugu Mitani, Xiayu Rao, Mark Zafereo, Jianjun Zhang, Jianhua Zhang, P Andrew Futreal, Guillermina Lozano, Adel K El-Naggar
Background: Adenoid cystic carcinoma (ACC), an uncommon and indolent salivary gland malignancy, is characterized by varied morphologic and clinical manifestations. Molecular genetic studies of ACC identified certain structural and mutational alterations that may play a driver role in tumor development. The evolution and regional consistency of these events in ACC development progression are uncertain. Methods: To investigate the spatial and temporal clonal landscape of ACC, whole-genome sequencing and variant analyses were performed on 34 regionally sampled primary tumors and their concurrent and metachronous metastatic deposits from eight patients...
October 1, 2017: Journal of the National Cancer Institute
https://www.readbyqxmd.com/read/29109241/optogenetic-activation-of-the-fruitless-labeled-circuitry-in-drosophila-subobscura-males-induces-mating-motor-acts
#8
Ryoya Tanaka, Tomohiro Higuchi, Soh Kohatsu, Kosei Sato, Daisuke Yamamoto
It remains an enigma how the nervous system of different animal species produces different behaviors. We studied the neural circuitry for mating behavior in Drosophila subobscura, a species that displays unique courtship actions not shared by other members of the genera including the genetic model D. melanogaster, in which the core courtship circuitry has been identified. We disrupted the D. subobscurafruitless (fru) gene, a master regulator for the courtship circuitry formation in D. melanogaster, resulting in complete loss of mating behavior...
November 6, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/29107330/allele-specific-hla-loss-and-immune-escape-in-lung-cancer-evolution
#9
Nicholas McGranahan, Rachel Rosenthal, Crispin T Hiley, Andrew J Rowan, Thomas B K Watkins, Gareth A Wilson, Nicolai J Birkbak, Selvaraju Veeriah, Peter Van Loo, Javier Herrero, Charles Swanton
Immune evasion is a hallmark of cancer. Losing the ability to present neoantigens through human leukocyte antigen (HLA) loss may facilitate immune evasion. However, the polymorphic nature of the locus has precluded accurate HLA copy-number analysis. Here, we present loss of heterozygosity in human leukocyte antigen (LOHHLA), a computational tool to determine HLA allele-specific copy number from sequencing data. Using LOHHLA, we find that HLA LOH occurs in 40% of non-small-cell lung cancers (NSCLCs) and is associated with a high subclonal neoantigen burden, APOBEC-mediated mutagenesis, upregulation of cytolytic activity, and PD-L1 positivity...
October 21, 2017: Cell
https://www.readbyqxmd.com/read/29104421/a-prospectus-on-kinetic-heliophysics
#10
Gregory G Howes
Under the low density and high temperature conditions typical of heliospheric plasmas, the macroscopic evolution of the heliosphere is strongly affected by the kinetic plasma physics governing fundamental microphysical mechanisms. Kinetic turbulence, collisionless magnetic reconnection, particle acceleration, and kinetic instabilities are four poorly understood, grand-challenge problems that lie at the new frontier of kinetic heliophysics. The increasing availability of high cadence and high phase-space resolution measurements of particle velocity distributions by current and upcoming spacecraft missions and of massively parallel nonlinear kinetic simulations of weakly collisional heliospheric plasmas provides the opportunity to transform our understanding of these kinetic mechanisms through the full utilization of the information contained in the particle velocity distributions...
May 2017: Physics of Plasmas
https://www.readbyqxmd.com/read/29102803/aggregating-polarizing-networking-the-evolution-of-cell-adhesion-codes
#11
REVIEW
Marcella Faria
Adhesion is a central mechanism in the development of multicellular life. It underlies cell movement, communication and differentiation. Remarkably, the presence of only three classes of interconnected molecules is sufficient to establish functional adhesive interactions between cells: Extracellular Matrix components (ECMs); Cell Adhesion Molecules (CAMs); and cytoskeleton microfilaments. In the present work, we shall dissect the nature and the dynamical interactions between these three classes of molecules as they appear in evolution, to postulate that their organization into an organic code sensu Barbieri(1) parallels the development of multicellularity...
November 1, 2017: Bio Systems
https://www.readbyqxmd.com/read/29099227/linear-and-logarithmic-time-compositions-of-quantum-many-body-operators
#12
F Motzoi, M P Kaicher, F K Wilhelm
We develop a generalized framework for constructing many-body-interaction operations either in linear time or in logarithmic time with a linear number of ancilla qubits. Exact gate decompositions are given for Pauli strings, many-control Toffoli gates, number- and parity-conserving interactions, unitary coupled cluster operations, and sparse matrix generators. We provide a linear time protocol that works by creating a superposition of exponentially many different possible operator strings and then uses dynamical decoupling methodology to undo all the unwanted terms...
October 20, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/29096695/floral-micromorphology-and-transcriptome-analyses-of-a-fragrant-vandaceous-orchid-vanda-mimi-palmer-for-its-fragrance-production-sites
#13
Conie Toh, Ab Rahim Mohd-Hairul, Nooraini Mohd Ain, Parameswari Namasivayam, Rusea Go, Nur Ashikin Psyquay Abdullah, Meilina Ong Abdullah, Janna Ong Abdullah
BACKGROUND: Vanda Mimi Palmer (VMP) is commercially valuable for its strong fragrance but little is known regarding the fragrance production and emission sites on the flowers. RESULTS: Olfactory perception detected fragrance only from the petals and sepals. Light and Environmental Scanning Electron microscopy analyses on fresh tissues showed distributions of stomata and trichomes concentrated mostly around the edges. These results paralleled the rich starch deposits and intense neutral red stain, indicating strong fragrance and trichomes as potential main fragrance release sites...
November 2, 2017: BMC Research Notes
https://www.readbyqxmd.com/read/29095688/molecular-evolution-of-types-in-non-polio-enteroviruses
#14
Alexander N Lukashev, Yulia A Vakulenko
Non-polio enteroviruses are a ubiquitous and divergent group of non-enveloped RNA viruses. Novel types are reported regularly in addition to over 100 known types; however, mechanisms of emergence of novel types remain obscure. Here, the 33 most common types represented by 35-629 non-redundant partial VP1 sequences in GenBank were studied in parallel using Bayesian coalescent molecular clock analysis to investigate common evolutionary trends among enterovirus types. Inferred substitution rates were in the range of 0...
November 2, 2017: Journal of General Virology
https://www.readbyqxmd.com/read/29095458/reversible-strain-alignment-and-reshuffling-of-nanoplatelet-stacks-confined-in-a-lamellar-block-copolymer-matrix
#15
E Beaudoin, P Davidson, B Abecassis, T Bizien, D Constantin
We designed a nanocomposite consisting of CdSe nanoplatelets dispersed in the form of short stacks in the polybutadiene domains of a polystyrene-polybutadiene-polystyrene (SBS) thermoplastic elastomer matrix. Under strain, the material displays reversible, macroscopic anisotropic properties, e.g. the fluorescence signal. We present here a structural study of the composite under stretching, by in situ high-resolution X-ray scattering using synchrotron radiation. Modelling the scattering signal allows us to monitor the evolution of both the matrix and the platelets under strain...
November 16, 2017: Nanoscale
https://www.readbyqxmd.com/read/29082805/identification-and-prediction-of-the-fertile-window-with-a-new-web-based-medical-device-using-a-vaginal-biosensor-for-measuring-the-circadian-and-circamensual-core-body-temperature
#16
Pedro-Antonio Regidor, Marta Kaczmarczyk, Esther Schiweck, Maren Goeckenjan-Festag, Henry Alexander
Fertility awareness-based (FAB) methods represent a term that includes all family planning methods that are based on the identification of the fertile window. They are based on the woman's observation of physiological signs of the fertile and infertile phases of the menstrual cycle. The first approach consists basically in symptothermal methods accompanied by cervical mucus measurements and clinical menstrual cycling data recording. The second most often used methods are the urinary measurement of E3G and luteinizing hormone (LH) with a personalized computer system...
October 28, 2017: Gynecological Endocrinology
https://www.readbyqxmd.com/read/29078296/extensive-gene-tree-discordance-and-hemiplasy-shaped-the-genomes-of-north-american-columnar-cacti
#17
Dario Copetti, Alberto Búrquez, Enriquena Bustamante, Joseph L M Charboneau, Kevin L Childs, Luis E Eguiarte, Seunghee Lee, Tiffany L Liu, Michelle M McMahon, Noah K Whiteman, Rod A Wing, Martin F Wojciechowski, Michael J Sanderson
Few clades of plants have proven as difficult to classify as cacti. One explanation may be an unusually high level of convergent and parallel evolution (homoplasy). To evaluate support for this phylogenetic hypothesis at the molecular level, we sequenced the genomes of four cacti in the especially problematic tribe Pachycereeae, which contains most of the large columnar cacti of Mexico and adjacent areas, including the iconic saguaro cactus (Carnegiea gigantea) of the Sonoran Desert. We assembled a high-coverage draft genome for saguaro and lower coverage genomes for three other genera of tribe Pachycereeae (Pachycereus, Lophocereus, and Stenocereus) and a more distant outgroup cactus, Pereskia We used these to construct 4,436 orthologous gene alignments...
October 23, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29077933/genomic-analysis-of-the-origins-and-evolution-of-multicentric-diffuse-lower-grade-gliomas
#18
Josie Hayes, Yao Yu, Llewellyn E Jalbert, Tali Mazor, Lindsey E Jones, Matthew D Wood, Kyle M Walsh, Henrik Bengtsson, Chibo Hong, Stefan Oberndorfer, Thomas Roetzer, Ivan V Smirnov, Jennifer L Clarke, Manish K Aghi, Susan M Chang, Sarah J Nelson, Adelheid Woehrer, Joanna J Phillips, David A Solomon, Joseph F Costello
Background: Rare multicentric lower-grade gliomas (LGG) represent a unique opportunity to study the heterogeneity between distinct tumor foci in a single patient, and to infer their origins and parallel patterns of evolution. Methods: In this study, we integrate clinical features, histology and immunohistochemistry for 4 patients with multicentric LGG, arising both synchronously and metachronously. For 3 patients we analyze the phylogeny of the lesions using exome sequencing, including one case with a total of 8 samples from the two lesions...
October 25, 2017: Neuro-oncology
https://www.readbyqxmd.com/read/29074821/-anti-parallel-evolution-of-lifespan
#19
Arne Sahm, Alessandro Cellerino
No abstract text is available yet for this article.
October 26, 2017: Aging
https://www.readbyqxmd.com/read/29073148/age-dependent-gene-expression-in-the-inner-ear-of-big-brown-bats-eptesicus-fuscus
#20
Beatrice Mao, Cynthia F Moss, Gerald S Wilkinson
For echolocating bats, hearing is essential for survival. Specializations for detecting and processing high frequency sounds are apparent throughout their auditory systems. Recent studies on echolocating mammals have reported evidence of parallel evolution in some hearing-related genes in which distantly related groups of echolocating animals (bats and toothed whales), cluster together in gene trees due to apparent amino acid convergence. However, molecular adaptations can occur not only in coding sequences, but also in the regulation of gene expression...
2017: PloS One
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