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Biological evolution

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https://www.readbyqxmd.com/read/29155030/transcriptome-analysis-and-discovery-of-genes-involved-in-immune-pathways-from-coelomocytes-of-onchidium-struma-after-bacterial-challenge
#1
Mingming Zhang, Guo Qiao, Qiang Li, De-Hai Xu, Zhitao Qi, Aiming Wang, Mengyao Xu, Jintian Huang
Onchidium struma widely distributes in subtidal and low-tidal zones, which is considered to be an economical species with rich nutrition, a valuable biomonitor for heavy metal pollution and a representative species for evolution from ocean to land. However, there is limited genetic information available for O. struma development. This study compared transcriptomic profiles of coelomocytes from normal and bacteria infected O. struma by Illumina-based paired-end sequencing to explore the molecular immune mechanism of O...
November 15, 2017: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/29155018/emerging-infections-are-an-increasingly-important-topic
#2
REVIEW
Eskild Petersen, Nicola Petrosillo, Marion Koopmans
OBJECTIVES: This paper review trends in emerging infections and the need for increased clinical and laboratory surveillance. METHODS: Factors that contributed to the emergence of recent outbreaks have been reviewed. Known, major outbreaks over the past two decades were reviewed. RESULTS: We identified at least four major drivers of emergent infections: i. increasing density of the human population; ii. stress from farmland expansion on the environment; iii...
November 15, 2017: Clinical Microbiology and Infection
https://www.readbyqxmd.com/read/29154003/tracing-the-role-of-endogenous-carbon-in-denitrification-using-wine-industry-by-product-as-an-external-electron-donor-coupling-isotopic-tools-with-mathematical-modeling
#3
R Carrey, P Rodríguez-Escales, A Soler, N Otero
Nitrate removal through enhanced biological denitrification (EBD), consisting of the inoculation of an external electron donor, is a feasible solution for the recovery of groundwater quality. In this context, liquid waste from wine industries (wine industry by-products, WIB) may be feasible for use as a reactant to enhance heterotrophic denitrification. To address the feasibility of WIB as electron donor to promote denitrification, as well as to evaluate the role of biomass as a secondary organic C source, a flow-through experiment was carried out...
November 16, 2017: Journal of Environmental Management
https://www.readbyqxmd.com/read/29153875/the-role-of-operating-parameters-and-oxidative-damage-mechanisms-of-advanced-chemical-oxidation-processes-in-the-combat-against-antibiotic-resistant-bacteria-and-resistance-genes-present-in-urban-wastewater
#4
REVIEW
I Michael-Kordatou, P Karaolia, D Fatta-Kassinos
An upsurge in the study of antibiotic resistance in the environment has been observed in the last decade. Nowadays, it is becoming increasingly clear that urban wastewater is a key source of antibiotic resistance determinants, i.e. antibiotic-resistant bacteria and antibiotic resistance genes (ARB&ARGs). Urban wastewater reuse has arisen as an important component of water resources management in the European Union and worldwide to address prolonged water scarcity issues. Especially, biological wastewater treatment processes (i...
October 27, 2017: Water Research
https://www.readbyqxmd.com/read/29153172/a-100-year-review-metabolic-health-indicators-and-management-of-dairy-cattle
#5
T R Overton, J A A McArt, D V Nydam
Our aim in this Journal of Dairy Science centennial review is to describe the evolution of focus on metabolic indicators, from discovery and description to evaluation at the individual cow and subsequently herd levels, over the past 100 yr. Furthermore, we discuss current and future technologies that will be used in the dairy industry to utilize these indicators widely going forward. Knowledge of chemical changes in various fluids (e.g., blood, urine, and milk) accompanying numerous metabolic disease states in the dairy cow has existed since almost the beginning of the Journal of Dairy Science 100 yr ago...
December 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/29153166/a-100-year-review-practical-female-reproductive-management
#6
J S Stevenson, J H Britt
Basic knowledge of mechanisms controlling reproductive processes in mammals was limited in the early 20th century. Discoveries of physiologic processes and mechanisms made early in the last century laid the foundation to develop technologies and programs used today to manage and control reproduction in dairy cattle. Beyond advances made in understanding of gonadotropic support and control of ovarian and uterine functions in basic reproductive biology, advancements made in artificial insemination (AI) and genetics facilitated rapid genetic progress of economically important traits in dairy cattle...
December 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/29153165/a-100-year-review-historical-development-of-female-reproductive-physiology-in-dairy-cattle
#7
William W Thatcher
The objective of this historical review in female reproductive physiology is to encapsulate major advancements since the founding of the American Dairy Science Association in 1906. The emphasis is on landmark publications in the Journal of Dairy Science since its first volume in 1917. A historical perspective and inferences are made in forecasting evolution of female reproduction and links between physiology of reproduction and the mammary gland. Subsequent sections are focused into main physiological categories and the temporal advancements within these physiological windows...
December 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/29152628/highly-efficient-gas-phase-reactivity-of-protonated-pyridine-radicals-with-propene
#8
Cameron C Bright, Matthew B Prendergast, Patrick D Kelly, James P Bezzina, Stephen J Blanksby, Gabriel da Silva, Adam J Trevitt
Small nitrogen containing heteroaromatics are fundamental building blocks for many biological molecules, including the DNA nucleotides. Pyridine, as a prototypical N-heteroaromatic, has been implicated in the chemical evolution of many extraterrestrial environments, including the atmosphere of Titan. This paper reports on the gas-phase ion-molecule reactions of the three dehydro-N-pyridinium radical cation isomers with propene. Photodissociation ion-trap mass spectrometry experiments are used to measure product branching ratios and reaction kinetics...
November 20, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/29152206/global-population-structure-and-adaptive-evolution-of-aflatoxin-producing-fungi
#9
Geromy G Moore, Rodrigo A Olarte, Bruce W Horn, Jacalyn L Elliott, Rakhi Singh, Carolyn J O'Neal, Ignazio Carbone
Aflatoxins produced by several species in Aspergillus section Flavi are a significant problem in agriculture and a continuous threat to human health. To provide insights into the biology and global population structure of species in section Flavi, a total of 1,304 isolates were sampled across six species (A. flavus, A. parasiticus, A. nomius, A. caelatus, A. tamarii, and A. alliaceus) from single fields in major peanut-growing regions in Georgia (USA), Australia, Argentina, India, and Benin (Africa). We inferred maximum-likelihood phylogenies for six loci, both combined and separately, including two aflatoxin cluster regions (aflM/alfN and aflW/aflX) and four noncluster regions (amdS, trpC, mfs and MAT), to examine population structure and history...
November 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/29151866/amphibian-species-traits-evolutionary-history-and-environment-predict-batrachochytrium-dendrobatidis-infection-patterns-but-not-extinction-risk
#10
Dan A Greenberg, Wendy J Palen, Arne Ø Mooers
The fungal pathogen Batrachochytrium dendrobatidis (B. dendrobatidis) has emerged as a major agent of amphibian extinction, requiring conservation intervention for many susceptible species. Identifying susceptible species is challenging, but many aspects of species biology are predicted to influence the evolution of host resistance, tolerance, or avoidance strategies towards disease. In turn, we may expect species exhibiting these distinct strategies to differ in their ability to survive epizootic disease outbreaks...
December 2017: Evolutionary Applications
https://www.readbyqxmd.com/read/29151209/in-vitro-dissolution-dynamic-nuclear-polarization-for-sensitivity-enhancement-of-nmr-with-biological-molecules
#11
Yaewon Kim, Yunyi Wang, Hsueh-Ying Chen, Christian Hilty
Dissolution dynamic nuclear polarization (D-DNP) is a technique to prepare hyperpolarized nuclear spin states, yielding a signal enhancement of several orders of magnitude for liquid-state NMR. Here, we describe experimental procedures for the application of D-DNP in high-resolution NMR of biochemical compounds, to determine the time evolution of biochemical processes and intermolecular interactions.
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29150926/viral-short-orfs-and-their-possible-functions
#12
REVIEW
Yaara Finkel, Noam Stern-Ginossar, Michal Schwartz
Definition of functional genomic elements is one of the greater challenges of the genomic era. Traditionally, putative short Open Reading Frames (sORFs) coding for less than 100 amino acids were disregarded due to computational and experimental limitations, however it has become clear over the past several years that translation of sORFs is pervasive and serves diverse functions. The development of ribosome profiling, allowing identification of translated sequences genome-wide, revealed wide-spread, previously unidentified translation events...
November 18, 2017: Proteomics
https://www.readbyqxmd.com/read/29150513/high-prevalence-and-genetic-diversity-of-large-phicd211-phicdif1296t-like-prophages-in-clostridioides-difficile
#13
Julian R Garneau, Ognjen Sekulovic, Bruno Dupuy, Olga Soutourina, Marc Monot, Louis-Charles Fortier
Clostridioides difficile (formerly Clostridium difficile) is a pathogenic bacterium displaying great genetic diversity. A significant proportion of this diversity is due to the presence of integrated prophages. Here, we provide an in-depth analysis of phiCD211, also known as phiCDIF1296T, the largest phage identified in C. difficile so far, with a genome of 131-kbp. It shares morphological and genomic similarity with other large siphophages like phage 949 infecting Lactococcus lactis and phage c-st infecting Clostridium botulinum...
November 17, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29149172/spectroscopic-characterization-of-dom-and-the-nitrogen-removal-mechanism-during-wastewater-reclamation-plant
#14
Lei Wang, Ying-Jun Li, Ying Xiong, Wen-Bing Tan, Lie-Yu Zhang, Xiang Li, Xiao-Shu Wang, Jian-Feng Xu, Tong-Tong Li, Jin-Sheng Wang, Ming-Xuan Cai, Bei-Dou Xi, Di-Hua Wang
The performance of the Sha-he wastewater reclamation plant was evaluated in this study. To remove residual nitrogen after Anaerobic-Anoxic-Oxic (A2O) treatment, three multistage Anoxic-Oxic (A/O) were added to investigate the nitrogen removal efficiency and its mechanism. In addition, the constituents and evolution of dissolved organic matter (DOM) during wastewater reclamation was also investigated using a method combining fluorescence spectroscopy with fluorescence regional integration (FRI). The results suggested that multistage A/O treatment can effectively improve the nitrogen removal ability under low concentrations of carbon sources...
2017: PloS One
https://www.readbyqxmd.com/read/29148817/specific-recognition-of-g-quadruplexes-over-duplex-dna-by-a-macromolecular-nir-two-photon-fluorescent-probe
#15
Marco Deiana, Bastien Mettra, Lara Martinez-Fernandez, Leszek Mateusz Mazur, Krzysztof Pawlik, Chantal Andraud, Marek Samoc, Roberto Improta, Cyrille Monnereau, Katarzyna Matczyszyn
The implication of guanine-rich DNA sequences in biologically important roles such as telomerase dysfunction and the regulation of gene expression has prompted the search for structure-specific G-quadruplex agents for targeted diagnostic and therapeutic applications. To date, the number of two-photon absorbing fluorogenic dyes with intrinsically large two-photon absorption (TPA) cross-section (σ2) and quantum yield (φf), capable of specific detection of G-motifs over duplex DNAs is still limited. Herein, we report on a NIR two-photon poly(cationic) anthracene-based macromolecule able to selectively target G-quadruplexes (G4s) over genomic double-stranded DNA...
November 17, 2017: Journal of Physical Chemistry Letters
https://www.readbyqxmd.com/read/29148548/acrylate-based-materials-for-heart-valve-scaffold-engineering
#16
Rosaria Santoro, Seshasailam Venkateswaran, Francesco Amadeo, Rong Zhang, Maura Brioschi, Anthony Callanan, Marco Agrifoglio, Cristina Banfi, Mark Bradley, Maurizio Pesce
Calcific aortic valve disease (CAVD) is the most frequent cardiac valve pathology. Its standard treatment consists of surgical replacement either with mechanical (metal made) or biological (animal tissue made) valve prostheses, both of which have glaring deficiencies. In the search for novel materials to manufacture artificial valve tissue, we have conducted a high-throughput screening with subsequent up-scaling to identify non-degradable polymer substrates that promote valve interstitial cells (VICs) adherence/growth and, at the same time, prevent their evolution toward a pro-calcific phenotype...
November 17, 2017: Biomaterials Science
https://www.readbyqxmd.com/read/29148270/a-g3p-13-porcine-group-a-rotavirus-emerging-in-china-is-a-reassortant-and-a-natural-recombinant-in-the-vp4-gene
#17
Z Jing, X Zhang, H Shi, J Chen, D Shi, H Dong, L Feng
Group A rotaviruses (RVAs) are a major cause of serious intestinal disease in piglets. In this study, a novel pig strain was identified in a stool sample from China. The strain was designated RVA/Pig/China/LNCY/2016/G3P[13] and had a G3-P[13]-I5-R1-C1-M1-A8-N1-T1-E1-H1 genome. The viral protein 7 (VP7) and non-structural protein 4 (NSP4) genes of RVA/Pig/China/LNCY/2016/G3P[13] were closely related to cogent genes of human RVAs, suggesting that a reassortment between pig and human strains had occurred. Recombination analysis showed that RVA/Pig/China/LNCY/2016/G3P[13] is a natural recombinant strain between the P[23] and P[7] RVA strains, and crossover points for recombination were found at nucleotides (nt) 456 and 804 of the VP4 gene...
November 16, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/29148112/big-data-and-data-science-in-healthcare-what-nurses-and-midwives-need-to-know
#18
EDITORIAL
Siobhan O'Connor
The evolution of technology in contemporary society has been accelerating in recent decades, with smaller, more interconnected hardware devices and software applications becoming the norm. As desktop computing paved the way for mobile platforms, which are now transitioning to wearable devices and other sensors, it is inevitable these electronic tools will advance into the realm of nanotechnology and biotechnology in the years to come. As the proliferation of information and communication technology continues it has led to a tsunami of digital data (Bates et al, 2014), which is being collected on many aspects of life...
November 17, 2017: Journal of Clinical Nursing
https://www.readbyqxmd.com/read/29147778/genome-wide-investigation-of-transcription-factors-provides-insights-into-transcriptional-regulation-in-plutella-xylostella
#19
Qian Zhao, Dongna Ma, Yuping Huang, Weiyi He, Yiying Li, Liette Vasseur, Minsheng You
Transcription factors (TFs), which play a vital role in regulating gene expression, are prevalent in all organisms and characterization of them may provide important clues for understanding regulation in vivo. The present study reports a genome-wide investigation of TFs in the diamondback moth, Plutella xylostella (L.), a worldwide pest of crucifers. A total of 940 TFs distributed among 133 families were identified. Phylogenetic analysis of insect species showed that some of these families were found to have expanded during the evolution of P...
November 16, 2017: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/29146984/ocean-forecasting-of-mesoscale-features-can-deteriorate-by-increasing-model-resolution-towards-the-submesoscale
#20
Paul A Sandery, Pavel Sakov
Submesoscale dynamics are ubiquitous in the ocean and important in the variability of physical, biological and chemical processes. Submesoscale resolving ocean models have been shown to improve representation of observed variability. We show through data assimilation experiments that a higher-resolution submesoscale permitting system does not match the skill of a lower resolution eddy resolving system in forecasting the mesoscale circulation. Predictability of the submesoscale is inherently lower and there is an inverse cascade in the kinetic energy spectrum that lowers the predictability of the mesoscale...
November 16, 2017: Nature Communications
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