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PLoS Biology

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https://www.readbyqxmd.com/read/28510592/alteration-of-protein-function-by-a-silent-polymorphism-linked-to-trna-abundance
#1
Sebastian Kirchner, Zhiwei Cai, Robert Rauscher, Nicolai Kastelic, Melanie Anding, Andreas Czech, Bertrand Kleizen, Lynda S Ostedgaard, Ineke Braakman, David N Sheppard, Zoya Ignatova
Synonymous single nucleotide polymorphisms (sSNPs) are considered neutral for protein function, as by definition they exchange only codons, not amino acids. We identified an sSNP that modifies the local translation speed of the cystic fibrosis transmembrane conductance regulator (CFTR), leading to detrimental changes to protein stability and function. This sSNP introduces a codon pairing to a low-abundance tRNA that is particularly rare in human bronchial epithelia, but not in other human tissues, suggesting tissue-specific effects of this sSNP...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28510588/evolutionary-restoration-of-fertility-in-an-interspecies-hybrid-yeast-by-whole-genome-duplication-after-a-failed-mating-type-switch
#2
Raúl A Ortiz-Merino, Nurzhan Kuanyshev, Stephanie Braun-Galleani, Kevin P Byrne, Danilo Porro, Paola Branduardi, Kenneth H Wolfe
Many interspecies hybrids have been discovered in yeasts, but most of these hybrids are asexual and can replicate only mitotically. Whole-genome duplication has been proposed as a mechanism by which interspecies hybrids can regain fertility, restoring their ability to perform meiosis and sporulate. Here, we show that this process occurred naturally during the evolution of Zygosaccharomyces parabailii, an interspecies hybrid that was formed by mating between 2 parents that differed by 7% in genome sequence and by many interchromosomal rearrangements...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28510572/1-2-million-kids-and-counting-mobile-science-laboratories-drive-student-interest-in-stem
#3
Amanda L Jones, Mary K Stapleton
In today's increasingly technological society, a workforce proficient in science, technology, engineering, and mathematics (STEM) skills is essential. Research has shown that active engagement by K-12 students in hands-on science activities that use authentic science tools promotes student learning and retention. Mobile laboratory programs provide this type of learning in schools and communities across the United States and internationally. Many programs are members of the Mobile Lab Coalition (MLC), a nonprofit organization of mobile and other laboratory-based education programs built on scientist and educator collaborations...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28505150/a-question-of-fate
#4
Mirjana Maletic-Savatic
Ever since the discovery of neural stem cells in the mammalian brain, the possibility of brain tissue regeneration has captured the minds of scientists, clinicians, and the public. Neural stem cells have been envisioned as a source of donor cells for transplantation and vectors for the delivery of gene therapy. Over the past decade, many researchers have contributed to characterizing these cells and their lineages, providing the foundation for their utilization as therapeutic devices. In a new study, Azim and colleagues took a different approach: using pharmacogenomics to focus on neural stem cell lineage, they identified specific compounds that can direct neural stem cell fate toward a specific lineage in vivo, both in physiological and pathological conditions...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28489848/a-coordinated-dna-damage-response-promotes-adult-quiescent-neural-stem-cell-activation
#5
Lara Barazzuol, Limei Ju, Penny A Jeggo
Stem and differentiated cells frequently differ in their response to DNA damage, which can determine tissue sensitivity. By exploiting insight into the spatial arrangement of subdomains within the adult neural subventricular zone (SVZ) in vivo, we show distinct responses to ionising radiation (IR) between neural stem and progenitor cells. Further, we reveal different DNA damage responses between neonatal and adult neural stem cells (NSCs). Neural progenitors (transit amplifying cells and neuroblasts) but not NSCs (quiescent and activated) undergo apoptosis after 2 Gy IR...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28486530/correction-ongoing-neurogenesis-in-the-adult-dentate-gyrus-mediates-behavioral-responses-to-ambiguous-threat-cues
#6
(no author information available yet)
[This corrects the article DOI: 10.1371/journal.pbio.2001154.].
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28486496/phenotypic-heterogeneity-promotes-adaptive-evolution
#7
Zoltán Bódi, Zoltán Farkas, Dmitry Nevozhay, Dorottya Kalapis, Viktória Lázár, Bálint Csörgő, Ákos Nyerges, Béla Szamecz, Gergely Fekete, Balázs Papp, Hugo Araújo, José L Oliveira, Gabriela Moura, Manuel A S Santos, Tamás Székely, Gábor Balázsi, Csaba Pál
Genetically identical cells frequently display substantial heterogeneity in gene expression, cellular morphology and physiology. It has been suggested that by rapidly generating a subpopulation with novel phenotypic traits, phenotypic heterogeneity (or plasticity) accelerates the rate of adaptive evolution in populations facing extreme environmental challenges. This issue is important as cell-to-cell phenotypic heterogeneity may initiate key steps in microbial evolution of drug resistance and cancer progression...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28472038/auditory-motion-specific-mechanisms-in-the-primate-brain
#8
Colline Poirier, Simon Baumann, Pradeep Dheerendra, Olivier Joly, David Hunter, Fabien Balezeau, Li Sun, Adrian Rees, Christopher I Petkov, Alexander Thiele, Timothy D Griffiths
This work examined the mechanisms underlying auditory motion processing in the auditory cortex of awake monkeys using functional magnetic resonance imaging (fMRI). We tested to what extent auditory motion analysis can be explained by the linear combination of static spatial mechanisms, spectrotemporal processes, and their interaction. We found that the posterior auditory cortex, including A1 and the surrounding caudal belt and parabelt, is involved in auditory motion analysis. Static spatial and spectrotemporal processes were able to fully explain motion-induced activation in most parts of the auditory cortex, including A1, but not in circumscribed regions of the posterior belt and parabelt cortex...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28467412/the-co-production-of-what-knowledge-values-and-social-relations-in-health-care
#9
Angela Filipe, Alicia Renedo, Cicely Marston
"Co-production" is becoming an increasingly popular term in policymaking, governance, and research. While the shift from engagement and involvement to co-production in health care holds the promise of revolutionising health services and research, it is not always evident what counts as co-production: what is being produced, under what circumstances, and with what implications for participants. We discuss these questions and propose that co-production can be understood as an exploratory space and a generative process that leads to different, and sometimes unexpected, forms of knowledge, values, and social relations...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28467410/smek-promotes-corticogenesis-through-regulating-mbd3-s-stability-and-mbd3-nurd-complex-recruitment-to-genes-associated-with-neurogenesis
#10
Byoung-San Moon, Hyung-Mun Yun, Wen-Hsuan Chang, Bradford H Steele, Mingyang Cai, Si Ho Choi, Wange Lu
The fate of neural progenitor cells (NPCs) during corticogenesis is determined by a complex interplay of genetic or epigenetic components, but the underlying mechanism is incompletely understood. Here, we demonstrate that Suppressor of Mek null (Smek) interact with methyl-CpG-binding domain 3 (Mbd3) and the complex plays a critical role in self-renewal and neuronal differentiation of NPCs. We found that Smek promotes Mbd3 polyubiquitylation and degradation, blocking recruitment of the repressive Mbd3/nucleosome remodeling and deacetylase (NuRD) complex at the neurogenesis-associated gene loci, and, as a consequence, increasing acetyl histone H3 activity and cortical neurogenesis...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28463965/ancient-bacteria-amoeba-relationships-and-pathogenic-animal-bacteria
#11
Joan E Strassmann, Longfei Shu
Long before bacteria infected humans, they infected amoebas, which remain a potentially important reservoir for human disease. Diverse soil amoebas including Dictyostelium and Acanthamoeba can host intracellular bacteria. Though the internal environment of free-living amoebas is similar in many ways to that of mammalian macrophages, they differ in a number of important ways, including temperature. A new study in PLOS Biology by Taylor-Mulneix et al. demonstrates that Bordetella bronchiseptica has two different gene suites that are activated depending on whether the bacterium finds itself in a hot mammalian or cool amoeba host environment...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28459830/correction-fasting-regulates-egr1-and-protects-from-glucose-and-dexamethasone-dependent-sensitization-to-chemotherapy
#12
Stefano Di Biase, Hong Seok Shim, Kyung Hwa Kim, Manlio Vinciguerra, Francesca Rappa, Min Wei, Sebastian Brandhorst, Francesco Cappello, Hamed Mirzaei, Changhan Lee, Valter D Longo
[This corrects the article DOI: 10.1371/journal.pbio.2001951.].
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28459803/effects-of-stochasticity-and-division-of-labor-in-toxin-production-on-two-strain-bacterial-competition-in-escherichia-coli
#13
Benedikt von Bronk, Sophia Anna Schaffer, Alexandra Götz, Madeleine Opitz
In phenotypically heterogeneous microbial populations, the decision to adopt one or another phenotype is often stochastically regulated. However, how this stochasticity affects interactions between competing microbes in mixed communities is difficult to assess. One example of such an interaction system is the competition of an Escherichia coli strain C, which performs division of labor between reproducers and self-sacrificing toxin producers, with a toxin-sensitive strain S. The decision between reproduction or toxin production within a single C cell is inherently stochastic...
May 2017: PLoS Biology
https://www.readbyqxmd.com/read/28453523/the-mismatch-repair-and-meiotic-recombination-endonuclease-mlh1-mlh3-is-activated-by-polymer-formation-and-can-cleave-dna-substrates-in-trans
#14
Carol M Manhart, Xiaodan Ni, Martin A White, Joaquin Ortega, Jennifer A Surtees, Eric Alani
Crossing over between homologs is initiated in meiotic prophase by the formation of DNA double-strand breaks that occur throughout the genome. In the major interference-responsive crossover pathway in baker's yeast, these breaks are resected to form 3' single-strand tails that participate in a homology search, ultimately forming double Holliday junctions (dHJs) that primarily include both homologs. These dHJs are resolved by endonuclease activity to form exclusively crossovers, which are critical for proper homolog segregation in Meiosis I...
April 2017: PLoS Biology
https://www.readbyqxmd.com/read/28453514/gut-check-the-evolution-of-an-educational-board-game
#15
David A Coil, Cassandra L Ettinger, Jonathan A Eisen
The "gamification" of science has gained a lot of traction in recent years, and games that convey scientific concepts or themes are increasingly popular. While a number of existing games touch on microbiology, very few consider the beneficial (as opposed to the detrimental) aspects of microbes. We designed a board game called "Gut Check: The Microbiome Game" to fill this gap. The game is meant to be both educational as well as challenging and fun. Here we discuss the development of the game, some of the logistics of game development in this context, and offer suggestions for others thinking of similar projects...
April 2017: PLoS Biology
https://www.readbyqxmd.com/read/28445470/the-credibility-crisis-in-research-can-economics-tools-help
#16
Thomas Gall, John P A Ioannidis, Zacharias Maniadis
The issue of nonreplicable evidence has attracted considerable attention across biomedical and other sciences. This concern is accompanied by an increasing interest in reforming research incentives and practices. How to optimally perform these reforms is a scientific problem in itself, and economics has several scientific methods that can help evaluate research reforms. Here, we review these methods and show their potential. Prominent among them are mathematical modeling and laboratory experiments that constitute affordable ways to approximate the effects of policies with wide-ranging implications...
April 2017: PLoS Biology
https://www.readbyqxmd.com/read/28441450/commensal-bacteria-and-essential-amino-acids-control-food-choice-behavior-and-reproduction
#17
Ricardo Leitão-Gonçalves, Zita Carvalho-Santos, Ana Patrícia Francisco, Gabriela Tondolo Fioreze, Margarida Anjos, Célia Baltazar, Ana Paula Elias, Pavel M Itskov, Matthew D W Piper, Carlos Ribeiro
Choosing the right nutrients to consume is essential to health and wellbeing across species. However, the factors that influence these decisions are poorly understood. This is particularly true for dietary proteins, which are important determinants of lifespan and reproduction. We show that in Drosophila melanogaster, essential amino acids (eAAs) and the concerted action of the commensal bacteria Acetobacter pomorum and Lactobacilli are critical modulators of food choice. Using a chemically defined diet, we show that the absence of any single eAA from the diet is sufficient to elicit specific appetites for amino acid (AA)-rich food...
April 2017: PLoS Biology
https://www.readbyqxmd.com/read/28441393/sequence-learning-modulates-neural-responses-and-oscillatory-coupling-in-human-and-monkey-auditory-cortex
#18
Yukiko Kikuchi, Adam Attaheri, Benjamin Wilson, Ariane E Rhone, Kirill V Nourski, Phillip E Gander, Christopher K Kovach, Hiroto Kawasaki, Timothy D Griffiths, Matthew A Howard, Christopher I Petkov
Learning complex ordering relationships between sensory events in a sequence is fundamental for animal perception and human communication. While it is known that rhythmic sensory events can entrain brain oscillations at different frequencies, how learning and prior experience with sequencing relationships affect neocortical oscillations and neuronal responses is poorly understood. We used an implicit sequence learning paradigm (an "artificial grammar") in which humans and monkeys were exposed to sequences of nonsense words with regularities in the ordering relationships between the words...
April 2017: PLoS Biology
https://www.readbyqxmd.com/read/28437475/the-school-malaise-trap-program-coupling-educational-outreach-with-scientific-discovery
#19
Dirk Steinke, Vanessa Breton, Emily Berzitis, Paul D N Hebert
The School Malaise Trap Program (SMTP) provides a technologically sophisticated and scientifically relevant educational experience that exposes students to the diversity of life, enhancing their understanding of biodiversity while promoting environmental stewardship. Since 2013, the SMTP has allowed 15,000 students at 350 primary and secondary schools to explore insect diversity in Canadian schoolyards. Students at each school collected hundreds of insects for an analysis of DNA sequence variation that enabled their rapid identification to a species...
April 2017: PLoS Biology
https://www.readbyqxmd.com/read/28422986/a-critical-like-collective-state-leads-to-long-range-cell-communication-in-dictyostelium-discoideum-aggregation
#20
Giovanna De Palo, Darvin Yi, Robert G Endres
The transition from single-cell to multicellular behavior is important in early development but rarely studied. The starvation-induced aggregation of the social amoeba Dictyostelium discoideum into a multicellular slug is known to result from single-cell chemotaxis towards emitted pulses of cyclic adenosine monophosphate (cAMP). However, how exactly do transient, short-range chemical gradients lead to coherent collective movement at a macroscopic scale? Here, we developed a multiscale model verified by quantitative microscopy to describe behaviors ranging widely from chemotaxis and excitability of individual cells to aggregation of thousands of cells...
April 2017: PLoS Biology
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