journal
MENU ▼
Read by QxMD icon Read
search

Open Biology

journal
https://www.readbyqxmd.com/read/28228471/novel-layers-of-rna-polymerase-iii-control-affecting-trna-gene-transcription-in-eukaryotes
#1
REVIEW
Ewa Leśniewska, Magdalena Boguta
RNA polymerase III (Pol III) transcribes a limited set of short genes in eukaryotes producing abundant small RNAs, mostly tRNA. The originally defined yeast Pol III transcriptome appears to be expanding owing to the application of new methods. Also, several factors required for assembly and nuclear import of Pol III complex have been identified recently. Models of Pol III based on cryo-electron microscopy reconstructions of distinct Pol III conformations reveal unique features distinguishing Pol III from other polymerases...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28228470/a-conditional-mutant-of-the-fatty-acid-synthase-unveils-unexpected-cross-talks-in-mycobacterial-lipid-metabolism
#2
Matías Cabruja, Sonia Mondino, Yi Ting Tsai, Julia Lara, Hugo Gramajo, Gabriela Gago
Unlike most bacteria, mycobacteria rely on the multi-domain enzyme eukaryote-like fatty acid synthase I (FAS I) to make fatty acids de novo. These metabolites are precursors of the biosynthesis of most of the lipids present both in the complex mycobacteria cell wall and in the storage lipids inside the cell. In order to study the role of the type I FAS system in Mycobacterium lipid metabolism in vivo, we constructed a conditional mutant in the fas-acpS operon of Mycobacterium smegmatis and analysed in detail the impact of reduced de novo fatty acid biosynthesis on the global architecture of the cell envelope...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28202626/cancer-cells-exhibit-clonal-diversity-in-phenotypic-plasticity
#3
Robert Austin Mathis, Ethan S Sokol, Piyush B Gupta
Phenotypic heterogeneity in cancers is associated with invasive progression and drug resistance. This heterogeneity arises in part from the ability of cancer cells to switch between phenotypic states, but the dynamics of this cellular plasticity remain poorly understood. Here we apply DNA barcodes to quantify and track phenotypic plasticity across hundreds of clones in a population of cancer cells exhibiting epithelial or mesenchymal differentiation phenotypes. We find that the epithelial-to-mesenchymal cell ratio is highly variable across the different clones in cancer cell populations, but remains stable for many generations within the progeny of any single clone-with a heritability of 0...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28179500/ninein-is-essential-for-apico-basal-microtubule-formation-and-clip-170-facilitates-its-redeployment-to-non-centrosomal-microtubule-organizing-centres
#4
Deborah A Goldspink, Chris Rookyard, Benjamin J Tyrrell, Jonathan Gadsby, James Perkins, Elizabeth K Lund, Niels Galjart, Paul Thomas, Tom Wileman, Mette M Mogensen
Differentiation of columnar epithelial cells involves a dramatic reorganization of the microtubules (MTs) and centrosomal components into an apico-basal array no longer anchored at the centrosome. Instead, the minus-ends of the MTs become anchored at apical non-centrosomal microtubule organizing centres (n-MTOCs). Formation of n-MTOCs is critical as they determine the spatial organization of MTs, which in turn influences cell shape and function. However, how they are formed is poorly understood. We have previously shown that the centrosomal anchoring protein ninein is released from the centrosome, moves in a microtubule-dependent manner and accumulates at n-MTOCs during epithelial differentiation...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28179499/structural-mechanistic-and-functional-insight-into-gliotoxin-bis-thiomethylation-in-aspergillus-fumigatus
#5
Stephen K Dolan, Tobias Bock, Vanessa Hering, Rebecca A Owens, Gary W Jones, Wulf Blankenfeldt, Sean Doyle
Gliotoxin is an epipolythiodioxopiperazine (ETP) class toxin, contains a disulfide bridge that mediates its toxic effects via redox cycling and is produced by the opportunistic fungal pathogen Aspergillus fumigatus Self-resistance against gliotoxin is effected by the gliotoxin oxidase GliT, and attenuation of gliotoxin biosynthesis is catalysed by gliotoxin S-methyltransferase GtmA. Here we describe the X-ray crystal structures of GtmA-apo (1.66 Å), GtmA complexed to S-adenosylhomocysteine (1.33 Å) and GtmA complexed to S-adenosylmethionine (2...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28148823/spatial-distribution-and-characterization-of-non-apical-progenitors-in-the-zebrafish-embryo-central-nervous-system
#6
Rebecca McIntosh, Joseph Norris, Jon D Clarke, Paula Alexandre
Studies of non-apical progenitors (NAPs) have been largely limited to the developing mammalian cortex. They are postulated to generate the increase in neuron numbers that underlie mammalian brain expansion. Recently, NAPs have also been reported in the retina and central nervous system of non-mammalian species; in the latter, however, they remain poorly characterized. Here, we characterize NAP location along the zebrafish central nervous system during embryonic development, and determine their cellular and molecular characteristics and renewal capacity...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28148822/transcriptional-responses-to-hyperplastic-mrl-signalling-in-drosophila
#7
Vincent Jonchère, Nada Alqadri, John Herbert, Lauren Dodgson, David Mason, Giovanni Messina, Francesco Falciani, Daimark Bennett
Recent work has implicated the actin cytoskeleton in tissue size control and tumourigenesis, but how changes in actin dynamics contribute to hyperplastic growth is still unclear. Overexpression of Pico, the only Drosophila Mig-10/RIAM/Lamellipodin adapter protein family member, has been linked to tissue overgrowth via its effect on the myocardin-related transcription factor (Mrtf), an F-actin sensor capable of activating serum response factor (SRF). Transcriptional changes induced by acute Mrtf/SRF signalling have been largely linked to actin biosynthesis and cytoskeletal regulation...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28148821/the-notch-pathway-in-the-annelid-platynereis-insights-into-chaetogenesis-and-neurogenesis-processes
#8
Eve Gazave, Quentin I B Lemaître, Guillaume Balavoine
Notch is a key signalling pathway playing multiple and varied functions during development. Notch regulates the selection of cells with a neurogenic fate and maintains a pool of yet uncommitted precursors through lateral inhibition, both in insects and in vertebrates. Here, we explore the functions of Notch in the annelid Platynereis dumerilii (Lophotrochozoa). Conserved components of the pathway are identified and a scenario for their evolution in metazoans is proposed. Unexpectedly, neither Notch nor its ligands are expressed in the neurogenic epithelia of the larva at the time when massive neurogenesis begins...
February 2017: Open Biology
https://www.readbyqxmd.com/read/28123056/human-embryos-cultured-in-vitro-to-14-days
#9
REVIEW
Samantha A Morris
We know a great deal about the development of the mammalian embryo until the time that the blastocyst implants into the uterus. With model organisms such as the mouse, we have also developed a considerable understanding of development immediately around gastrulation as embryos can be recovered at this stage for short-term in vitro culture. However, the intervening period of development remained a 'black box' because it takes place as the blastocyst is implanting into the uterus. Over the past 6 years, techniques pioneered and developed in Magdalena Zernicka-Goetz's laboratory for the in vitro culture of embryos through these implantation stages have opened up this box, affording the first glimpse of embryonic development through these previously hidden stages...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28123055/differential-structural-remodelling-of-heparan-sulfate-by-chemokines-the-role-of-chemokine-oligomerization
#10
Douglas P Dyer, Elisa Migliorini, Catherina L Salanga, Dhruv Thakar, Tracy M Handel, Ralf P Richter
Chemokines control the migration of cells in normal physiological processes and in the context of disease such as inflammation, autoimmunity and cancer. Two major interactions are involved: (i) binding of chemokines to chemokine receptors, which activates the cellular machinery required for movement; and (ii) binding of chemokines to glycosaminoglycans (GAGs), which facilitates the organization of chemokines into haptotactic gradients that direct cell movement. Chemokines can bind and activate their receptors as monomers; however, the ability to oligomerize is critical for the function of many chemokines in vivo Chemokine oligomerization is thought to enhance their affinity for GAGs, and here we show that it significantly affects the ability of chemokines to accumulate on and be retained by heparan sulfate (HS)...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28123054/tracing-the-dynamics-of-gene-transcripts-after-organismal-death
#11
Alex E Pozhitkov, Rafik Neme, Tomislav Domazet-Lošo, Brian G Leroux, Shivani Soni, Diethard Tautz, Peter A Noble
In life, genetic and epigenetic networks precisely coordinate the expression of genes-but in death, it is not known if gene expression diminishes gradually or abruptly stops or if specific genes and pathways are involved. We studied this by identifying mRNA transcripts that apparently increase in relative abundance after death, assessing their functions, and comparing their abundance profiles through postmortem time in two species, mouse and zebrafish. We found mRNA transcript profiles of 1063 genes became significantly more abundant after death of healthy adult animals in a time series spanning up to 96 h postmortem...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28123053/tgf%C3%AE-activin-signalling-is-required-for-ribosome-biogenesis-and-cell-growth-in-drosophila-salivary-glands
#12
Torcato Martins, Nadia Eusebio, Andreia Correia, Joana Marinho, Fernando Casares, Paulo S Pereira
Signalling by TGFβ superfamily factors plays an important role in tissue growth and cell proliferation. In Drosophila, the activity of the TGFβ/Activin signalling branch has been linked to the regulation of cell growth and proliferation, but the cellular and molecular basis for these functions are not fully understood. In this study, we show that both the RII receptor Punt (Put) and the R-Smad Smad2 are strongly required for cell and tissue growth. Knocking down the expression of Put or Smad2 in salivary glands causes alterations in nucleolar structure and functions...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28123052/bifidobacterium-breve-reduces-apoptotic-epithelial-cell-shedding-in-an-exopolysaccharide-and-myd88-dependent-manner
#13
K R Hughes, L C Harnisch, C Alcon-Giner, S Mitra, C J Wright, J Ketskemety, D van Sinderen, A J M Watson, L J Hall
Certain members of the microbiota genus Bifidobacterium are known to positively influence host well-being. Importantly, reduced bifidobacterial levels are associated with inflammatory bowel disease (IBD) patients, who also have impaired epithelial barrier function, including elevated rates of apoptotic extrusion of small intestinal epithelial cells (IECs) from villi-a process termed 'cell shedding'. Using a mouse model of pathological cell shedding, we show that mice receiving Bifidobacterium breve UCC2003 exhibit significantly reduced rates of small IEC shedding...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28123051/a-new-world-for-open-biology
#14
EDITORIAL
David M Glover
No abstract text is available yet for this article.
January 2017: Open Biology
https://www.readbyqxmd.com/read/28100668/correction-to-nmj-morph-reveals-principal-components-of-synaptic-morphology-influencing-structure-function-relationships-at-the-neuromuscular-junction
#15
Ross A Jones, Caitlan D Reich, Kosala N Dissanayake, Fanney Kristmundsdottir, Gordon S Findlater, Richard R Ribchester, Martin W Simmen, Thomas H Gillingwater
No abstract text is available yet for this article.
January 2017: Open Biology
https://www.readbyqxmd.com/read/28100667/the-control-of-translational-accuracy-is-a-determinant-of-healthy-ageing-in-yeast
#16
Tobias von der Haar, Jane E Leadsham, Aimie Sauvadet, Daniel Tarrant, Ilectra S Adam, Kofo Saromi, Peter Laun, Mark Rinnerthaler, Hannelore Breitenbach-Koller, Michael Breitenbach, Mick F Tuite, Campbell W Gourlay
Life requires the maintenance of molecular function in the face of stochastic processes that tend to adversely affect macromolecular integrity. This is particularly relevant during ageing, as many cellular functions decline with age, including growth, mitochondrial function and energy metabolism. Protein synthesis must deliver functional proteins at all times, implying that the effects of protein synthesis errors like amino acid misincorporation and stop-codon read-through must be minimized during ageing. Here we show that loss of translational accuracy accelerates the loss of viability in stationary phase yeast...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28100666/t-type-ca2-channels-are-required-for-enhanced-sympathetic-axon-growth-by-tnf%C3%AE-reverse-signalling
#17
Lilian Kisiswa, Clara Erice, Laurent Ferron, Sean Wyatt, Catarina Osório, Annette C Dolphin, Alun M Davies
Tumour necrosis factor receptor 1 (TNFR1)-activated TNFα reverse signalling, in which membrane-integrated TNFα functions as a receptor for TNFR1, enhances axon growth from developing sympathetic neurons and plays a crucial role in establishing sympathetic innervation. Here, we have investigated the link between TNFα reverse signalling and axon growth in cultured sympathetic neurons. TNFR1-activated TNFα reverse signalling promotes Ca(2+) influx, and highly selective T-type Ca(2+) channel inhibitors, but not pharmacological inhibitors of L-type, N-type and P/Q-type Ca(2+) channels, prevented enhanced axon growth...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28100665/co-option-of-bacteriophage-lysozyme-genes-by-bivalve-genomes
#18
Qian Ren, Chunyang Wang, Min Jin, Jiangfeng Lan, Ting Ye, Kaimin Hui, Jingmin Tan, Zheng Wang, Gerald J Wyckoff, Wen Wang, Guan-Zhu Han
Eukaryotes have occasionally acquired genetic material through horizontal gene transfer (HGT). However, little is known about the evolutionary and functional significance of such acquisitions. Lysozymes are ubiquitous enzymes that degrade bacterial cell walls. Here, we provide evidence that two subclasses of bivalves (Heterodonta and Palaeoheterodonta) acquired a lysozyme gene via HGT, building on earlier findings. Phylogenetic analyses place the bivalve lysozyme genes within the clade of bacteriophage lysozyme genes, indicating that the bivalves acquired the phage-type lysozyme genes from bacteriophages, either directly or through intermediate hosts...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28100664/rab1-interacts-with-golph3-and-controls-golgi-structure-and-contractile-ring-constriction-during-cytokinesis-in-drosophila-melanogaster
#19
Stefano Sechi, Anna Frappaolo, Roberta Fraschini, Luisa Capalbo, Marco Gottardo, Giorgio Belloni, David M Glover, Alan Wainman, Maria Grazia Giansanti
Cytokinesis requires a tight coordination between actomyosin ring constriction and new membrane addition along the ingressing cleavage furrow. However, the molecular mechanisms underlying vesicle trafficking to the equatorial site and how this process is coupled with the dynamics of the contractile apparatus are poorly defined. Here we provide evidence for the requirement of Rab1 during cleavage furrow ingression in cytokinesis. We demonstrate that the gene omelette (omt) encodes the Drosophila orthologue of human Rab1 and is required for successful cytokinesis in both mitotic and meiotic dividing cells of Drosophila melanogaster We show that Rab1 protein colocalizes with the conserved oligomeric Golgi (COG) complex Cog7 subunit and the phosphatidylinositol 4-phosphate effector GOLPH3 at the Golgi stacks...
January 2017: Open Biology
https://www.readbyqxmd.com/read/28100663/leveraging-genome-wide-datasets-to-quantify-the-functional-role-of-the-anti-shine-dalgarno-sequence-in-regulating-translation-efficiency
#20
Adam J Hockenberry, Adam R Pah, Michael C Jewett, Luís A N Amaral
Studies dating back to the 1970s established that sequence complementarity between the anti-Shine-Dalgarno (aSD) sequence on prokaryotic ribosomes and the 5' untranslated region of mRNAs helps to facilitate translation initiation. The optimal location of aSD sequence binding relative to the start codon, the full extents of the aSD sequence and the functional form of the relationship between aSD sequence complementarity and translation efficiency have not been fully resolved. Here, we investigate these relationships by leveraging the sequence diversity of endogenous genes and recently available genome-wide estimates of translation efficiency...
January 2017: Open Biology
journal
journal
43991
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"