173,205 results match your criteria Assembly Automation[Journal]


Slow and steady wins the race: physical limits on the rate of viral DNA packaging.

Authors:
Paul J Jardine

Curr Opin Virol 2019 Apr 16;36:32-37. Epub 2019 Apr 16.

Department of Diagnostic and Biological Sciences, University of Minnesota, 18-242 Moos Tower, 515 Delaware St SE, Minneapolis, MN 55455, United States. Electronic address:

During the assembly of dsDNA viruses such as the tailed bacteriophages and herpesviruses, the viral chromosome is compacted to near crystalline density inside a preformed head shell. DNA translocation is driven by powerful ring ATPase motors that couple ATP binding, hydrolysis, and release to force generation and movement. Studies of the motor of the bacteriophage phi29 have revealed a complex mechanochemistry behind this process that slows as the head fills. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S18796257183015
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http://dx.doi.org/10.1016/j.coviro.2019.03.002DOI Listing
April 2019
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Heme prevents highly amyloidogenic human calcitonin (hCT) aggregation: A potential new strategy for the clinical reuse of hCT.

J Inorg Biochem 2019 Apr 1;196:110686. Epub 2019 Apr 1.

Hubei Key Laboratory of Bioinorganic Chemistry and Materia Medica, School of chemistry and chemical Engineering, Huazhong university of Science and Technology, Wuhan 430074, People's Republic of China. Electronic address:

Irreversible aggregation can extremely limit the bioavailability and therapeutic activity of peptide-based drugs. Thus, peptide fibrillation is an excellent challenge for biotechnological drug development. Human calcitonin (hCT) is such a peptide hormone known for its hypocalcaemic effect but has limited pharmaceutical potential due to a high tendency to aggregate. Read More

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http://dx.doi.org/10.1016/j.jinorgbio.2019.03.026DOI Listing

Rationally introduce AIE into chemosensor: A novel and efficient way to achieving ultrasensitive multi-guest sensing.

Spectrochim Acta A Mol Biomol Spectrosc 2019 Apr 10;218:263-270. Epub 2019 Apr 10.

Key Laboratory of Eco-Environment-Related Polymer Materials, Ministry of Education of China; Research Center of Gansu Military and Civilian Integration Advanced Structural Materials; College of Chemistry and Chemical Engineering, Northwest Normal University, Lanzhou, Gansu, 730070, China.

Recently, ultrasensitive detection and multi-guest sensing have received extensive attention due to their high sensitivity and efficiency. Herein, we report a novel approach to achieve ultrasensitive detection of multi-analyte. This approach is concluded as "rationally introduce Aggregation-Induced Emission (AIE) into chemosensor". Read More

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http://dx.doi.org/10.1016/j.saa.2019.04.014DOI Listing

3D chitosan scaffolds impair NLRP3 inflammasome response in macrophages.

Acta Biomater 2019 Apr 16. Epub 2019 Apr 16.

i3S - Instituto de Inovação e Investigação em Saúde, Universidade do Porto, Rua Alfredo Allen, 208, 4200-125 Porto, Portugal; INEB - Instituto de Engenharia Biomédica, Rua Alfredo Allen, 208, 4200-125 Porto, Portugal; ICBAS - Instituto de Ciências Biomédicas Abel Salazar, Universidade do Porto, Rua de Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal. Electronic address:

Chitosan (Ch) is used in different biomedical applications to promote tissue repair. However, tissue injury caused by biomaterial implantation lead to the release of danger signals that engage different inflammatory pathways on the host. Different implanted materials activate the inflammasome leading to the modulation of the immune response. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S17427061193027
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http://dx.doi.org/10.1016/j.actbio.2019.04.035DOI Listing
April 2019
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Structural and mechanistic themes in glycoconjugate biosynthesis at membrane interfaces.

Curr Opin Struct Biol 2019 Apr 16;59:81-90. Epub 2019 Apr 16.

Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, United States; Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, United States. Electronic address:

Peripheral and integral membrane proteins feature in stepwise assembly of complex glycans and glycoconjugates. Catalysis on membrane-bound substrates features challenges with substrate solubility and active-site accessibility. However, advantages in enzyme and substrate orientation and control of lateral membrane diffusion provide order to the multistep processes. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S0959440X193003
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http://dx.doi.org/10.1016/j.sbi.2019.03.013DOI Listing
April 2019
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Characterization, high production and antimicrobial activity of exopolysaccharides from Lactococcus lactis F-mou.

Microb Pathog 2019 Apr 16. Epub 2019 Apr 16.

Laboratory of Molecular Biology, Genomics and Bioinformatics, Faculty of Nature and Life Science, Hassiba Benbouali University, Chlef, Hay Essalam, 02000, Algeria.

A new exopolysaccharide (EPS) was produced by the Lactococcus lactis F-mou strain (LT898177.1) isolated from the Sahrawi camel milk in the Bir-Naam region, Algeria. The most influential production parameters were screened by the Plackett-Burman design for enhancing EPS yield utilizing the Mech-Degla juice as a low-cost raw material. Read More

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http://dx.doi.org/10.1016/j.micpath.2019.04.018DOI Listing

Multilayer nanoscale functionalisation to treat disorders and enhance regeneration of bone tissue.

Nanomedicine 2019 Apr 16. Epub 2019 Apr 16.

School of Engineering, Newcastle University, Claremont Road, Newcastle upon Tyne NE1 7RU, United Kingdom. Electronic address:

The coatings application onto medical devices has experienced a continuous growth in the last few years. Medical device coating market is expected to grow at a CAGR of 5.16% to reach USD 10 million by 2023 due to the increasing geriatric population and the growing demand for continuous innovation. Read More

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http://dx.doi.org/10.1016/j.nano.2019.03.009DOI Listing

Correct partner makes the difference: Septin G-interface plays a critical role in amyloid formation.

Int J Biol Macromol 2019 Apr 16. Epub 2019 Apr 16.

Instituto de Física de São Carlos, Universidade de São Paulo, Av. João Dagnone, 1100, São Carlos, SP CEP 13563-120, Brazil. Electronic address:

Septins are members of a group of GTP-binding proteins highly conserved in eukaryotes, being linked to diverse cell processes, such as cytokinesis and membrane association. On the other hand, the malfunction of septins is linked to several pathological processes including neurodegeneration and oncogenesis. Septins interact with each other forming heterocomplexes that polymerize in filaments. Read More

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http://dx.doi.org/10.1016/j.ijbiomac.2019.04.105DOI Listing

Larger Area Facilitates Richness-Function Effects in Experimental Microcosms.

Am Nat 2019 May 18;193(5):738-747. Epub 2019 Mar 18.

Species-area relationships (SAR) and biodiversity-ecosystem function (BEF) relationships are central patterns in community ecology. Although research on both patterns often invokes mechanisms of community assembly, both SARs and BEFs are generally treated as separate phenomena. Here we link the two by creating an experimental SAR in microcosm communities and show that greater species richness in larger areas is accompanied by greater ecosystem function. Read More

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http://dx.doi.org/10.1086/702705DOI Listing

Insight into the Transimination Process in the Fabrication of Surface Schiff-based Covalent Organic Frameworks.

Langmuir 2019 Apr 19. Epub 2019 Apr 19.

The on-surface synthesis of single-layered covalent organic frameworks (sCOFs) have been investigated by employing three-fold symmetry monomer 1 carrying aldehyde groups and the ditopic diamine building block 2 on a highly oriented pyrolytic graphite (HOPG) surface. The self-assembly of molecule 1 is persistently observed at stoichiometric ratio of reactive groups. The growth of sCOF network is observed, however, only at the large excess of diamine monomers. Read More

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http://pubs.acs.org/doi/10.1021/acs.langmuir.9b00565
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http://dx.doi.org/10.1021/acs.langmuir.9b00565DOI Listing
April 2019
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Temperature-Triggered Self-Assembled Structural Transformation: from Pure Hydrogen-Bonding Quad-rilateral Nano-Network to Trihexagonal Structures.

Langmuir 2019 Apr 19. Epub 2019 Apr 19.

The rational design and adequate control of structures of molecular building blocks plays an im-portant role in the fabrication of desired supramolecular nano-structures at interfaces. In this study, the formation of a pure hydrogen-bonding co-assembly supramolecular nano-network on a highly oriented pyrolytic graphite (HOPG) surface was demonstrated by means of scanning tunneling mi-croscope (STM). Thermal annealing process was conducted to monitor the temperature triggered structural transformation of the self-assembled nano-network. Read More

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http://dx.doi.org/10.1021/acs.langmuir.9b00666DOI Listing

Cold Thermal Response of an Amyloid Oligomer Differs from Typical Globular Protein Cold Denaturation.

J Phys Chem Lett 2019 Apr 19. Epub 2019 Apr 19.

In contrast with the general behavior of folded proteins, cold thermal response of amyloid assemblies is difficult to elicit with simple models. We exploit exhaustive simulations to evaluate the thermal response of a barrel-shaped model amyloid oligomer, with a distinct hydrophobic core akin to that of folded proteins. Cumulative thermal data over 210 to 483 K indicate a sharp inflexion and rise in structural stability as the temperature is lowered below the melting temperature of the water model. Read More

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http://dx.doi.org/10.1021/acs.jpclett.9b00709DOI Listing

Self-Assembled Oxaliplatin(IV) Prodrug-Porphyrin Conjugate for Combinational Photodynamic and Chemotherapy.

ACS Appl Mater Interfaces 2019 Apr 19. Epub 2019 Apr 19.

Nanomedicine has emerged as a promising strategy for effective cancer treatment. A useful approach is to develop carrier-free nanodrugs via facile supramolecular self-assembly process. To achieve high therapeutic effect, integrating photodynamic therapy with chemotherapy has been sought after. Read More

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http://dx.doi.org/10.1021/acsami.9b04557DOI Listing

Small Molecule Potentiation of Gram-positive Selective Antibiotics Against Acinetobacter baumannii.

ACS Infect Dis 2019 Apr 19. Epub 2019 Apr 19.

In 2016, the World Health Organization deemed antibiotic resistance one of the biggest threats to global health, food security, and development. The need for new methods to combat infections caused by antibiotic resistant pathogens will require a variety of approaches to identifying effective new therapeutic strategies. One approach is the identification of small molecule adjuvants that potentiate the activity of antibiotics of demonstrated utility, whose efficacy is abated by resistance, both acquired and intrinsic. Read More

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http://pubs.acs.org/doi/10.1021/acsinfecdis.9b00067
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http://dx.doi.org/10.1021/acsinfecdis.9b00067DOI Listing
April 2019
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Subcellular duplex DNA and G-quadruplex interaction profiling of a hexagonal Pt(II) metallacycle.

Angew Chem Int Ed Engl 2019 Apr 19. Epub 2019 Apr 19.

Donostia International Physics Center, Chemistry, Manuel Lardizabal Ibilbidea, 4, 20018, Donostia, SPAIN.

Metal-driven self-assembly afforded a multitude of fascinating supramolecular coordination complexes (SCCs) with applications as catalysts, host-guest and stimuli-responsive systems. However, the interest in SCCs' biological applications is only starting to emerge and thorough characterization of their behaviour in biological milieus is still lacking. Here, we report on the synthesis and detailed in-cell tracking of a Pt2L2 metallacycle. Read More

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http://dx.doi.org/10.1002/anie.201900934DOI Listing

Specific amino acid substitutions in β strand S2 of FtsZ cause spiraling septation and impair assembly cooperativity in Streptomyces spp.

Mol Microbiol 2019 Apr 19. Epub 2019 Apr 19.

Department of Biology, Lund University, 223 62, Lund, Sweden.

Bacterial cell division is orchestrated by the Z ring, which is formed by single-stranded treadmilling protofilaments of FtsZ. In Streptomyces, during sporulation, multiple Z rings are assembled and lead to formation of septa that divide a filamentous hyphal cell into tens of prespore compartments. We describe here mutant alleles of ftsZ in Streptomyces coelicolor and Streptomyces venezuelae that perturb cell division in such a way that constriction is initiated along irregular spiral-shaped paths rather than as regular septa perpendicular to the cell length axis. Read More

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http://dx.doi.org/10.1111/mmi.14262DOI Listing

Asymmetrical, Symmetrical, Divalent, and Y-Shaped (Bola)amphiphiles: The Relationship between the Molecular Structure and Self-Assembly in Amino Derivatives of Sophorolipid Biosurfactants.

J Phys Chem B 2019 Apr 19. Epub 2019 Apr 19.

Laboratory for Chemical Technology (LCT), Department of Materials, Textiles and Chemical Engineering , Ghent University , Technologiepark 125 , 9052 Ghent , Belgium.

Conventional head-chain but also more exotic divalent, Gemini, or bolaform amphiphiles have in common well-defined hydrophilic and hydrophobic blocks with often a predictable self-assembly behavior. However, new categories of amphiphiles, such as microbial biosurfactants, challenge such conventional understanding because of the poorly defined boundaries between the hydrophilic and hydrophobic portions. Microbial glycolipids, such as sophorolipids, rhamnolipids, or cellobioselipids, interesting biodegradable, nontoxic, alternatives to synthetic surfactants, all represent interesting examples of atypical amphiphiles with partially predictable self-assembly properties. Read More

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http://dx.doi.org/10.1021/acs.jpcb.9b01013DOI Listing

Self-assembled monolayer of metal oxide nanosheet and structure and gas sensing property relationship.

ACS Sens 2019 Apr 19. Epub 2019 Apr 19.

Semiconducting 2D metal oxides have attracted great research interests for gas sensing applications due to their considerable specific surface area and highly homogenous surface. Developing a method for fabricating thin films of 2D metal oxides is crucial for minimizing the negative effects on sensing performance caused by slow diffusion. In this work, a simple, versatile, and highly reproducible self-assembly method is developed for fabricating monolayer film sensors made from metal oxide nanosheets with much superior sensing performance to their thick film counterparts. Read More

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http://dx.doi.org/10.1021/acssensors.9b00162DOI Listing

Proteasome dysfunction induces excessive proteome instability and loss of mitostasis that can be mitigated by enhancing mitochondrial fusion or autophagy.

Autophagy 2019 Apr 19:1-17. Epub 2019 Apr 19.

a Department of Cell Biology and Biophysics, Faculty of Biology , National and Kapodistrian University of Athens , Athens , Greece.

The ubiquitin-proteasome pathway (UPP) is central to proteostasis network (PN) functionality and proteome quality control. Yet, the functional implication of the UPP in tissue homeodynamics at the whole organism level and its potential cross-talk with other proteostatic or mitostatic modules are not well understood. We show here that knock down (KD) of proteasome subunits in Drosophila flies, induced, for most subunits, developmental lethality. Read More

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http://dx.doi.org/10.1080/15548627.2019.1596477DOI Listing

Photocatalytic template removal by non-ozone generating UV radiation for the fabrication of well defined mesoporous inorganic coatings.

ACS Appl Mater Interfaces 2019 Apr 19. Epub 2019 Apr 19.

The processing of mesoporous inorganic coatings typically requires a high temperature calcination step to remove organic precursors that are essential during the material assembly. Lowering the fabrication energy costs and cutting back on the necessary resources would provide greater scope for the deployment in applications such as architectural glass, optical components, photovoltaic cells and energy storage and further compatibilize substrates with low temperature stability. Organic removal methods based on UV-ozone treatment are increasing in popularity but concerns remain regarding large-scale ozone generation and usage of mercury-containing UV lamps. Read More

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http://dx.doi.org/10.1021/acsami.9b01199DOI Listing

[Advances in isopeptide bond-mediated molecular superglue].

Sheng Wu Gong Cheng Xue Bao 2019 Apr;35(4):607-615

College of Biological & Environmental Sciences, Zhejiang Wanli University, Ningbo 315100, Zhejiang, China.

Isopeptide bond-mediated molecular superglue is the irreversible covalent bond spontaneously formed by the side chains of lysine (Lys) and asparagine/aspartic acid (Asn/Asp) residues. The peptide-peptide interaction is specific, stable, and can be achieved quickly without any particular physicochemical factor. In the light of recent progress by domestic and foreign researchers, here we summarize the origin, assembly system and mechanism of isopeptide bond reaction, as well as the molecular cyclization and protein topological structure mediated by it. Read More

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http://dx.doi.org/10.13345/j.cjb.180303DOI Listing

Comparative RNA-seq analysis of the drought-sensitive lentil (Lens culinaris) root and leaf under short- and long-term water deficits.

Funct Integr Genomics 2019 Apr 18. Epub 2019 Apr 18.

Department of Chemical and Biological Engineering, Koc University, Rumelifeneri Yolu, Sariyer, Istanbul, Turkey.

Drought stress is one of the main environmental factors that affects growth and productivity of crop plants, including lentil. To gain insights into the genome-wide transcriptional regulation in lentil root and leaf under short- and long-term drought conditions, we performed RNA-seq on a drought-sensitive lentil cultivar (Lens culinaris Medik. cv. Read More

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http://link.springer.com/10.1007/s10142-019-00675-2
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http://dx.doi.org/10.1007/s10142-019-00675-2DOI Listing
April 2019
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Biomolecular Chemistry in Liquid Phase Separated Compartments.

Front Mol Biosci 2019 3;6:21. Epub 2019 Apr 3.

Institute for Molecules and Materials, Radboud University, Nijmegen, Netherlands.

Biochemical processes inside the cell take place in a complex environment that is highly crowded, heterogeneous, and replete with interfaces. The recently recognized importance of biomolecular condensates in cellular organization has added new elements of complexity to our understanding of chemistry in the cell. Many of these condensates are formed by liquid-liquid phase separation (LLPS) and behave like liquid droplets. Read More

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http://dx.doi.org/10.3389/fmolb.2019.00021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6456709PMC

The Genus as a Resource for Apomixis Research.

Front Plant Sci 2019 2;10:392. Epub 2019 Apr 2.

Department of Plant and Microbial Biology, Zürich-Basel Plant Science Center, University of Zurich, Zurich, Switzerland.

The genera (A. Löve et D. Löve) and , the latter containing the model plant , belong to the same clade within the Brassicaceae family. Read More

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http://dx.doi.org/10.3389/fpls.2019.00392DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454215PMC

Translocase of the Outer Mitochondrial Membrane 40 Is Required for Mitochondrial Biogenesis and Embryo Development in .

Front Plant Sci 2019 2;10:389. Epub 2019 Apr 2.

State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, China.

In eukaryotes, mitochondrion is an essential organelle which is surrounded by a double membrane system, including the outer membrane, intermembrane space and the inner membrane. The translocase of the outer mitochondrial membrane (TOM) complex has attracted enormous interest for its role in importing the preprotein from the cytoplasm into the mitochondrion. However, little is understood about the potential biological function of the TOM complex in . Read More

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https://www.frontiersin.org/article/10.3389/fpls.2019.00389/
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http://dx.doi.org/10.3389/fpls.2019.00389DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6455079PMC
April 2019
2 Reads

Confocal Laser Scanning Microscopy for Analysis of Biofilm Architecture and Matrix Localization.

Front Microbiol 2019 2;10:677. Epub 2019 Apr 2.

Department of Microbiology, University of Washington, Seattle, WA, United States.

Most microbes can produce surface-associated or suspended aggregates called biofilms, which are encased within a biopolymer-rich matrix. The biofilm matrix provides structural integrity to the aggregates and shields the resident cells against environmental stressors, including antibiotic treatment. Microscopy permits examination of biofilm structure in relation to the spatial localization of important biofilm matrix components. Read More

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http://dx.doi.org/10.3389/fmicb.2019.00677DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454187PMC

Diurnal Temperature Variation and Plants Drive Latitudinal Patterns in Seasonal Dynamics of Soil Microbial Community.

Front Microbiol 2019 2;10:674. Epub 2019 Apr 2.

Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, China.

Seasonality, an exogenous driver, motivates the biological and ecological temporal dynamics of animal and plant communities. Underexplored microbial temporal endogenous dynamics hinders the prediction of microbial response to climate change. To elucidate temporal dynamics of microbial communities, temporal turnover rates, phylogenetic relatedness, and species interactions were integrated to compare those of a series of forest ecosystems along latitudinal gradients. Read More

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http://dx.doi.org/10.3389/fmicb.2019.00674DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454054PMC

Structural and Functional Characterization of the Type Three Secretion System (T3SS) Needle of .

Front Microbiol 2019 29;10:573. Epub 2019 Mar 29.

Univ. Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale (IBS), Grenoble, France.

The type three secretion system (T3SS) is a macromolecular protein nano-syringe used by different bacterial pathogens to inject effectors into host cells. The extracellular part of the syringe is a needle-like filament formed by the polymerization of a 9-kDa protein whose structure and proper localization on the bacterial surface are key determinants for efficient toxin injection. Here, we combined , , and approaches to characterize the T3SS needle and its major component PscF. Read More

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https://www.frontiersin.org/article/10.3389/fmicb.2019.00573
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http://dx.doi.org/10.3389/fmicb.2019.00573DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6455054PMC
March 2019
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Diversity, Virulence, and Antimicrobial Resistance in Isolates From the Newly Emerging ST101 Lineage.

Front Microbiol 2019 2;10:542. Epub 2019 Apr 2.

Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ, United States.

The global dissemination of and carbapenemase (KPC) has been largely attributed to a few high-risk sequence types (STs) (ST258, ST11, ST512) associated with human disease. ST101 is an emerging clone that has been identified in different parts of the world with the potential to become a global, persistent public health threat. Recent research suggests the ST101 lineage is associated with an 11% increase in mortality rate in comparison to non-ST101 infections. Read More

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http://dx.doi.org/10.3389/fmicb.2019.00542DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454207PMC

New insights into the ORF2 capsid protein, a key player of the hepatitis E virus lifecycle.

Sci Rep 2019 Apr 18;9(1):6243. Epub 2019 Apr 18.

Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, U1019 - UMR 8204 - CIIL- Center for Infection and Immunity of Lille, F-59000, Lille, France.

Hepatitis E Virus (HEV) genome encodes three proteins including the ORF2 capsid protein. Recently, we demonstrated that HEV produces three different forms of ORF2: (i) the ORF2i form (infectious ORF2) which is the component of infectious particles, (ii) the secreted ORF2g (glycosylated ORF2) and ORF2c (cleaved ORF2) forms that are not associated with infectious particles, but are the major antigens in HEV-infected patient sera. The ORF2 protein sequence contains three highly conserved potential N-glycosylation sites (N1, N2 and N3). Read More

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http://dx.doi.org/10.1038/s41598-019-42737-2DOI Listing

Assembly of functionalized silk together with cells to obtain proliferative 3D cultures integrated in a network of ECM-like microfibers.

Sci Rep 2019 Apr 18;9(1):6291. Epub 2019 Apr 18.

Division of Protein Technology, School of Biotechnology, KTH Royal Institute of Technology, SE-106 91, Stockholm, Sweden.

Tissues are built of cells integrated in an extracellular matrix (ECM) which provides a three-dimensional (3D) microfiber network with specific sites for cell anchorage. By genetic engineering, motifs from the ECM can be functionally fused to recombinant silk proteins. Such a silk protein, FN-silk, which harbours a motif from fibronectin, has the ability to self-assemble into networks of microfibers under physiological-like conditions. Read More

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http://dx.doi.org/10.1038/s41598-019-42541-yDOI Listing

Reconstitution of the lipid-linked oligosaccharide pathway for assembly of high-mannose N-glycans.

Nat Commun 2019 Apr 18;10(1):1813. Epub 2019 Apr 18.

Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, 214122, Wuxi, China.

The asparagine (N)-linked Man9GlcNAc2 is required for glycoprotein folding and secretion. Understanding how its structure contributes to these functions has been stymied by our inability to produce this glycan as a homogenous structure of sufficient quantities for study. Here, we report the high yield chemoenzymatic synthesis of Man9GlcNAc2 and its biosynthetic intermediates by reconstituting the eukaryotic lipid-linked oligosaccharide (LLO) pathway. Read More

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http://dx.doi.org/10.1038/s41467-019-09752-3DOI Listing

Hierarchical self-assembly of 3D lattices from polydisperse anisometric colloids.

Nat Commun 2019 Apr 18;10(1):1815. Epub 2019 Apr 18.

Department of Materials Science and Engineering, University of Illinois, Urbana, IL, 61801, USA.

Colloids are mainly divided into two types defined by size. Micron-scale colloids are widely used as model systems to study phase transitions, while nanoparticles have physicochemical properties unique to their size. Here we study a promising yet underexplored third type: anisometric colloids, which integrate micrometer and nanometer dimensions into the same particle. Read More

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http://dx.doi.org/10.1038/s41467-019-09787-6DOI Listing

Complex signal processing in synthetic gene circuits using cooperative regulatory assemblies.

Science 2019 Apr 18. Epub 2019 Apr 18.

Department of Biomedical Engineering and Biological Design Center, Boston University, Boston, MA 02215, USA.

Eukaryotic genes are regulated by multivalent transcription factor complexes. Through cooperative self-assembly, these complexes perform non-linear regulatory operations involved in cellular decision-making and signal processing. Here, we apply this design principle to synthetic networks, testing whether engineered cooperative assemblies can program non-linear gene circuit behavior in yeast. Read More

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http://dx.doi.org/10.1126/science.aau8287DOI Listing

Overlapping Roles in Chromosome Segregation for Heterochromatin Protein 1 (Swi6) and DDK in .

Genetics 2019 Apr 18. Epub 2019 Apr 18.

University of Southern California

Fission yeast Swi6 is a human HP-1 homologue that plays important roles in multiple cellular processes. In addition to its role in maintaining heterochromatin silencing, Swi6 is required for cohesin enrichment at the pericentromere. Loss of Swi6 leads to abnormal mitosis including defects in establishment of bi-oriented sister kinetochores and microtubule attachment. Read More

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http://dx.doi.org/10.1534/genetics.119.302125DOI Listing

Whole Genome Sequencing and Re-sequencing of the Sable Antelope (): A Resource for Monitoring Diversity in and Populations.

G3 (Bethesda) 2019 Apr 18. Epub 2019 Apr 18.

Smithsonian Conservation Biology Institute.

Genome-wide assessment of genetic diversity has the potential to increase the ability to understand admixture, inbreeding, kinship and erosion of genetic diversity affecting both captive () and wild () populations of threatened species. The sable antelope (), native to the savannah woodlands of sub-Saharan Africa, is a species that is being managed in both public (zoo) and private (ranch) collections in the United States. Our objective was to develop whole genome sequence resources that will serve as a foundation for characterizing the genetic status of populations of sable antelope relative to populations in the wild. Read More

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http://dx.doi.org/10.1534/g3.119.400084DOI Listing

Spatial, Temporal, and Phylogenetic Scales of Microbial Ecology.

Trends Microbiol 2019 Apr 15. Epub 2019 Apr 15.

Joint Genome Institute, Walnut Creek, CA, USA. Electronic address:

Microbial communities play a major role in disease, biogeochemical cycling, agriculture, and bioremediation. However, identifying the ecological processes that govern microbial community assembly and disentangling the relative impacts of those processes has proven challenging. Here, we propose that this discord is due to microbial systems being studied at different spatial, temporal, and phylogenetic scales. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S0966842X193006
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http://dx.doi.org/10.1016/j.tim.2019.03.003DOI Listing
April 2019
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Mouse ANKRD31 Regulates Spatiotemporal Patterning of Meiotic Recombination Initiation and Ensures Recombination between X and Y Sex Chromosomes.

Mol Cell 2019 Apr 12. Epub 2019 Apr 12.

Institute of Physiological Chemistry, Faculty of Medicine, Technische Universität Dresden, Fetscherstraße 74, 01307 Dresden, Germany. Electronic address:

Orderly segregation of chromosomes during meiosis requires that crossovers form between homologous chromosomes by recombination. Programmed DNA double-strand breaks (DSBs) initiate meiotic recombination. We identify ANKRD31 as a key component of complexes of DSB-promoting proteins that assemble on meiotic chromosome axes. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S10972765193022
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http://dx.doi.org/10.1016/j.molcel.2019.03.022DOI Listing
April 2019
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GenHap: a novel computational method based on genetic algorithms for haplotype assembly.

BMC Bioinformatics 2019 Apr 18;20(Suppl 4):172. Epub 2019 Apr 18.

Department of Informatics, Systems and Communication (DISCo), University of Milano-Bicocca, Viale Sarca 336, U14 Building, Milan, 20126, Italy.

Background: In order to fully characterize the genome of an individual, the reconstruction of the two distinct copies of each chromosome, called haplotypes, is essential. The computational problem of inferring the full haplotype of a cell starting from read sequencing data is known as haplotype assembly, and consists in assigning all heterozygous Single Nucleotide Polymorphisms (SNPs) to exactly one of the two chromosomes. Indeed, the knowledge of complete haplotypes is generally more informative than analyzing single SNPs and plays a fundamental role in many medical applications. Read More

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https://bmcbioinformatics.biomedcentral.com/articles/10.1186
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http://dx.doi.org/10.1186/s12859-019-2691-yDOI Listing
April 2019
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SQUAT: a Sequencing Quality Assessment Tool for data quality assessments of genome assemblies.

BMC Genomics 2019 Apr 18;19(Suppl 9):238. Epub 2019 Apr 18.

Institute of Information Science, Academia Sinica, Taipei, Taiwan.

Background: With the rapid increase in genome sequencing projects for non-model organisms, numerous genome assemblies are currently in progress or available as drafts, but not made available as satisfactory, usable genomes. Data quality assessment of genome assemblies is gaining importance not only for people who perform the assembly/re-assembly processes, but also for those who attempt to use assemblies as maps in downstream analyses. Recent studies of the quality control, quality evaluation/ assessment of genome assemblies have focused on either quality control of reads before assemblies or evaluation of the assemblies with respect to their contiguity and correctness. Read More

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https://bmcgenomics.biomedcentral.com/articles/10.1186/s1286
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http://dx.doi.org/10.1186/s12864-019-5445-3DOI Listing
April 2019
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Detection of dicistroviruses RNA in blood of febrile Tanzanian children.

Emerg Microbes Infect 2019 ;8(1):613-623

a Division of Infectious Diseases and Laboratory of Virology , University of Geneva Hospitals Geneva , Switzerland.

Fever is the leading cause of paediatric outpatient consultations in Sub-Saharan Africa. Although most are suspected to be of viral origin, a putative causative pathogen is not identified in over a quarter of these febrile episodes. Using a de novo assembly sequencing approach, we report the detection (15. Read More

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https://www.tandfonline.com/doi/full/10.1080/22221751.2019.1
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http://dx.doi.org/10.1080/22221751.2019.1603791DOI Listing
January 2019
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Direct Mass Spectrometry Analysis Using In-Capillary Dicationic Ionic Liquid-Based in situ Dispersive Liquid-Liquid Microextraction and Sonic-Spray Ionization.

Anal Chem 2019 Apr 19. Epub 2019 Apr 19.

The current study reports on a direct mass spectrometry (MS) analysis method using in-capillary dicationic ionic liquid (DIL)-based in situ dispersive liquid-liquid microextraction (DLLME) and sonic-spray ionization (SSI). The developed method merged extraction, enrichment, ionization, and detection of perfluorinated compounds (PFCs) in environmental water into a single step. A microliter-scale ternary fluidic system was designed and integrated into a disposable pulled capillary, in which an imidazolium-based germinal DIL reagent activated an in situ metathesis reaction. Read More

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http://dx.doi.org/10.1021/acs.analchem.9b00597DOI Listing

Polysaccharide Coating of Gelatin Gels for Controlled BSA Release.

Polymers (Basel) 2019 Apr 17;11(4). Epub 2019 Apr 17.

Instituto de Ciencia y Tecnología de Polímeros (ICTP), CSIC, Juan de la Cierva 3, Madrid, 28006 post code, Spain.

Self-assembly of natural polymers constitute a powerful route for the development of functional materials. In particular, layer-by-layer (LBL) assembly constitutes a versatile technique for the nanostructuration of biobased polymers into multilayer films. Gelatin has gained much attention for its abundance, biodegradability, and excellent gel-forming properties. Read More

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http://dx.doi.org/10.3390/polym11040702DOI Listing

Study on Surface Properties of Aramid Fiber Modified in Supercritical Carbon Dioxide by Glycidyl-POSS.

Polymers (Basel) 2019 Apr 17;11(4). Epub 2019 Apr 17.

School of Physics and Electronic Science, Guizhou Education University, Guiyang 550018, China.

The outstanding diffusivity and permeability of supercritical carbon dioxide (scCO) are extremely beneficial for grafting reaction. In this work, aramid fibers (AF) are modified in scCO by glycidyl-polyhedral oliomeric silsesquioxane (POSS) with 2-ethyl-4-methylimidazole (2E4MZ) on the basis of cleaning with acetone. The surface morphology and chemical structure of the modified AF were measured and characterized by Fourier transform infrared spectroscopy (FTIR), X-ray photoelectron spectroscopy (XPS), Scanning electron microscope (SEM), Thermogravimetric (TG), and Atomic force microscope (AFM). Read More

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http://dx.doi.org/10.3390/polym11040700DOI Listing

Inspection of Aircraft Wing Panels Using Unmanned Aerial Vehicles.

Sensors (Basel) 2019 Apr 17;19(8). Epub 2019 Apr 17.

Airbus UK, Broughton CH4 0DR, UK.

In large civil aircraft manufacturing, a time-consuming post-production process is the non-destructive inspection of wing panels. This work aims to address this challenge and improve the defects' detection by performing automated aerial inspection using a small off-the-shelf multirotor. The UAV is equipped with a wide field-of-view camera and an ultraviolet torch for implementing non-invasive imaging inspection. Read More

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http://dx.doi.org/10.3390/s19081824DOI Listing

Self-Assembly of Metal Nanoclusters for Aggregation-Induced Emission.

Int J Mol Sci 2019 Apr 17;20(8). Epub 2019 Apr 17.

Beijing Advanced Innovation Center of Materials Genome Engineering, Research Center for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, China.

Aggregation-induced emission (AIE) is an intriguing strategy to enhance the luminescence of metal nanoclusters (NCs). However, the morphologies of aggregated NCs are often irregular and inhomogeneous, leading to instability and poor color purity of the aggregations, which greatly limit their further potential in optical applications. Inspired by self-assembly techniques, manipulating metal NCs into well-defined architectures has achieved success. Read More

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https://www.mdpi.com/1422-0067/20/8/1891
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http://dx.doi.org/10.3390/ijms20081891DOI Listing
April 2019
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Self-assembly of a two-dimensional molecular layer in a nonhomogeneous electric field: Kinetic Monte Carlo simulations.

Phys Rev E 2019 Mar;99(3-1):032110

Charles University, Faculty of Mathematics and Physics, Department of Surface and Plasma Science, V Holešovičkách 2, 180 00 Prague 8, Czech Republic.

Behavior of mobile adsorbed species can be affected by the presence of a strong non-homogeneous electric field. Such a field exists in the proximity of a biased tip of the scanning tunneling microscope. Depending on the electronic properties of the adsorbate and the polarity of the electric field, self-assembly of ordered structures on the surface can be facilitated or prevented. Read More

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http://dx.doi.org/10.1103/PhysRevE.99.032110DOI Listing

Quantifying Wind-Driven Firebrand Production from Roofing Assembly Combustion.

Fire Mater 2018 ;43

Building Research Institute (BRI), Tsukuba, Ibaraki, 305-0802, Japan.

Large outdoor fires present a risk to the built environment. Examples often in the international media reports are wildfires that spread into communities, referred to as Wildland-Urban Interface (WUI) fires. Other examples are large urban fires including those that have occurred after earthquakes. Read More

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http://dx.doi.org/10.1002/fam.2661DOI Listing
January 2018

Calibration of mobile manipulators using 2D positional features.

Measurement (Lond) 2018 ;124

Intelligent Systems Division, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, MD 20899, United States.

Robotic manipulators are increasingly being attached to Automatic Ground Vehicles (AGVs) to aid in the efficiency of assembly for manufacturing systems. However, calibrating these mobile manipulators is difficult as the offset between the robotic manipulator and the AGV is often unknown. This paper provides a novel, simple, and low-cost method for calibrating and measuring the performance of mobile manipulators by using data collected from a laser retroreflector that digitally detects the horizontal two-dimensional (2D) position of reflectors on an artifact as well as a navigation system that provides the heading angle and 2D position of the AGV. Read More

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http://dx.doi.org/10.1016/j.measurement.2018.04.024DOI Listing
January 2018

Computational approaches to macromolecular interactions in the cell.

Curr Opin Struct Biol 2019 Apr 15;55:59-65. Epub 2019 Apr 15.

Computational Biology Program and Department of Molecular Biosciences, The University of Kansas, Lawrence, KS 66045, USA. Electronic address:

Structural modeling of a cell is an evolving strategic direction in computational structural biology. It takes advantage of new powerful modeling techniques, deeper understanding of fundamental principles of molecular structure and assembly, and rapid growth of the amount of structural data generated by experimental techniques. Key modeling approaches to principal types of macromolecular assemblies in a cell already exist. Read More

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http://dx.doi.org/10.1016/j.sbi.2019.03.012DOI Listing