Works Published in 2016

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Displaying works 21 - 40 of 42 in total

Sorted by most recent date added to the index first, which may not be the same as publication date order.

2016 journal article

Human Norovirus Aptamer Exhibits High Degree of Target Conformation-Dependent Binding Similar to That of Receptors and Discriminates Particle Functionality

MSPHERE, 1(6).

author keywords: aptamer; GII.4; histo-blood group antigen; infectivity; noroviruses
TL;DR: A hitherto unexplored property of a different type of ligand, a nucleic acid aptamer, to mimic receptor binding behavior and assess capsid functionality for a selected strain of norovirus is reported, suggesting that other aptamers may show promise in the study of other fastidious microorganisms. (via Semantic Scholar)
UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Crystal structures of wild-type Trichoderma reesei Cel7A catalytic domain in open and closed states

FEBS LETTERS, 590(23), 4429–4438.

author keywords: Cel7A; cellulase; closed state; processivity; product-binding site; Trichoderma reesei
MeSH headings : Binding Sites; Catalytic Domain; Crystallography, X-Ray; Glycoside Hydrolases / chemistry; Glycoside Hydrolases / genetics; Glycoside Hydrolases / metabolism; Molecular Dynamics Simulation; Mutation; Trichoderma / enzymology
TL;DR: Analysis of the interactions formed by R251 provides a structural rationale for the concurrent decrease in product inhibition and catalytic efficiency measured for product‐binding site mutants. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Tunable allosteric library of caspase-3 identifies coupling between conserved water molecules and conformational selection

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 113(41), E6080–E6088.

author keywords: allostery; conformational selection; saturation mutagenesis; protein solvation; protein structure
MeSH headings : Allosteric Regulation; Allosteric Site; Amino Acid Substitution; Caspase 3 / chemistry; Caspase 3 / genetics; Caspase 3 / metabolism; Catalytic Domain; Crystallography, X-Ray; Enzyme Activation; Models, Molecular; Molecular Conformation; Molecular Dynamics Simulation; Mutagenesis; Protein Binding; Protein Conformation; Protein Multimerization; Quantitative Structure-Activity Relationship; Solubility; Water / chemistry
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

5-Hydroxymethylcytosine in E-box motifs ACAT|GTG and ACAC|GTG increases DNA-binding of the B-HLH transcription factor TCF4

INTEGRATIVE BIOLOGY, 8(9), 936–945.

By: S. Khund-Sayeed*, X. He*, T. Holzberg*, J. Wang*, D. Rajagopal*, S. Upadhyay*, S. Durell*, S. Mukherjee* ...

MeSH headings : 5-Methylcytosine / analogs & derivatives; 5-Methylcytosine / chemistry; Basic Helix-Loop-Helix Leucine Zipper Transcription Factors / chemistry; Basic Helix-Loop-Helix Leucine Zipper Transcription Factors / ultrastructure; Binding Sites; DNA / chemistry; DNA / ultrastructure; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / ultrastructure; E-Box Elements; Protein Array Analysis / methods; Protein Binding; Protein Interaction Domains and Motifs; Protein Interaction Mapping; Transcription Factor 4 / chemistry; Transcription Factor 4 / ultrastructure
TL;DR: Examination of X-ray structures of the closely related TCF3 and USF1 bound to DNA suggestsTCF3 can undergo a conformational shift to preferentially bind to 5hmC while the USF 1 basic region is bulkier and rigid precluding a conformation shift to bind 5hm C. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

A flow cytometric method for estimating S-phase duration in plants

JOURNAL OF EXPERIMENTAL BOTANY, 67(21), 6077–6087.

By: L. Mickelson-Young n, E. Wear n, P. Mulvaney n, T. Lee n, E. Szymanski n, G. Allen n, L. Hanley-Bowdoin n, W. Thompson n

author keywords: Arabidopsis; barley; EdU; flow cytometry; maize; replication timing; rice; S-phase duration; wheat
MeSH headings : Arabidopsis / cytology; Arabidopsis / growth & development; DNA, Plant / metabolism; Deoxyuridine / analogs & derivatives; Deoxyuridine / metabolism; Flow Cytometry / methods; G1 Phase / physiology; G2 Phase / physiology; Hordeum / cytology; Hordeum / growth & development; Meristem / cytology; Meristem / growth & development; Oryza / cytology; Oryza / growth & development; S Phase / physiology; Triticum / cytology; Triticum / growth & development; Zea mays / cytology; Zea mays / growth & development
TL;DR: This work estimated S-phase duration for several plant species by following EdU-labeled nuclei from G1 to G2 using bivariate flow cytometry, finding that S- phase duration is relatively consistent over a range of genome sizes. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

X-ray crystallographic studies of the extracellular domain of the first plant ATP receptor, DORN1, and the orthologous protein from Camelina sativa

ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS, 72, 782–787.

By: Z. Li n, S. Chakraborty n & G. Xu n

author keywords: plant ATP receptor; DORN1; lectin receptor kinase I.9; glycosylation; Arabidopsis thaliana; Camelina sativa
MeSH headings : Adenosine Triphosphate / chemistry; Adenosine Triphosphate / metabolism; Amino Acid Sequence; Arabidopsis / chemistry; Arabidopsis / metabolism; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Baculoviridae / genetics; Baculoviridae / metabolism; Brassicaceae / chemistry; Brassicaceae / metabolism; Cloning, Molecular; Crystallization; Crystallography, X-Ray; Gene Expression; Glycosylation; Plasmids / chemistry; Plasmids / metabolism; Protein Kinases / chemistry; Protein Kinases / genetics; Protein Kinases / metabolism; Recombinant Proteins / chemistry; Recombinant Proteins / genetics; Recombinant Proteins / metabolism; X-Ray Diffraction
TL;DR: The extracellular domain of the A. thaliana ATP receptor DORN1 has been expressed and purified; a protein orthologous to Dorn1 from C. sativa has been crystallized and its X-ray diffraction data have been collected. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Single-Site Glycoprotein Mutants Inhibit a Late Event in Sindbis Virus Assembly

JOURNAL OF VIROLOGY, 90(18), 8372–8380.

MeSH headings : Animals; Cells, Cultured; Cricetinae; Membrane Glycoproteins / genetics; Membrane Glycoproteins / metabolism; Microscopy, Electron; Mutant Proteins / genetics; Mutant Proteins / metabolism; Mutation, Missense; Point Mutation; Sequence Deletion; Sindbis Virus / genetics; Sindbis Virus / physiology; Sindbis Virus / ultrastructure; Suppression, Genetic; Temperature; Viral Envelope Proteins / genetics; Viral Envelope Proteins / metabolism; Viral Load; Virion / ultrastructure; Virus Assembly; Virus Cultivation; Virus Release
TL;DR: It is concluded that H230 is essential for the assembly of complete infectious Sindbis virus virions and that the presence of an amino acid at E2 position 209 is required for complete budding of Sind Bis virus particles although several different amino acids can be at this location without affecting the titer. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2016 review

Solving Biology's Iron Chemistry Problem with Ferritin Protein Nanocages

[Review of ]. ACCOUNTS OF CHEMICAL RESEARCH, 49(5), 784–791.

By: E. Theil n, T. Tosha n & R. Beherat

MeSH headings : Animals; DNA / metabolism; Ferric Compounds / chemistry; Ferritins / chemistry; Ferritins / genetics; Ferritins / metabolism; Heme / metabolism; Humans; Iron / chemistry; Iron / metabolism; Oxidoreductases / chemistry; Oxidoreductases / metabolism; Oxygen / chemistry; Oxygen / metabolism; Protein Structure, Quaternary; RNA, Messenger / metabolism
TL;DR: High ferritin protein cage symmetry (3-fold and 4-fold axes) and amino acid conservation coincide with function, shown by amino acid substitution effects. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Two Novel DNAs That Enhance Symptoms and Overcome CMD2 Resistance to Cassava Mosaic Disease

JOURNAL OF VIROLOGY, 90(8), 4160–4173.

By: J. Ndunguru*, L. De Leon, C. Doyle n, P. Sseruwagi*, G. Plata*, J. Legg*, G. Thompson, J. Tohme* ...

TL;DR: The discovery of two novel DNA sequences, designated SEGs-1 and SEGS-2 (for sequences enhancing geminivirus symptoms), that enhance symptoms and break resistance to CMD have major implications for the long-term durability of CMD2 resistance and underscore the need for alternative sources of resistance in cassava. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2016 journal article

Neutron protein crystallography: A complementary tool for locating hydrogens in proteins

ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS, 602, 48–60.

author keywords: Neutron; Crystallography; Hydrogen; Enzyme; Protonation; Water
TL;DR: Methods to produce isotopically-substituted proteins and to grow large crystals are provided in the context of neutron structures reported in the literature along with technique-specific strategies including joint X-ray/neutron structure refinement. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2016 journal article

Gatekeeper Tyrosine Phosphorylation of SYMRK Is Essential for Synchronizing the Epidermal and Cortical Responses in Root Nodule Symbiosis

PLANT PHYSIOLOGY, 171(1), 71–81.

By: S. Saha*, A. Paul*, L. Herring n, A. Dutta*, A. Bhattacharya*, S. Samaddar*, M. Goshe n, M. DasGupta*

MeSH headings : Amino Acid Sequence; Carrier Proteins / genetics; Carrier Proteins / metabolism; Fabaceae / metabolism; Gene Expression Regulation, Plant; Genes, Plant; Mutagenesis; Mutation; Phenotype; Phosphoamino Acids / analysis; Phosphorylation; Plant Epidermis; Plant Proteins / genetics; Plant Proteins / metabolism; Plant Root Nodulation; Plant Roots / metabolism; Plant Roots / microbiology; Protein Kinases / genetics; Protein Kinases / metabolism; Rhizobium / physiology; Root Nodules, Plant / enzymology; Root Nodules, Plant / genetics; Root Nodules, Plant / metabolism; Symbiosis; Tyrosine / metabolism
TL;DR: It is shown that substituting gatekeeper with nonphosphorylatable residues like Phe or Ala significantly affected autophosphorylation on selected targets on activation segment/αEF and β3-αC loop of SYMRK. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

FEASIBILITY AND SAFETY OF CONTRAST-ENHANCED ULTRASOUND IN THE DISTAL LIMB OF SIX HORSES

VETERINARY RADIOLOGY & ULTRASOUND, 57(3), 282–289.

author keywords: contrast-enhanced; equine intra-arterial; ultrasound
MeSH headings : Animals; Contrast Media / administration & dosage; Contrast Media / adverse effects; Female; Hindlimb / diagnostic imaging; Horses; Injections, Intra-Arterial / veterinary; Injections, Intravenous / veterinary; Male; Muscle, Skeletal / diagnostic imaging; Pilot Projects; Prospective Studies; Ultrasonography / adverse effects; Ultrasonography / veterinary
TL;DR: Findings from this study indicated that CEUS is a feasible and safe diagnostic test for evaluation of the equine distal limb and future studies are needed to assess the clinical utility of this test for horses with musculoskeletal diseases. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Effects of Matrix Metalloproteinases on the Performance of Platelet Fibrin Gel Spiked With Cardiac Stem Cells in Heart Repair

STEM CELLS TRANSLATIONAL MEDICINE, 5(6), 793–803.

author keywords: Cardiac stem cells; Platelet fibrin gel; Matrix metalloproteinases; Heart repair
MeSH headings : Animals; Blood Platelets / metabolism; Dipeptides / administration & dosage; Disease Models, Animal; Echocardiography; Fibrin / administration & dosage; Humans; Matrix Metalloproteinase Inhibitors / administration & dosage; Matrix Metalloproteinases / metabolism; Myocardial Infarction / enzymology; Myocardial Infarction / pathology; Myocardial Infarction / therapy; Myocytes, Cardiac / cytology; Myocytes, Cardiac / drug effects; Myocytes, Cardiac / metabolism; Rats; Regeneration / drug effects; Stem Cell Transplantation
TL;DR: It is suggested that MMPs play a critical role in the therapeutic benefits of platelet fibrin gel spiked with cardiac stem cells for treating MI. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Structure, regulation, and inhibition of the quorum-sensing signal integrator LuxO

PLoS Biology, 14(5).

By: H. Boyaci, T. Shah, A. Hurley, B. Kokona, Z. Li, C. Ventocilla, P. Jeffrey, M. Semmelhack ...

Source: NC State University Libraries
Added: August 6, 2018

2016 journal article

Tissue extraction methods for metabolic profiling of a freshwater bivalve, Elliptio complanata (Lightfoot, 1786)

AMERICAN MALACOLOGICAL BULLETIN, 33(2), 185–194.

author keywords: freshwater bivalve; metabolomics; NMR; nuclear magnetic resonance; Ringer's solution
TL;DR: Ringer's solution is simple to use, safe and consistent and bears consideration when selecting an extraction protocol for 1H nuclear magnetic resonance experiments, particularly in the 3–4.5 ppm sugar/amino acid range. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Navigational ultrasound imaging: A novel imaging tool for aiding interventional therapies of equine musculoskeletal injuries

EQUINE VETERINARY JOURNAL, 48(2), 195–200.

author keywords: horse; navigational ultrasound imaging; fusion imaging; musculoskeletal; MRI
MeSH headings : Animals; Forelimb; Hindlimb; Horse Diseases / diagnosis; Horse Diseases / diagnostic imaging; Horse Diseases / surgery; Horses; Image Interpretation, Computer-Assisted; Magnetic Resonance Imaging / veterinary; Musculoskeletal Diseases / diagnostic imaging; Musculoskeletal Diseases / pathology; Musculoskeletal Diseases / surgery; Musculoskeletal Diseases / veterinary; Tomography, X-Ray Computed / veterinary; Ultrasonography
TL;DR: Navigational ultrasound imaging is a complementary imaging modality that can be used for the treatment of equine soft tissue musculoskeletal injuries diagnosed with MRI and is considered successful based on the authors' criteria. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2016 journal article

A cell wall-bound anionic peroxidase, PtrPO21, is involved in lignin polymerization in Populus trichocarpa

TREE GENETICS & GENOMES, 12(2).

By: C. Lin n, Q. Li*, S. Tunlaya-Anukit*, R. Shi n, Y. Sun*, J. Wang n, J. Liu n, P. Loziuk n ...

author keywords: Lignin polymerization; Populus trichocarpa; Lignin peroxidase; LC-MS/MS; Lignin systems biology
TL;DR: Differentially expressed gene (DEG) analysis of PtrPO21 downregulated transgenics identified a significant overexpression of PtPrx35, suggesting a compensatory effect within the peroxidase family. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Potentiation of Francisella resistance to conventional antibiotics through small molecule adjuvants

MEDCHEMCOMM, 7(1), 128–131.

TL;DR: A screen of 20 compounds identified small molecule adjuvants capable of potentiating anitbiotic activty against Francisella philomiragia and led to the discovery of a potentially new class of small molecule aduvants containg an indole core. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Modulating the permeability of ferritin channels

RSC ADVANCES, 6(25), 21219–21227.

TL;DR: By changing the electrostatic properties of the residues at the inner edge of each channel, this work can selectively activate/deactivate Fe2+ routes, modulating the rate of iron oxidation at the ferroxidase sites. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2016 journal article

Fshb-iCre mice are efficient and specific Cre deleters for the gonadotrope lineage

MOLECULAR AND CELLULAR ENDOCRINOLOGY, 419(C), 124–138.

By: H. Wang, R. Hastings, W. Miller n & T. Kumar*

author keywords: Pituitary; Gonadotrope; Cre; Dicer; Testis; Ovary
MeSH headings : Animals; Cattle; DEAD-box RNA Helicases / genetics; DEAD-box RNA Helicases / metabolism; Female; Fertility; Follicle Stimulating Hormone, beta Subunit / genetics; Gonadotrophs / metabolism; Integrases / metabolism; Male; Mice; Mice, Transgenic; Promoter Regions, Genetic; Ribonuclease III / genetics; Ribonuclease III / metabolism
TL;DR: Fshb-iCre mice serve as a new genetic tool to efficiently manipulate gonadotrope-specific gene expression in vivo and it is shown that loss of DICER-dependent miRNAs in gonadotropes leads to profound suppression of Gonadotropins resulting in male and female infertility. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

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