Biochemistry & Molecular Biology

Research Output 1975 2019

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2019

A developmentally regulated spliced variant of PTBP1 is upregulated in type 1 diabetic hearts

Belanger, K. A., Nutter, C. A., Li, J., Yu, P. & Martinez, N., Feb 5 2019, In : Biochemical and Biophysical Research Communications. 509, 2, p. 384-389 6 p.

Research output: Contribution to journalArticle

Alternative Splicing
Medical problems
Genes
RNA
RNA-Binding Proteins
2018
7 Citations

3′ UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk

Park, H. J., Ji, P., Kim, S., Xia, Z., Rodriguez, B., Li, L., Su, J., Chen, K., Masamha, C. P., Baillat, D., Fontes-Garfias, C. R., Shyu, A. B., Neilson, J. R., Wagner, E. & Li, W., May 21 2018, (Accepted/In press) In : Nature Genetics. p. 1-7 7 p.

Research output: Contribution to journalArticle

3' Untranslated Regions
Tumor Suppressor Genes
Proto-Oncogenes
MicroRNAs
Neoplasms
1 Citations

Aldose reductase inhibitor, fidarestat prevents doxorubicin-induced endothelial cell death and dysfunction

Sonowal, H., Pal, P., Shukla, K., Saxena, A., Srivastava, S. K. & Ramana, K., Apr 1 2018, In : Biochemical Pharmacology. 150, p. 181-190 10 p.

Research output: Contribution to journalArticle

Aldehyde Reductase
Endothelial cells
Cell death
Doxorubicin
Cell Death

Aldose reductase inhibitor, fidarestat prevents high-fat diet-induced intestinal polyps in APCmin/+ mice

Saxena, A., Tammali, R., Ramana, K. & Srivastava, S., Jan 1 2018, In : Current Cancer Drug Targets. 18, 9, p. 905-911 7 p.

Research output: Contribution to journalArticle

Intestinal Polyps
Aldehyde Reductase
High Fat Diet
Large Intestine
Polyps

Analysis By Deep Sequencing of Discontinued Neurotropic Yellow Fever Vaccine Strains

Beck, A. S., Wood, T. G., Widen, S., Thompson, J. K. & Barrett, A., Dec 1 2018, In : Scientific reports. 8, 1, 13408.

Research output: Contribution to journalArticle

Yellow Fever Vaccine
High-Throughput Nucleotide Sequencing
Vaccines
Viruses
Yellow fever virus

An attenuated replication-competent chikungunya virus with a fluorescently tagged envelope

Jin, J., Sherman, M., Chafets, D., Dinglasan, N., Lu, K., Lee, T. H., Carlson, L. A., Muench, M. O. & Simmons, G., Jul 31 2018, In : PLoS Neglected Tropical Diseases. 12, 7, e0006693.

Research output: Contribution to journalArticle

Chikungunya virus
Alphavirus
Viruses
Arthralgia
Knockout Mice
21 Citations

An evolutionary NS1 mutation enhances Zika virus evasion of host interferon induction

Xia, H., Luo, H., Shan, C., Muruato, A. E., Nunes, B. T. D., Medeiros, D. B. A., Zou, J., Xie, X., Giraldo Giraldo, M., Vasconcelos, P. F. C., Weaver, S., Wang, T., Rajsbaum Gorodezky, R. & Shi, P-Y., Dec 1 2018, In : Nature Communications. 9, 1, 414.

Research output: Contribution to journalArticle

interferon
viruses
mutations
Viruses
Interferons

Arthropod EVs mediate dengue virus transmission through interaction with a tetraspanin domain containing glycoprotein Tsp29Fb

Vora, A., Zhou, W., Londono-Renteria, B., Woodson, M., Sherman, M., Colpitts, T. M., Neelakanta, G. & Sultana, H., Jul 10 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 28, p. E6604-E6613

Research output: Contribution to journalArticle

Dengue Virus
Arthropods
Glycoproteins
Culicidae
Viral RNA
1 Citations

A Single-Dose Live-Attenuated Zika Virus Vaccine with Controlled Infection Rounds that Protects against Vertical Transmission

Xie, X., Kum, D. B., Xia, H., Luo, H., Shan, C., Zou, J., Muruato, A. E., Medeiros, D. B. A., Nunes, B. T. D., Dallmeier, K., Rossi, S., Weaver, S., Neyts, J., Wang, T., Vasconcelos, P. F. C. & Shi, P-Y., Oct 10 2018, In : Cell Host and Microbe. 24, 4, p. 487-499.e5

Research output: Contribution to journalArticle

Vaccines
Infection
Attenuated Vaccines
Viremia
Capsid Proteins
1 Citations

A single-dose plasmid-launched live-attenuated Zika vaccine induces protective immunity

Zou, J., Xie, X., Luo, H., Shan, C., Muruato, A. E., Weaver, S., Wang, T. & Shi, P-Y., Jan 1 2018, (Accepted/In press) In : EBioMedicine.

Research output: Contribution to journalArticle

Attenuated Vaccines
Immunity
Plasmids
DNA
Vaccines

Attenuation of murine allergic airway inflammation with a CXCR1/CXCR2 chemokine receptor inhibitor

Hosoki, K., Rajarathnam, K. & Sur, S., Jan 1 2018, (Accepted/In press) In : Clinical and Experimental Allergy.

Research output: Contribution to journalArticle

Interleukin-8B Receptors
Chemokine Receptors
Inflammation
1 Citations

Biochemistry and Molecular Biology of Flaviviruses

Barrows, N. J., Campos, R. K., Liao, K. C., Prasanth, K. R., Soto-Acosta, R., Yeh, S. C., Schott-Lerner, G., Pompon, J., Sessions, O. M., Bradrick, S. & Garcia-Blanco, M., Apr 25 2018, In : Chemical Reviews. 118, 8, p. 4448-4482 35 p.

Research output: Contribution to journalArticle

Biochemistry
Molecular biology
Pathogens
Viruses
Antiviral Agents
1 Citations

CELF1 contributes to aberrant alternative splicing patterns in the type 1 diabetic heart

Belanger, K. A., Nutter, C. A., Li, J., Tasnim, S., Liu, P., Yu, P. & Martinez, N., Sep 18 2018, In : Biochemical and Biophysical Research Communications. 503, 4, p. 3205-3211 7 p.

Research output: Contribution to journalArticle

Alternative Splicing
Medical problems
RNA-Binding Proteins
Genes
Binding Sites

Cellular production of a counterfeit viral protein confers immunity to infection by a related virus

Warner, B. E., Ballinger, M. J., Yerramsetty, P., Reed, J., Taylor, D. J., Smith, T. & Bruenn, J. A., Jan 1 2018, In : PeerJ. 2018, 9, e5679.

Research output: Contribution to journalArticle

viral proteins
Viral Proteins
Viruses
Immunity
immunity
1 Citations

Characterization of a candidate tetravalent vaccine based on 2’-O-methyltransferase mutants

Züst, R., Li, S. H., Xie, X., Velumani, S., Chng, M., Toh, Y. X., Zou, J., Dong, H., Shan, C., Pang, J., Qin, C. F., Newell, E. W., Shi, P-Y. & Fink, K., Jan 1 2018, In : PLoS One. 13, 1, e0189262.

Research output: Contribution to journalArticle

Dengue virus
Dengue Virus
methyltransferases
Methyltransferases
Viruses
2 Citations

Characterization of three new insect-specific flaviviruses: Their relationship to the mosquito-borne flavivirus pathogens

Guzman, H., Contreras-Gutierrez, M. A., Travassos da Rosa, A. P. A., Nunes, M. R. T., Cardoso, J. F., Popov, V., Young, K. I., Savit, C., Wood, T., Widen, S., Watts, D. M., Hanley, K. A., Perera, D., Fish, D., Vasilakis, N. & Tesh, R. B., Jan 1 2018, In : American Journal of Tropical Medicine and Hygiene. 98, 2, p. 410-419 10 p.

Research output: Contribution to journalArticle

Flavivirus
Culicidae
Insects
Malaysia
Insect Viruses
1 Citations

Chikungunya virus strains show lineage-specific variations in virulence and cross-protective ability in murine and nonhuman primate models

Langsjoen, R., Haller, S. L., Roy, C. J., Vinet-Oliphant, H., Bergren, N. A., Erasmus, J. H., Livengood, J. A., Powell, T. D., Weaver, S. & Rossi, S., Mar 1 2018, In : mBio. 9, 2, e02449-17.

Research output: Contribution to journalArticle

Chikungunya virus
Aptitude
Primates
Virulence
Vaccines

Circulating miRNA Expression Profiling and Target Prediction in Patients Receiving Dexmedetomidine

Yang, X., Chen, H., Chen, Y., Birnbaum, Y., Liang, R., Ye, Y. & Qian, J., Jan 1 2018, (Accepted/In press) In : Cellular Physiology and Biochemistry. p. 552-568 17 p.

Research output: Contribution to journalArticle

Dexmedetomidine
MicroRNAs
Genes
Encyclopedias
Cerebrovascular Disorders
5 Citations

Combined SGLT2 and DPP4 Inhibition Reduces the Activation of the Nlrp3/ASC Inflammasome and Attenuates the Development of Diabetic Nephropathy in Mice with Type 2 Diabetes

Birnbaum, Y., Bajaj, M., Yang, H. C. & Ye, Y., Mar 5 2018, (Accepted/In press) In : Cardiovascular Drugs and Therapy. p. 1-11 11 p.

Research output: Contribution to journalArticle

Sodium-Glucose Transport Proteins
Inflammasomes
Diabetic Nephropathies
Type 2 Diabetes Mellitus
Collagen
2 Citations

Comparative Transcriptomics in Ebola Makona-Infected Ferrets, Nonhuman Primates, and Humans

Cross, R., Speranza, E., Borisevich, V., Widen, S., Wood, T. G., Shim, R. S., Adams, R. D., Gerhardt, D. M., Bennett, R. S., Honko, A. N., Johnson, J. C., Hensley, L. E., Geisbert, T. & Connor, J. H., Nov 22 2018, In : The Journal of infectious diseases. 218, 5, p. S486-S495

Research output: Contribution to journalArticle

Ferrets
Primates
Ebolavirus
Ebola Hemorrhagic Fever
Democratic Republic of the Congo

Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures

Clouaire, T., Rocher, V., Lashgari, A., Arnould, C., Aguirrebengoa, M., Biernacka, A., Skrzypczak, M., Aymard, F., Fongang, B., Dojer, N., Iacovoni, J. S., Rowicka-Kudlicka, M., Ginalski, K., Côté, J. & Legube, G., Oct 18 2018, In : Molecular cell. 72, 2, p. 250-262 13 p.

Research output: Contribution to journalArticle

Histone Code
Double-Stranded DNA Breaks
Chromatin
Homologous Recombination
Histones
11 Citations

Contractile injection systems of bacteriophages and related systems

Taylor, N. M. I., van Raaij, M. J. & Leiman, P. G., Jan 1 2018, (Accepted/In press) In : Molecular Microbiology.

Research output: Contribution to journalArticle

Bacteriophages
Injections
Pyocins
Scleroproteins
Cell Membrane
1 Citations

D2ome, Software for in Vivo Protein Turnover Analysis Using Heavy Water Labeling and LC-MS, Reveals Alterations of Hepatic Proteome Dynamics in a Mouse Model of NAFLD

Sadygov, R., Avva, J., Rahman, M., Lee, K., Ilchenko, S., Kasumov, T. & Borzou, A., Nov 2 2018, In : Journal of Proteome Research. 17, 11, p. 3740-3748 9 p.

Research output: Contribution to journalArticle

Deuterium Oxide
Proteome
Labeling
Software
Liver
1 Citations

Dapagliflozin Attenuates Na+/H+ Exchanger-1 in Cardiofibroblasts via AMPK Activation

Ye, Y., Jia, X., Bajaj, M. & Birnbaum, Y., Jan 1 2018, (Accepted/In press) In : Cardiovascular Drugs and Therapy.

Research output: Contribution to journalArticle

Adenosine Kinase
Sodium-Hydrogen Antiporter
Adenosine Monophosphate
HSP70 Heat-Shock Proteins
A 769662
4 Citations

Dengue virus selectively annexes endoplasmic reticulum-associated translation machinery as a strategy for co-opting host cell protein synthesis

Reid, D. W., Campos, R. K., Child, J. R., Zheng, T., Chan, K. W. K., Bradrick, S., Vasudevan, S. G., Garcia-Blanco, M. & Nicchitta, C. V., Apr 1 2018, In : Journal of Virology. 92, 7, e01766-17.

Research output: Contribution to journalArticle

Dengue virus
Dengue Virus
Endoplasmic Reticulum
endoplasmic reticulum
translation (genetics)
15 Citations

Development of a chimeric Zika vaccine using a licensed live-attenuated flavivirus vaccine as backbone

Li, X. F., Dong, H. L., Wang, H. J., Huang, X. Y., Qiu, Y. F., Ji, X., Ye, Q., Li, C., Liu, Y., Deng, Y. Q., Jiang, T., Cheng, G., Zhang, F. C., Davidson, A. D., Song, Y. J., Shi, P-Y. & Qin, C. F., Dec 1 2018, In : Nature Communications. 9, 1, 673.

Research output: Contribution to journalArticle

vaccines
Flavivirus
Attenuated Vaccines
viruses
Viruses
1 Citations

Didymin prevents hyperglycemia-induced human umbilical endothelial cells dysfunction and death

Shukla, K., Sonowal, H., Saxena, A. & Ramana, K., Jun 1 2018, In : Biochemical Pharmacology. 152, p. 1-10 10 p.

Research output: Contribution to journalArticle

Umbilicus
Endothelial cells
Hyperglycemia
Cell Death
Endothelial Cells
2 Citations

Did Zika Virus Mutate to Cause Severe Outbreaks?

Rossi, S., Ebel, G. D., Shan, C., Shi, P-Y. & Vasilakis, N., Jan 1 2018, (Accepted/In press) In : Trends in Microbiology.

Research output: Contribution to journalArticle

Disease Outbreaks
Venezuelan Equine Encephalitis Viruses
Chikungunya virus
Arboviruses
Flavivirus
2 Citations

Direct detection of lysine side chain NH3 + in protein-heparin complexes using NMR spectroscopy

Sepuru, K. M., Iwahara, J. & Rajarathnam, K., Feb 7 2018, In : Analyst. 143, 3, p. 635-638 4 p.

Research output: Contribution to journalArticle

Chemical shift
Nuclear magnetic resonance spectroscopy
Lysine
nuclear magnetic resonance
Heparin
Chemokine CXCL1
Macromolecular Substances
Interleukin-8
Histidine
Nuclear magnetic resonance
1 Citations

Distinguishing allergens from non-allergenic homologues using Physical–Chemical Property (PCP) motifs

Lu, W., Negi, S. S., Schein, C. H., Maleki, S. J., Hurlburt, B. K. & Braun, W., Jul 1 2018, In : Molecular Immunology. 99, p. 1-8 8 p.

Research output: Contribution to journalArticle

Allergens
Profilins
Proteins
Pollen
Immunoglobulin E
1 Citations

Dynamics-Derived Insights into Complex Formation between the CXCL8 Monomer and CXCR1 N-Terminal Domain: An NMR Study

Joseph, P. R. B., Spyracopoulos, L. & Rajarathnam, K., Oct 31 2018, In : Molecules (Basel, Switzerland). 23, 11

Research output: Contribution to journalArticle

Interleukin-8A Receptors
Calorimetry
G-Protein-Coupled Receptors
Interleukin-8
Chemokines
1 Citations

Ehrlichia chaffeensis TRP120 nucleomodulin binds DNA with disordered tandem repeat domain

Klema, V. J., Sepuru, K. M., Füllbrunn, N., Farris, T. R., Dunphy, P. S., McBride, J., Rajarathnam, K. & Choi, K., Apr 1 2018, In : PLoS One. 13, 4, e0194891.

Research output: Contribution to journalArticle

Ehrlichia chaffeensis
Tandem Repeat Sequences
tandem repeat sequences
DNA
Proteins

Erratum to: Targeting vesicle size (Nature Materials, (2018), 17, 11, (955-956), 10.1038/s41563-018-0200-8)

Fei, Z. & Shi, P-Y., Jan 1 2018, (Accepted/In press) In : Nature Materials.

Research output: Contribution to journalArticle

news

Escherichia coli bacteriophage Gostya9, representing a new species within the genus T5virus

Golomidova, A. K., Kulikov, E. E., Babenko, V. V., Ivanov, P. A., Prokhorov, N. & Letarov, A. V., Jan 1 2018, (Accepted/In press) In : Archives of Virology.

Research output: Contribution to journalArticle

Bacteriophages
Escherichia coli
Virus Receptors
Protein Engineering
Escherichia coli Infections
6 Citations

Exosomes serve as novel modes of tick-borne flavivirus transmission from arthropod to human cells and facilitates dissemination of viral RNA and proteins to the vertebrate neuronal cells

Zhou, W., Woodson, M., Neupane, B., Bai, F., Sherman, M., Choi, K., Neelakanta, G. & Sultana, H., Jan 1 2018, In : PLoS Pathogens. 14, 1, e1006764.

Research output: Contribution to journalArticle

Exosomes
Flavivirus
Arthropods
Viral RNA
Viral Proteins

Explorative study on isolation and characterization of a microviridae G4 bacteriophage, EMCL318, against multi-drug-resistant Escherichia coli 15-318

Ghosh, S., Persad, E., Shiue, T. Y., Lam, C., Islam, A., Mascibroda, L. G., Sherman, M., Smith, T. & Cheeptham, N., Dec 1 2018, In : Antibiotics. 7, 4, 92.

Research output: Contribution to journalArticle

Microviridae
Microvirus
Bacteriophages
Escherichia coli
Pharmaceutical Preparations

Expression Profiling of Circular RNAs and Micrornas in Heart Tissue of Mice with Alcoholic Cardiomyopathy

Yang, Y., Chen, H., Ding, N., Wang, S., Duan, Z., Birnbaum, Y., Ye, Y. & Qian, J., May 1 2018, In : Cellular Physiology and Biochemistry. 46, 6, p. 2284-2296 13 p.

Research output: Contribution to journalArticle

Alcoholic Cardiomyopathy
MicroRNAs
Untranslated RNA
Computational Biology
Alcohol Drinking
2 Citations

Functional Modulation of Voltage-Gated Sodium Channels by a FGF14-Based Peptidomimetic

Ali, S. R., Liu, Z., Nenov, M. N., Folorunso, O., Singh, A., Scala, F., Chen, H., James, T. F., Alshammari, M., Panova-Elektronova, N. I., White, M., Zhou, J. & Laezza, F., May 16 2018, In : ACS Chemical Neuroscience. 9, 5, p. 976-987 12 p.

Research output: Contribution to journalArticle

Voltage-Gated Sodium Channels
Peptidomimetics
Modulation
Proteins
Nucleus Accumbens
2 Citations

Fungal Secretome Analysis via PepSAVI-MS: Identification of the Bioactive Peptide KP4 from Ustilago maydis

Kirkpatrick, C. L., Parsley, N. C., Bartges, T. E., Cooke, M. E., Evans, W. S., Heil, L. R., Smith, T. & Hicks, L. M., May 1 2018, In : Journal of the American Society for Mass Spectrometry. 29, 5, p. 859-865 7 p.

Research output: Contribution to journalArticle

Ustilago
Fungal Genome
Food safety
Peptides
Fungal Proteins

Genetic characterization of the patois serogroup (Genus Orthobunyavirus; Family Peribunyaviridae) and evidence that estero real virus is a member of the genus orthonairovirus

Aguilar, P., De Souza, W. M., Silvas, J. A., Wood, T., Widen, S., Fumagalli, M. J. & Nunes, M. R. T., Jan 1 2018, In : American Journal of Tropical Medicine and Hygiene. 99, 2, p. 451-457 7 p.

Research output: Contribution to journalArticle

Orthobunyavirus
Viruses
Ticks
Serogroup
Ornithodoros

Genetic control of predominantly error-free replication through an acrolein-derived minor-groove DNA adduct

Yoon, J. H., Hodge, R. P., Hackfeld, L. C., Park, J., Choudhury, J. R., Prakash, S. & Prakash, L., Jan 1 2018, In : Journal of Biological Chemistry. 293, 8, p. 2949-2958 10 p.

Research output: Contribution to journalArticle

Acrolein
DNA Adducts
Nucleotides
Environmental Pollutants
Polyamines

Genome sequence of chiqui virus, a novel reovirus isolated from mosquitoes collected in Colombia

Contreras-Gutiérrez, M. A., Guzman, H., Cardoso, J. F., Popov, V., Nunes, M. R. T., Uribe, S., Widen, S., Wood, T. G., Vasilakis, N. & Tesh, R. B., Sep 27 2018, In : Microbiology Resource Announcements. 7, 12, e00881-18.

Research output: Contribution to journalArticle

Colombia
Culicidae
Genome
Viruses
Reoviridae
5 Citations

GLP-1 Receptor Agonists and Cardiovascular Disease: a Meta-Analysis of Recent Cardiac Outcome Trials

Jia, X., Alam, M., Ye, Y., Bajaj, M. & Birnbaum, Y., Feb 14 2018, (Accepted/In press) In : Cardiovascular Drugs and Therapy. p. 1-8 8 p.

Research output: Contribution to journalArticle

Meta-Analysis
Cardiovascular Diseases
Mortality
Hypoglycemic Agents
Weight Loss
Glutamate Dehydrogenase
Hyperinsulinism
Guanosine Triphosphate
NAD
Free energy

Hepatic mitochondrial defects in a nonalcoholic fatty liver disease mouse model are associated with increased degradation of oxidative phosphorylation subunits

Lee, K., Haddad, A., Osme, A., Kim, C., Borzou, A., Ilchenko, S., Allende, D., Dasarathy, S., McCullough, A., Sadygov, R. & Kasumov, T., Dec 1 2018, In : Molecular and Cellular Proteomics. 17, 12, p. 2371-2386 16 p.

Research output: Contribution to journalArticle

Oxidative Phosphorylation
Liver
Degradation
Defects
Nutrition
4 Citations

Human IFIT3 Modulates IFIT1 RNA Binding Specificity and Protein Stability

Johnson, B., VanBlargan, L. A., Xu, W., White, J. P., Shan, C., Shi, P-Y., Zhang, R., Adhikari, J., Gross, M. L., Leung, D. W., Diamond, M. S. & Amarasinghe, G. K., Mar 20 2018, In : Immunity. 48, 3, p. 487-499.e5

Research output: Contribution to journalArticle

RNA-Binding Proteins
Protein Stability
RNA Caps
RNA
Virus Diseases
1 Citations

Identification and characterization of host proteins bound to dengue virus 3' UTR reveal an antiviral role for quaking proteins

Liao, K. C., Chuo, V., Ng, W. C., Neo, S. P., Pompon, J., Gunaratne, J., Ooi, E. E. & Garcia-Blanco, M., Jun 1 2018, In : RNA. 24, 6, p. 803-814 12 p.

Research output: Contribution to journalArticle

Dengue Virus
3' Untranslated Regions
Antiviral Agents
RNA-Binding Proteins
Response Elements
1 Citations
Arginine
Proteins
Modulation
Quenching
Nuclear magnetic resonance
1 Citations

Integrator subunit 4 is a ‘Symplekin-like’ scaffold that associates with INTS9/11 to form the Integrator cleavage module

Albrecht, T. R., Shevtsov, S. P., Wu, Y., Mascibroda, L. G., Peart, N. J., Huang, K-L., Sawyer, I. A., Tong, L., Dundr, M. & Wagner, E., Jan 1 2018, In : Nucleic acids research. 46, 8, p. 4241-4255 15 p.

Research output: Contribution to journalArticle

Cleavage And Polyadenylation Specificity Factor
Terminal Repeat Sequences
RNA Polymerase II
Histones
Catalytic Domain