Biochemistry & Molecular Biology

Research Output 1975 2019

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

Antibody-mediated protective mechanisms induced by a trivalent parainfluenza virus-vectored ebolavirus vaccine

Brian Kimble, J., Malherbe, D. C., Meyer, M., Gunn, B. M., Karim, M. M., Ilinykh, P. A., Iampietro, M., Mohamed, K. S., Negi, S., Gilchuk, P., Huang, K., Wolf, Y. I., Braun, W., Crowe, J. E., Alter, G. & Bukreyev, A., Feb 1 2019, In : Journal of Virology. 93, 4, e0184518.

Research output: Contribution to journalArticle

Ebolavirus
Paramyxoviridae Infections
Vaccines
Zaire Ebola virus
vaccines

Biochemical and Next Generation Sequencing Approaches to Study RNA Regulation

Wagner, E. & Goldstrohm, A. C., Feb 15 2019, In : Methods. 155, p. 1-2 2 p.

Research output: Contribution to journalEditorial

Characterization of Triniti virus supports its reclassification in the family Peribunyaviridae

Lima, J. A., Nunes Neto, J. P., Castro, K. S., Travassos da Rosa, A. P. D. A., Tesh, R., Nunes, M. R. T., Popov, V., Vasilakis, N., Guzman, H., Widen, S., Silva, S. P. D., Medeiros, D. B. D. A., Cardoso, J. F., Martins, L. C., Azevedo, R. D. S. D. S., Vasconcelos, P. F. D. C. & Chiang, J. O., Feb 1 2019, In : The Journal of general virology. 100, 2, p. 137-144 8 p.

Research output: Contribution to journalArticle

Viruses
Orthobunyavirus
Togaviridae
Genome
Trinidad and Tobago

Composition of the survival motor neuron (SMN) complex in drosophila melanogaster

Gregory Matera, A., Raimer, A. C., Schmidt, C. A., Kelly, J. A., Droby, G. N., Baillat, D., Ten Have, S., Lamond, A. I., Wagner, E. & Gray, K. M., Feb 1 2019, In : G3: Genes, Genomes, Genetics. 9, 2, p. 491-503 13 p.

Research output: Contribution to journalArticle

Open Access
SMN Complex Proteins
Motor Neurons
Drosophila melanogaster
Survival
Small Nuclear Ribonucleoproteins
2 Citations (Scopus)

Design, Synthesis, and Characterization of 4-Undecylpiperidine-2-carboxamides as Positive Allosteric Modulators of the Serotonin (5-HT) 5-HT2C Receptor

Wild, C. T., Miszkiel, J. M., Wold, E. A., Soto, C. A., Ding, C., Hartley, R. M., White, M., Anastasio, N., Cunningham, K. & Zhou, J., Oct 1 2019, In : Journal of Medicinal Chemistry. 62, 1, p. 288-305 18 p.

Research output: Contribution to journalArticle

Receptor, Serotonin, 5-HT2C
Serotonin
Cocaine
Serotonin 5-HT2 Receptor Agonists
Allosteric Site

Development of Poly(A)-ClickSeq as a tool enabling simultaneous genome-wide poly(A)-site identification and differential expression analysis

Elrod, N. D., Jaworski, E. A., Ji, P., Wagner, E. & Routh, A., Jan 1 2019, (Accepted/In press) In : Methods.

Research output: Contribution to journalArticle

Poly A
Genes
Genome
RNA
Gene Expression

Didymin by suppressing NF-κB activation prevents VEGF-induced angiogenesis in vitro and in vivo

Shukla, K., Sonowal, H., Saxena, A. & Ramana, K., Jan 1 2019, (Accepted/In press) In : Vascular Pharmacology.

Research output: Contribution to journalArticle

Vascular Endothelial Growth Factor A
Human Umbilical Vein Endothelial Cells
Neoplasms
E-Selectin
Vascular Cell Adhesion Molecule-1

Endotoxin-induced uveitis in rodents

Yadav, U. C. S. & Ramana, K., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 161-168 8 p. (Methods in Molecular Biology; vol. 1960).

Research output: Chapter in Book/Report/Conference proceedingChapter

Uveitis
Endotoxins
Rodentia
Inflammation
Exudates and Transudates
Aldehyde Reductase
Macrophages
Lipopolysaccharides
Hypoxia-Inducible Factor 1
Aldehyde Reductase
Proteasome Endopeptidase Complex
Colonic Neoplasms
Vascular Endothelial Growth Factor A

Error-Prone Replication through UV Lesions by DNA Polymerase θ Protects against Skin Cancers

Yoon, J. H., McArthur, M. J., Park, J., Basu, D., Wakamiya, M., Prakash, L. & Prakash, S., Mar 7 2019, In : Cell. 176, 6, p. 1295-1309.e15

Research output: Contribution to journalArticle

Skin Neoplasms
DNA-Directed DNA Polymerase
Skin
Mutation
Carcinogenesis

Genomic characterisation of Cuiaba and Charleville viruses: arboviruses (family Rhabdoviridae, genus Sripuvirus) infecting reptiles and amphibians

Vasilakis, N., Tesh, R. B., Widen, S., Mirchandani, D. & Walker, P. J., Feb 15 2019, In : Virus Genes. 55, 1, p. 87-94 8 p.

Research output: Contribution to journalArticle

Rhabdoviridae
Arboviruses
Reptiles
Amphibians
Viruses

High-throughput LPS profiling as a tool for revealing of bacteriophage infection strategies

Kulikov, E. E., Golomidova, A. K., Prokhorov, N., Ivanov, P. A. & Letarov, A. V., Dec 1 2019, In : Scientific reports. 9, 1, 2958.

Research output: Contribution to journalArticle

Open Access
Bacteriophages
O Antigens
Infection
Virus Receptors
Mass Screening

How do chemokines navigate neutrophils to the target site: Dissecting the structural mechanisms and signaling pathways

Rajarathnam, K., Schnoor, M., Richardson, R. M. & Rajagopal, S., Feb 1 2019, In : Cellular Signalling. 54, p. 69-80 12 p.

Research output: Contribution to journalReview article

Arrestin
Chemokines
GTP-Binding Proteins
Neutrophils
Interleukin-8B Receptors

Nudt21 regulates the alternative polyadenylation of Pak1 and is predictive in the prognosis of glioblastoma patients

Chu, Y., Elrod, N., Wang, C., Li, L., Chen, T., Routh, A., Xia, Z., Li, W., Wagner, E. & Ji, P., Jan 1 2019, In : Oncogene.

Research output: Contribution to journalArticle

Polyadenylation
Glioblastoma
3' Untranslated Regions
Glioma
Genes

Price of disorder in the lac repressor hinge helix

Seckfort, D. & Pettitt, B., Jan 1 2019, In : Biopolymers. 110, 1, e23239.

Research output: Contribution to journalArticle

Lac Repressors
Hinges
Repressor Proteins
Proteins
Lac Operon

Small molecule nicotinamide N-methyltransferase inhibitor activates senescent muscle stem cells and improves regenerative capacity of aged skeletal muscle

Neelakantan, H., Brightwell, C. R., Graber, T., Maroto, R., Wang, H. Y. L., McHardy, S. F., Papaconstantinou, J., Fry, C. & Watowich, S., Jan 1 2019, In : Biochemical Pharmacology.

Research output: Contribution to journalArticle

Nicotinamide N-Methyltransferase
Stem cells
Muscle Cells
Muscle
Skeletal Muscle

Structure and transformation of bacteriophage A511 baseplate and tail upon infection of Listeria cells

Guerrero-Ferreira, R. C., Hupfeld, M., Nazarov, S., Taylor, N. M. I., Shneider, M. M., Obbineni, J. M., Loessner, M. J., Ishikawa, T., Klumpp, J. & Leiman, P., Jan 1 2019, (Accepted/In press) In : EMBO Journal. e99455.

Research output: Contribution to journalArticle

Bacteriophages
Infection
Pyocins
Electron Microscope Tomography
Cryoelectron Microscopy

Targeting the Achilles Heel of Mosquito-Borne Viruses for Antiviral Therapy

Jackman, J. A., Shi, P-Y. & Cho, N. J., Nov 1 2019, In : ACS Infectious Diseases. 5, 1, p. 4-8 5 p.

Research output: Contribution to journalArticle

Culicidae
Antiviral Agents
Viruses
Virus Diseases
Lipids
2018
9 Citations (Scopus)

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 (Scopus)

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., 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
23 Citations (Scopus)

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 (Scopus)

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
2 Citations (Scopus)

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
1 Citations (Scopus)

A single residue in the αb helix of the e protein is critical for Zika virus thermostability correspondence

Xie, D. Y., Liu, Z. Y., Nian, Q. G., Zhu, L., Wang, N., Deng, Y. Q., Zhao, H., Ji, X., Li, X. F., Wang, X., Shi, P-Y. & Qin, C. F., Dec 1 2018, In : Emerging Microbes and Infections. 7, 1, 0006.

Research output: Contribution to journalLetter

Proteins
Zika Virus

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
3 Citations (Scopus)

A Zika virus vaccine expressing premembrane-envelope-NS1 polyprotein

Li, A., Yu, J., Lu, M., Ma, Y., Attia, Z., Shan, C., Xue, M., Liang, X., Craig, K., Makadiya, N., He, J. J., Jennings, R., Shi, P-Y., Peeples, M. E., Liu, S. L., Boyaka, P. N. & Li, J., Dec 1 2018, In : Nature Communications. 9, 1, 3067.

Research output: Contribution to journalArticle

vaccines
Polyproteins
viruses
Viruses
envelopes

Better Safe than Sorry: A Dual-Function Viral Protein Inhibiting Host Defense

Lechtenberg, B. C. & Routh, A., Oct 10 2018, In : Cell Host and Microbe. 24, 4, p. 467-469 3 p.

Research output: Contribution to journalShort survey

Viral Proteins
Gryllidae
Viruses
Paralysis
Immune System
3 Citations (Scopus)

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 (Scopus)

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 (Scopus)

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
3 Citations (Scopus)

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
3 Citations (Scopus)

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
3 Citations (Scopus)

ClickSeq: Replacing fragmentation and enzymatic ligation with click-chemistry to prevent sequence chimeras

Jaworski, E. & Routh, A., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., Vol. 1712. p. 71-85 15 p. (Methods in Molecular Biology; vol. 1712).

Research output: Chapter in Book/Report/Conference proceedingChapter

Click Chemistry
Biological Phenomena
Viral RNA
Genetic Recombination
Libraries
7 Citations (Scopus)

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

Inflammasomes
Diabetic Nephropathies
Type 2 Diabetes Mellitus
Collagen
Kidney
2 Citations (Scopus)

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

Cross, R., Speranza, E., Borisevich, V., Widen, S., Wood, T., 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
4 Citations (Scopus)

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
13 Citations (Scopus)

Contractile injection systems of bacteriophages and related systems

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

Research output: Contribution to journalArticle

Bacteriophages
Injections
Pyocins
Scleroproteins
Cell Membrane

Correction to: Fungal Secretome Analysis Via PepSAVI-MS: Identification of the Bioactive Peptide KP4 from Ustilago maydis (Journal of The American Society for Mass Spectrometry, (2018), 29, 5, (859-865), 10.1007/s13361-017-1880-z)

Kirkpatrick, C. L., Parsley, N. C., Bartges, T. E., Cooke, M. E., Evans, W. S., Heil, L. R., Smith, T. & Hicks, L. M., Sep 1 2018, In : Journal of the American Society for Mass Spectrometry. 29, 9, 1 p.

Research output: Contribution to journalComment/debate

Ustilago
Financial Support
Mass spectrometry
Mass Spectrometry
Peptides
1 Citations (Scopus)

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 (Scopus)

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
6 Citations (Scopus)

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)
6 Citations (Scopus)

Design and Development of Biomimetic Nanovesicles Using a Microfluidic Approach

Molinaro, R., Evangelopoulos, M., Hoffman, J. R., Corbo, C., Taraballi, F., Martinez, J. O., Hartman, K. A., Cosco, D., Costa, G., Romeo, I., Sherman, M., Paolino, D., Alcaro, S. & Tasciotti, E., Apr 12 2018, In : Advanced Materials. 30, 15, 1702749.

Research output: Contribution to journalArticle

Biomimetics
Microfluidics
Nanoparticles
Macrophages
Drug delivery