Research Output 1870 2019

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2019

A broader view on jamming: from spring networks to circle packings

F. Hagh, V., Corwin, E. I., Stephenson, K. & Thorpe, M., Jan 1 2019, In : Soft Matter. 15, 15, p. 3076-3084 9 p.

Research output: Contribution to journalArticle

jamming
Jamming
Elastic moduli
Triangulation
bulk modulus

A dopamine-responsive signal transduction controls transcription of salmonella enterica serovar typhimurium virulence genes

Yang, D., Kong, Y., Sun, W., Kong, W. & Shi, Y., Mar 1 2019, In : mBio. 10, 2, e02772-18.

Research output: Contribution to journalArticle

Open Access
Salmonella enterica
Virulence
Signal Transduction
Dopamine
Salmonella

A family of small intrinsically disordered proteins involved in flagellum-dependent motility in salmonella enterica

Oguri, T., Kwon, Y., Woo, J. K. K., Prehna, G., Lee, H., Ning, M., Won, K. J., Lee, J., Mei, S., Shi, Y., Jeong, H. & Lee, H., Jan 1 2019, In : Journal of Bacteriology. 201, 2, e00415-18.

Research output: Contribution to journalArticle

Intrinsically Disordered Proteins
Salmonella enterica
Flagella
Proteins
Operon

Alcohol and nicotine consumption trends in three U.S. communities determined by wastewater-based epidemiology

Chen, J., Venkatesan, A. K. & Halden, R., Mar 15 2019, In : Science of the Total Environment. 656, p. 174-183 10 p.

Research output: Contribution to journalArticle

Nicotine
Epidemiology
epidemiology
alcohol
Wastewater

Anaerobic biodegradation of catechol by sediment microorganisms: Interactive roles of N reduction and S cycling

Zheng, X., Zhou, C., Liu, Z., Long, M., Luo, Y. H., Chen, T., Ontiveros-Valencia, A. & Rittmann, B., Sep 1 2019, In : Journal of Cleaner Production. 230, p. 80-89 10 p.

Research output: Contribution to journalArticle

Biodegradation
Microorganisms
biodegradation
Sediments
microorganism
2 Citations (Scopus)

A nationwide survey of 31 organophosphate esters in sewage sludge from the United States

Wang, Y., Kannan, P., Halden, R. & Kannan, K., Mar 10 2019, In : Science of the Total Environment. 655, p. 446-453 8 p.

Research output: Contribution to journalArticle

Organophosphates
organophosphate
Sewage sludge
ester
Esters
1 Citation (Scopus)

A nationwide survey of the occurrence of melamine and its derivatives in archived sewage sludge from the United States

Zhu, H., Halden, R. & Kannan, K., Feb 1 2019, In : Environmental Pollution. 245, p. 994-999 6 p.

Research output: Contribution to journalArticle

Melamine
Sewage sludge
Sewage
Derivatives
Soil

A noninvasive blood-based combinatorial proteomic biomarker assay to detect breast cancer in women over age 50 with BI-RADS 3, 4, or 5 Assessment

Henderson, M. C., Silver, M., Tran, Q., Letsios, E. E., Mulpuri, R., Reese, D. E., Lourenco, A. P., LaBaer, J., Anderson, K., Alpers, J., Costantini, C., Rohatgi, N., Ali, H., Baker, K., Northfelt, D. W., Ghosh, K., Grobmyer, S. R., Polen, W. & Wolf, J. K., Jan 1 2019, In : Clinical Cancer Research. 25, 1, p. 142-149 8 p.

Research output: Contribution to journalArticle

Proteomics
Breast
Biomarkers
Breast Neoplasms
Biopsy
6 Citations (Scopus)

A novel photocatalytic optical hollow-fiber with high photocatalytic activity for enhancement of 4-chlorophenol degradation

Zhong, N., Chen, M., Luo, Y., Wang, Z., Xin, X. & Rittmann, B., Jan 1 2019, In : Chemical Engineering Journal. 355, p. 731-739 9 p.

Research output: Contribution to journalArticle

chlorophenol
Optical fibers
Degradation
degradation
coating
4 Citations (Scopus)

Autonomously designed free-form 2D DNA origami

Jun, H., Zhang, F., Shepherd, T., Ratanalert, S., Qi, X., Yan, H. & Bathe, M., Jan 1 2019, In : Science Advances. 5, 1, eaav0655.

Research output: Contribution to journalArticle

Open Access
DNA
Nanotechnology

Autonomous screening of groundwater remediation technologies in the subsurface using the In Situ Microcosm Array (ISMA)

Kalinowski, T., McClellan, K., Bruton, T. A., Krajmalnik-Brown, R., Driver, E. M. & Halden, R., Apr 5 2019, In : Journal of Hazardous Materials. 367, p. 668-675 8 p.

Research output: Contribution to journalArticle

Groundwater
Remediation
Aquifers
microcosm
Screening
Synechocystis
Biofilms
biofilm
nutrient content
Food

Bimodal Hearing or Bilateral Cochlear Implants? Ask the Patient

Gifford, R. H. & Dorman, M., May 1 2019, In : Ear and hearing. 40, 3, p. 501-516 16 p.

Research output: Contribution to journalArticle

Cochlear Implants
Hearing
Ear

Bioavailable electron donors leached from leaves accelerate biodegradation of pyridine and quinoline

Lu, Q., Zhang, C., Wang, W., Yuan, B., Zhang, Y. & Rittmann, B., Mar 1 2019, In : Science of the Total Environment. 654, p. 473-479 7 p.

Research output: Contribution to journalArticle

Biodegradation
Pyridine
leachate
biodegradation
electron
1 Citation (Scopus)

Building and breaking the cell wall in four acts: A kinesthetic and tactile role-playing exercise for teaching beta-lactam antibiotic mechanism of action and resistance

Popovich, J., Stephens, M., Celaya, H., Suwarno, S., Barclay, S., Yee, E., Dean, D. A., Farris, M. & Haydel, S., Jan 1 2019, In : Journal of Microbiology and Biology Education. 19, 1, 1462.

Research output: Contribution to journalArticle

Open Access
Role Playing
beta-lactam antibiotics
Touch
beta-Lactams
Cell Wall

Cities of the Southwest are testbeds for urban resilience

Hondula, D., Sabo, J., Quay, R., Chester, M., Georgescu, M., Grimm, N., Harlan, S., Middel, A., Porter, S., Redman, C., Rittmann, B., Ruddell, B. L. & White, D., Mar 1 2019, In : Frontiers in Ecology and the Environment. 17, 2, p. 79-80 2 p.

Research output: Contribution to journalArticle

city

Cochlear implantation for single-sided deafness in children and adolescents

Zeitler, D. M., Sladen, D. P., DeJong, M. D., Torres, J. H., Dorman, M. & Carlson, M. L., Mar 1 2019, In : International Journal of Pediatric Otorhinolaryngology. 118, p. 128-133 6 p.

Research output: Contribution to journalArticle

Cochlear Implantation
Deafness
Noise
Tinnitus
Pediatrics

Development and application of a high-content virion display human GPCR array

Syu, G. D., Wang, S. C., Ma, G., Liu, S., Pearce, D., Prakash, A., Henson, B., Weng, L. C., Ghosh, D., Ramos, P., Eichinger, D., Pino, I., Dong, X., Xiao, J., Wang, S., Tao, N., Kim, K. S., Desai, P. J. & Zhu, H., Dec 1 2019, In : Nature communications. 10, 1, 1997.

Research output: Contribution to journalArticle

Open Access
G-Protein-Coupled Receptors
Virion
proteins
Ligands
ligands

Effects of light intensity on soluble microbial products produced by Synechocystis sp. PCC 6803 and associated heterotrophic communities

Cahill, B., Straka, L., Maldonado Ortiz, J., Krajmalnik-Brown, R. & Rittmann, B., Mar 1 2019, In : Algal Research. 38, 101409.

Research output: Contribution to journalArticle

Synechocystis sp. PCC 6803
Synechocystis
microbial communities
light intensity
algae

Effects of vibrotactile feedback and grasp interface compliance on perception and control of a sensorized myoelectric hand

Pena, A. E., Rincon-Gonzalez, L., Abbas, J. & Jung, R., Jan 1 2019, In : PLoS One. 14, 1, e0210956.

Research output: Contribution to journalArticle

Hand Strength
compliance
Compliance
hands
Hand

Efficient Long-Range, Directional Energy Transfer through DNA-Templated Dye Aggregates

Zhou, X., Mandal, S., Jiang, S., Lin, S., Yang, J., Liu, Y., Whitten, D. G., Woodbury, N. W. & Yan, H., Jan 1 2019, In : Journal of the American Chemical Society.

Research output: Contribution to journalArticle

Energy Transfer
Energy transfer
Coloring Agents
Dyes
Fluorescence

Electron-acceptor loadings affect chloroform dechlorination in a hydrogen-based membrane biofilm reactor

Lai, Y. J. S., Ontiveros-Valencia, A., Coskun, T., Zhou, C. & Rittmann, B., Jan 1 2019, In : Biotechnology and Bioengineering.

Research output: Contribution to journalArticle

Dechlorination
Biofilms
Chloroform
Chlorine compounds
Hydrogen

Energy recovery in the form of N 2 O by denitrifying bacteria

Yu, C., Qiao, S., Yang, Y., Jin, R., Zhou, J. & Rittmann, B., Sep 1 2019, In : Chemical Engineering Journal. 371, p. 500-506 7 p.

Research output: Contribution to journalArticle

Ethylenediaminetetraacetic acid
nitrous oxide
EDTA
Bacteria
Cytochromes c

Evaluation of the performance of classification algorithms for XFEL single-particle imaging data

Shi, Y., Yin, K., Tai, X., DeMirci, H., Hosseinizadeh, A., Hogue, B., Li, H., Ourmazd, A., Schwander, P., Vartanyants, I. A., Yoon, C. H., Aquila, A. & Liu, H., Jan 1 2019, In : IUCrJ. 6, p. 331-340 10 p.

Research output: Contribution to journalArticle

Open Access
X ray lasers
Free electron lasers
free electron lasers
Lasers
X-Rays
Denitrification
Nitrates
calcium acetate
denitrification
Carbonates

Gate controlling of quantum interference and direct observation of anti-resonances in single molecule charge transport

Li, Y., Buerkle, M., Li, G., Rostamian, A., Wang, H., Wang, Z., Bowler, D. R., Miyazaki, T., Xiang, L., Asai, Y., Zhou, G. & Tao, N., Jan 1 2019, In : Nature materials.

Research output: Contribution to journalArticle

Fermi level
Charge transfer
Molecular orbitals
interference
Molecules

High-Throughput Profiling of Circulating Antibody Signatures for Stroke Diagnosis Using Small Volumes of Whole Blood

O’Connell, G. C., Stafford, P., Walsh, K. B., Adeoye, O. & Barr, T. L., Jan 1 2019, In : Neurotherapeutics.

Research output: Contribution to journalArticle

Blood Volume
Stroke
Antibodies
Triage
Sensitivity and Specificity

Light-controlled configurable colorimetric sensing array

Yu, J., Qin, X., Wang, D., Lin, C., Xian, X. & Tao, N., Jan 1 2019, In : Analytical chemistry.

Research output: Contribution to journalArticle

Gases
Colorimetry
Smartphones
Sensor arrays
Light sources

Long-term benefit of Microbiota Transfer Therapy on autism symptoms and gut microbiota

Kang, D. W., Adams, J., Coleman, D. M., Pollard, E. L., Maldonado, J., McDonough-Means, S., Caporaso, J. G. & Krajmalnik-Brown, R., Dec 1 2019, In : Scientific reports. 9, 1, 5821.

Research output: Contribution to journalArticle

Open Access
Microbiota
Autistic Disorder
Therapeutics
Prevotella
Behavioral Symptoms

Maternal choline supplementation ameliorates Alzheimer’s disease pathology by reducing brain homocysteine levels across multiple generations

Velazquez, R., Ferreira, E., Winslow, W., Dave, N., Piras, I. S., Naymik, M., Huentelman, M. J., Tran, A., Caccamo, A. & Oddo, S., Jan 1 2019, (Accepted/In press) In : Molecular Psychiatry.

Research output: Contribution to journalArticle

Homocysteine
Choline
Alzheimer Disease
Mothers
Pathology

Methane oxidation coupled to perchlorate reduction in a membrane biofilm batch reactor

Lv, P. L., Shi, L. D., Wang, Z., Rittmann, B. & Zhao, H. P., Jun 1 2019, In : Science of the Total Environment. 667, p. 9-15 7 p.

Research output: Contribution to journalArticle

perchlorate
Methane
Batch reactors
Biofilms
biofilm
4 Citations (Scopus)

Minimum information about an uncultivated virus genome (MIUVIG)

Roux, S., Adriaenssens, E. M., Dutilh, B. E., Koonin, E. V., Kropinski, A. M., Krupovic, M., Kuhn, J. H., Lavigne, R., Brister, J. R., Varsani, A., Amid, C., Aziz, R. K., Bordenstein, S. R., Bork, P., Breitbart, M., Cochrane, G. R., Daly, R. A., Desnues, C., Duhaime, M. B., Emerson, J. B. & 41 othersEnault, F., Fuhrman, J. A., Hingamp, P., Hugenholtz, P., Hurwitz, B. L., Ivanova, N. N., Labonté, J. M., Lee, K. B., Malmstrom, R. R., Martinez-Garcia, M., Mizrachi, I. K., Ogata, H., Páez-Espino, D., Petit, M. A., Putonti, C., Rattei, T., Reyes, A., Rodriguez-Valera, F., Rosario, K., Schriml, L., Schulz, F., Steward, G. F., Sullivan, M. B., Sunagawa, S., Suttle, C. A., Temperton, B., Tringe, S. G., Thurber, R. V., Webster, N. S., Whiteson, K. L., Wilhelm, S. W., Wommack, K. E., Woyke, T., Wrighton, K. C., Yilmaz, P., Yoshida, T., Young, M. J., Yutin, N., Allen, L. Z., Kyrpides, N. C. & Eloe-Fadrosh, E. A., Jan 1 2019, In : Nature biotechnology. 37, 1, p. 29-37 9 p.

Research output: Contribution to journalArticle

Open Access
Viruses
Genes
Genome
Metagenome
Archaea
2 Citations (Scopus)

Nationwide reconnaissance of five parabens, triclosan, triclocarban and its transformation products in sewage sludge from China

Chen, J., Meng, X. Z., Bergman, A. & Halden, R., Mar 5 2019, In : Journal of Hazardous Materials. 365, p. 502-510 9 p.

Research output: Contribution to journalArticle

Parabens
Triclosan
Sewage sludge
Sewage
China

Neutralizing the polarization effect of diamond diode detectors using periodic forward bias pulses

Holmes, J. M., Dutta, M., Koeck, F. A., Benipal, M. K., Hathwar, R., Brown, J., Fox, B., Johnson, H., Zaniewski, A., Alarcon, R., Chowdhury, S., Goodnick, S. & Nemanich, R., Apr 1 2019, In : Diamond and Related Materials. 94, p. 162-165 4 p.

Research output: Contribution to journalArticle

Diamond
Diamonds
Diodes
Polarization
Detectors

Oncolytic virotherapy for small-cell lung cancer induces immune infiltration and prolongs survival

Kellish, P., Shabashvili, D., Rahman, M., Nawab, A., Guijarro, M. V., Zhang, M., Cao, C., Moussatche, N., Boyle, T., Antonia, S., Reinhard, M., Hartzell, C., Jantz, M., Mehta, H. J., McFadden, D., Kaye, F. J. & Zajac-Kaye, M., Apr 29 2019, In : The Journal of clinical investigation. 130

Research output: Contribution to journalArticle

Open Access
Oncolytic Virotherapy
Myxoma virus
Small Cell Lung Carcinoma
Survival
Neoplasms

Optical Imaging of Charges with Atomically Thin Molybdenum Disulfide

Zhu, H., Zhang, F., Wang, H., Lu, Z., Chen, H. Y., Li, J. & Tao, N., Jan 1 2019, (Accepted/In press) In : ACS Nano.

Research output: Contribution to journalArticle

molybdenum disulfides
Molybdenum
Imaging techniques
Molecules
Charge distribution

Phosphate depletion controls lipid content and accumulation of heterotrophic bacteria during growth of Synechocystis sp. PCC 6803

Zhou, Y., Lai, Y. J. S., Eustance, E., Xia, S. & Rittmann, B., Jan 1 2019, In : Applied Microbiology and Biotechnology.

Research output: Contribution to journalArticle

Synechocystis
Cyanobacteria
Biomass
Phosphates
Bacteria

Population Genetics of Paramecium Mitochondrial Genomes: Recombination, Mutation Spectrum, and Efficacy of Selection

Johri, P., Marinov, G. K., Doak, T. G. & Lynch, M., May 1 2019, In : Genome biology and evolution. 11, 5, p. 1398-1416 19 p.

Research output: Contribution to journalArticle

Open Access
Paramecium
Mitochondrial Genome
telomeres
Telomere
Population Genetics
1 Citation (Scopus)

Priming with a Potent HIV-1 DNA Vaccine Frames the Quality of Immune Responses prior to a Poxvirus and Protein Boost

Asbach, B., Kibler, K., Köstler, J., Perdiguero, B., Yates, N. L., Stanfield-Oakley, S., Tomaras, G. D., Kao, S. F., Foulds, K. E., Roederer, M., Seaman, M. S., Montefiori, D. C., Parks, R., Ferrari, G., Forthal, D. N., Phogat, S., Tartaglia, J., Barnett, S. W., Self, S. G., Gottardo, R. & 9 othersCristillo, A. D., Weiss, D. E., Galmin, L., Ding, S., Heeney, J. L., Esteban, M., Jacobs, B., Pantaleo, G. & Wagner, R., Feb 1 2019, In : Journal of virology. 93, 3

Research output: Contribution to journalArticle

Poxviridae
DNA Vaccines
recombinant vaccines
Human immunodeficiency virus 1
HIV-1

Project honeybee: Clinical applications for wearable biosensors

Hartwell, L., Ross, H. M. & LaBelle, J., Jun 1 2019, In : Biomedical Microdevices. 21, 2, 37.

Research output: Contribution to journalArticle

Biosensing Techniques
Biosensors
Nursing
Equipment and Supplies
Research
Cationic surfactants
Chain length
surfactant
Biomass
Agglomeration

Rapidly processed stool swabs approximate stool microbiota profiles

Bokulich, N. A., Maldonado, J., Kang, D. W., Krajmalnik-Brown, R. & Caporaso, J. G., Mar 1 2019, In : mSphere. 4, 2, e00208-19.

Research output: Contribution to journalArticle

Open Access
Microbiota
Temperature
Enterobacteriaceae
rRNA Genes
Gastrointestinal Microbiome

Redox Engineering of Cytochrome c using DNA Nanostructure-Based Charged Encapsulation and Spatial Control

Ge, Z., Su, Z., Simmons, C. R., Li, J., Jiang, S., Li, W., Yang, Y., Liu, Y., Chiu, W., Fan, C. & Yan, H., Apr 17 2019, In : ACS Applied Materials and Interfaces. 11, 15, p. 13874-13880 7 p.

Research output: Contribution to journalArticle

Cytochromes c
Encapsulation
Nanostructures
DNA
Proteins

Repeat proteins as versatile scaffolds for arrays of redox-active FeS clusters

Mejias, S. H., Bahrami-Dizicheh, Z., Liutkus, M., Sommer, D. J., Astashkin, A., Kodis, G., Ghirlanda, G. & Cortajarena, A. L., Jan 1 2019, In : Chemical Communications. 55, 23, p. 3319-3322 4 p.

Research output: Contribution to journalArticle

Open Access
Scaffolds (biology)
Scaffolds
Charge transfer
Stabilization
Proteins
1 Citation (Scopus)

Replication-Competent NYVAC-KC Yields Improved Immunogenicity to HIV-1 Antigens in Rhesus Macaques Compared to Nonreplicating NYVAC

Kibler, K., Asbach, B., Perdiguero, B., García-Arriaza, J., Yates, N. L., Parks, R., Stanfield-Oakley, S., Ferrari, G., Montefiori, D. C., Tomaras, G. D., Roederer, M., Foulds, K. E., Forthal, D. N., Seaman, M. S., Self, S., Gottardo, R., Phogat, S., Tartaglia, J., Barnett, S., Cristillo, A. D. & 8 othersWeiss, D., Galmin, L., Ding, S., Heeney, J. L., Esteban, M., Wagner, R., Pantaleo, G. & Jacobs, B., Feb 1 2019, In : Journal of virology. 93, 3

Research output: Contribution to journalArticle

HIV Antigens
Human immunodeficiency virus 1
Macaca mulatta
HIV-1
Vaccines

Retrospective nationwide occurrence of fipronil and its degradates in U.S. wastewater and sewage sludge from 2001 - 2016

Sadaria, A. M., Labban, C. W., Steele, J. C., Maurer, M. M. & Halden, R., May 15 2019, In : Water Research. p. 465-473 9 p.

Research output: Contribution to journalArticle

Environmental Protection Agency
Sewage sludge
Effluents
Wastewater
Pest control

Role of hydrogen (H 2 ) mass transfer in microbiological H 2 -threshold studies

Karadagli, F., Marcus, A. & Rittmann, B., Jan 1 2019, In : Biodegradation.

Research output: Contribution to journalArticle

mass transfer
Hydrogen
Mass transfer
Gases
hydrogen
1 Citation (Scopus)

Tau positron-emission tomography in former national football league players

Stern, R. A., Adler, C. H., Chen, K., Navitsky, M., Luo, J., Dodick, D. W., Alosco, M. L., Tripodis, Y., Goradia, D. D., Martin, B., Mastroeni, D., Fritts, N. G., Jarnagin, J., Devous, M. D., Mintun, M. A., Pontecorvo, M. J., Shenton, M. E. & Reiman, E. M., May 2 2019, In : New England Journal of Medicine. 380, 18, p. 1716-1725 10 p.

Research output: Contribution to journalArticle

Football
Positron-Emission Tomography
Amyloid
Confidence Intervals
Neurobehavioral Manifestations

The role of ultrasound-treated sludge for accelerating quinoline mono-oxygenation

Zhang, Y., Wang, Y., Lu, Q., Zhang, C., Yan, N., Zhang, Y. & Rittmann, B., Mar 1 2019, In : Journal of Environmental Management. 233, p. 561-566 6 p.

Research output: Contribution to journalArticle

Oxygenation
oxygenation
Biodegradation
Ultrasonics
sludge

Third generation impedimetric sensor employing direct electron transfer type glucose dehydrogenase

Ito, Y., Okuda-Shimazaki, J., Tsugawa, W., Loew, N., Shitanda, I., Lin, C. E., LaBelle, J. & Sode, K., Mar 15 2019, In : Biosensors and Bioelectronics. 129, p. 189-197 9 p.

Research output: Contribution to journalArticle

Glucose 1-Dehydrogenase
Glucose
Enzyme sensors
Electrons
Dielectric Spectroscopy