Research Output 1961 2017

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2017

Actin Turnover in Lamellipodial Fragments

Raz-Ben Aroush, D., Ofer, N., Abu-Shah, E., Allard, J., Krichevsky, O., Mogilner, A. & Keren, K. Oct 9 2017 In : Current Biology. 27, 19, p. 2963-2973.e14

Research output: Research - peer-reviewArticle

Actins
actin
pseudopodia
Pseudopodia
Oligomers

Adhesion-Dependent Wave Generation in Crawling Cells

Barnhart, E. L., Allard, J., Lou, S. S., Theriot, J. A. & Mogilner, A. Jan 9 2017 In : Current Biology. 27, 1, p. 27-38 12 p.

Research output: Research - peer-reviewArticle

actin
adhesion
cells
Actins
Adhesion

A meeting that helped: Foster the acceptance of global tectonics

Rampino, M. R. 2017 In : Eos. 98, 2, p. 18-22 5 p.

Research output: Research - peer-reviewArticle

An 18S rRNA Workflow for Characterizing Protists in Sewage, with a Focus on Zoonotic Trichomonads

Maritz, J. M., Rogers, K. H., Rock, T. M., Liu, N., Joseph, S., Land, K. M. & Carlton, J. M. May 24 2017 (Accepted/In press) In : Microbial Ecology. p. 1-14 14 p.

Research output: Research - peer-reviewArticle

Trichomonadida
sewage
ribosomal RNA
protists
protist

An Engineered orco Mutation Produces Aberrant Social Behavior and Defective Neural Development in Ants

Yan, H. , Opachaloemphan, C. , Mancini, G. , Yang, H. , Gallitto, M. , Mlejnek, J. , Leibholz, A. , Haight, K. , Ghaninia, M. , Huo, L. , Perry, M. , Slone, J. , Zhou, X. , Traficante, M. , Penick, C. A. , Dolezal, K. , Gokhale, K. , Stevens, K. , Fetter-Pruneda, I. , Bonasio, R. & 5 others Zwiebel, L. J., Berger, S. L., Liebig, J., Reinberg, D. & Desplan, C. Aug 10 2017 In : Cell. 170, 4, p. 736-747.e9

Research output: Research - peer-reviewArticle

Odorant Receptors
Ants
Social Behavior
Mutation
Insects

A non-canonical site reveals the cooperative mechanisms of microRNA-mediated silencing

Flamand, M. N., Gan, H. H., Mayya, V. K., Gunsalus, K. C. & Duchaine, T. F. Jul 1 2017 In : Nucleic Acids Research. 45, 12, p. 7212-7225 14 p.

Research output: Research - peer-reviewArticle

MicroRNAs
Structural Models
3' Untranslated Regions
Seeds
Protein Isoforms

Are some tillites impact-related debris-flow deposits?

Rampino, M. R. Mar 1 2017 In : Journal of Geology. 125, 2, p. 155-164 10 p.

Research output: Research - peer-reviewArticle

debris flow
clast
diamictite
brittle failure
iceberg

A single early-in-life macrolide course has lasting effects on murine microbial network topology and immunity

Ruiz, V. E., Battaglia, T., Kurtz, Z. D., Bijnens, L., Ou, A., Engstrand, I., Zheng, X., Iizumi, T., Mullins, B. J., Müller, C. L., Cadwell, K., Bonneau, R., Perez-Perez, G. I. & Blaser, M. J. Dec 1 2017 In : Nature Communications. 8, 1, 518

Research output: Research - peer-reviewArticle

Macrolides
Immunity
Anti-Bacterial Agents
Topology
antibiotics

Caenorhabditis elegans Dosage Compensation: Insights into Condensin-Mediated Gene Regulation

Albritton, S. E. & Ercan, S. 2017 (Accepted/In press) In : Trends in Genetics.

Research output: Research - peer-reviewArticle

Caenorhabditis elegans
Genes
condensin complexes
X Chromosome
Chromosome Structures

Characterization of five unclassified orthobunyaviruses (Bunyaviridae) from Africa and the Americas

Rogers, M. B., Gulino, K. M., Tesh, R. B., Cui, L., Fitch, A., Unnasch, T. R., Popov, V. L., Travassos da Rosa, A. P. A., Guzman, H., Carrera, J. P., Vasilakis, N. & Ghedin, E. Sep 1 2017 In : Journal of General Virology. 98, 9, p. 2258-2266 9 p., 000899

Research output: Research - peer-reviewArticle

Orthobunyavirus
Bunyaviridae
Viruses
Serogroup
Simbu virus

Characterizing Antibody Responses to Plasmodium vivax and Plasmodium falciparum Antigens in India Using Genome-Scale Protein Microarrays

Uplekar, S. , Rao, P. N. , Ramanathapuram, L. , Awasthi, V. , Verma, K. , Sutton, P. , Ali, S. Z. , Patel, A. , Sri Lakshmi Priya, G. , Ravishankaran, S. , Desai, N. , Tandel, N. , Choubey, S. , Barla, P. , Kanagaraj, D. , Eapen, A. , Pradhan, K. , Singh, R. , Jain, A. , Felgner, P. L. & 3 others Davies, D. H., Carlton, J. M. & Das, J. Jan 24 2017 In : PLoS Neglected Tropical Diseases. 11, 1, e0005323

Research output: Research - peer-reviewArticle

Plasmodium vivax
Protein Array Analysis
Plasmodium falciparum
Malaria
Antibody Formation

Collective cell migration has distinct directionality and speed dynamics

Zhang, Y., Xu, G., Lee, R. M., Zhu, Z., Wu, J., Liao, S., Zhang, G., Sun, Y., Mogilner, A., Losert, W., Pan, T., Lin, F., Xu, Z. & Zhao, M. Jun 13 2017 (Accepted/In press) In : Cellular and Molecular Life Sciences. p. 1-10 10 p.

Research output: Research - peer-reviewArticle

Cell Movement
Rheology
flood basalt
volcanic eruption
extinction
ocean
comparison

Computing structure-based lipid accessibility of membrane proteins with mp_lipid_acc in RosettaMP

Koehler Leman, J., Lyskov, S. & Bonneau, R. Feb 20 2017 In : BMC Bioinformatics. 18, 1, 115

Research output: Research - peer-reviewArticle

Membrane Protein
Lipids
Accessibility
Computing
Membrane Proteins

Cooperation between a hierarchical set of recruitment sites targets the X chromosome for dosage compensation

Albritton, S. E., Kranz, A. L., Winterkorn, L. H., Street, L. A. & Ercan, S. May 30 2017 In : eLife. 6, e23645

Research output: Research - peer-reviewArticle

Nucleotide Motifs
X Chromosome
Regulator Genes
Chromatin
Chromosomes

Correlated Mutations and Homologous Recombination Within Bacterial Populations

Lin, M. & Kussell, E. Feb 1 2017 In : Genetics. 205, 2, p. 891-917 27 p.

Research output: Research - peer-reviewArticle

Homologous Recombination
Mutation
Population
Genetic Recombination
Datasets

Correlation of the largest craters, stratigraphic impact signatures, and extinction events over the past 250 Myr

Rampino, M. R. & Caldeira, K. Jan 27 2017 (Accepted/In press) In : Geoscience Frontiers.

Research output: Research - peer-reviewArticle

crater
extinction
cratering
ejecta
effect

Critical role of IRF1 and BATF in forming chromatin landscape during type 1 regulatory cell differentiation

Karwacz, K., Miraldi, E. R., Pokrovskii, M., Madi, A., Yosef, N., Wortman, I., Chen, X., Watters, A., Carriero, N., Awasthi, A., Regev, A., Bonneau, R., Littman, D. & Kuchroo, V. K. Feb 6 2017 (Accepted/In press) In : Nature Immunology.

Research output: Research - peer-reviewArticle

Regulatory T-Lymphocytes
Chromatin
Cell Differentiation
Interleukin-27
Transcription Factors

Defining Brugia malayi and Wolbachia symbiosis by stage-specific dual RNA-seq

Grote, A., Voronin, D., Ding, T., Twaddle, A., Unnasch, T. R., Lustigman, S. & Ghedin, E. Mar 30 2017 In : PLoS Neglected Tropical Diseases. 11, 3, e0005357

Research output: Research - peer-reviewArticle

Brugia malayi
Wolbachia
Symbiosis
RNA
Parasites

Detecting and Trapping of a Single C. elegans Worm in a Microfluidic Chip for Automated Microplate Dispensing

Desta, I. T., Al-Sharif, A., AlGharibeh, N., Mustafa, N., Orozaliev, A., Giakoumidis, N., Gunsalus, K. C. & Song, Y. A. Aug 1 2017 In : SLAS Technology. 22, 4, p. 431-436 6 p.

Research output: Research - peer-reviewArticle

Microfluidics
Caenorhabditis elegans
baysilon
Polydimethylsiloxane
Throughput

Digital Dissent: Informational and Motivational Pathways to Political Protests Through Social Media

Tucker, J., Jost, J., Barberá, P., Bonneau, R., MacDuffee Metzger, M., Nagler, J. & Sterling, J. L. 2017 (Accepted/In press) In : Advances in Political Psychology.

Research output: Research - peer-reviewArticle

Discovery of peptide ligands through docking and virtual screening at nicotinic acetylcholine receptor homology models

Leffler, A. E., Kuryatov, A., Zebroski, H. A., Powell, S. R., Filipenko, P., Hussein, A. K., Gorson, J., Heizmann, A., Lyskov, S., Tsien, R. W., Poget, S. F., Nicke, A., Lindstrom, J., Rudy, B., Bonneau, R. & Holford, M. Sep 19 2017 In : Proceedings of the National Academy of Sciences of the United States of America. 114, 38, p. E8100-E8109

Research output: Research - peer-reviewArticle

Nicotinic Receptors
Screening
Ligands
Peptides
Conotoxins

Disrupting hepatocyte Cyp51 from cholesterol synthesis leads to progressive liver injury in the developing mouse and decreases RORC signalling

Urlep, Ž., Lorbek, G., Perše, M., Jeruc, J., Juvan, P., Matz-Soja, M., Gebhardt, R., Björkhem, I., Hall, J. A., Bonneau, R., Littman, D. R. & Rozman, D. Jan 18 2017 In : Scientific Reports. 7, 40775

Research output: Research - peer-reviewArticle

Hepatocytes
Cholesterol
Liver
Wounds and Injuries
Lanosterol

Efficient Dual siRNA and Drug Delivery Using Engineered Lipoproteoplexes

Liu, C. F., Chen, R., Frezzo, J. A., Katyal, P., Hill, L. K., Yin, L., Srivastava, N., More, H. T., Renfrew, P. D., Bonneau, R. & Montclare, J. K. Sep 11 2017 In : Biomacromolecules. 18, 9, p. 2688-2698 11 p.

Research output: Research - peer-reviewArticle

Drug delivery
Doxorubicin
Small Interfering RNA
Cells
Lipofectamine

Electric fields accelerate cell polarization and bypass myosin action in motility initiation

Sun, Y. H., Sun, Y., Zhu, K., Reid, B., Gao, X., Draper, B. W., Zhao, M. & Mogilner, A. 2017 (Accepted/In press) In : Journal of Cellular Physiology.

Research output: Research - peer-reviewArticle

Myosins
Electric fields
Polarization
Cell Movement
Fishes

Evolution and cryo-electron microscopy capsid structure of a north american bat adenovirus and its relationship to other mastadenoviruses

Hackenbrack, N., Rogers, M. B., Ashley, R. E., Keel, M. K., Kubiski, S. V., Bryan, J. A., Ghedin, E., Holmes, E. C., Hafenstein, S. L. & Allison, A. B. 2017 In : Journal of Virology. 91, 2, e01504-16

Research output: Research - peer-reviewArticle

Mastadenovirus
capsid
Adenoviridae
Chiroptera
cryo-electron microscopy

Evolutionary loss of melanogenesis in the tunicate Molgula occulta

Racioppi, C., Valoroso, M. C., Coppola, U., Lowe, E. K., Brown, C. T., Swalla, B. J., Christiaen, L., Stolfi, A. & Ristoratore, F. Jul 18 2017 In : EvoDevo. 8, 1, 11

Research output: Research - peer-reviewArticle

Molgula
melanogenesis
Tunicata
gene
loss

Filthy lucre: A metagenomic pilot study of microbes found on circulating currency in New York City

Maritz, J. M., Sullivan, S. A., Prill, R. J., Aksoy, E., Scheid, P. & Carlton, J. M. Apr 1 2017 In : PLoS ONE. 12, 4, e0175527

Research output: Research - peer-reviewArticle

Skin
DNA
microorganisms
Metagenomics
Dairies

Fundamental cell cycle kinases collaborate to ensure timely destruction of the synaptonemal complex during meiosis

Argunhan, B., Leung, W. K., Afshar, N., Terentyev, Y., Subramanian, V. V., Murayama, Y., Hochwagen, A., Iwasaki, H., Tsubouchi, T. & Tsubouchi, H. 2017 (Accepted/In press) In : EMBO Journal.

Research output: Research - peer-reviewArticle

Synaptonemal Complex
Meiosis
Cell Cycle
Phosphotransferases
Cells

Genome Architecture and Evolution of a Unichromosomal Asexual Nematode

Fradin, H., Kiontke, K., Zegar, C., Gutwein, M., Lucas, J., Kovtun, M., Corcoran, D. L., Baugh, L. R., Fitch, D. H. A., Piano, F. & Gunsalus, K. C. 2017 (Accepted/In press) In : Current Biology.

Research output: Research - peer-reviewArticle

heterozygosity
Nematoda
chromosomes
genome
Genome

Genomic and phenotypic characterization of myxoma virus from Great Britain reveals multiple evolutionary pathways distinct from those in Australia

Kerr, P. J., Cattadori, I. M., Rogers, M. B., Fitch, A., Geber, A., Liu, J., Sim, D. G., Boag, B., Eden, J. S., Ghedin, E., Read, A. F. & Holmes, E. C. Mar 1 2017 In : PLoS Pathogens. 13, 3, e1006252

Research output: Research - peer-reviewArticle

Myxoma virus
Virulence
United Kingdom
Viruses
Phenotype

Geophysical evidence for a large impact structure on the Falkland (Malvinas) Plateau

Rocca, M. C. L., Rampino, M. R. & Báez Presser, J. L. 2017 (Accepted/In press) In : Terra Nova.

Research output: Research - peer-reviewArticle

impact structure
plateau
basin
gravity anomaly
anomaly

Glia relay differentiation cues to coordinate neuronal development in Drosophila

Fernandes, V. M., Chen, Z., Rossi, A. M., Zipfel, J. & Desplan, C. Sep 1 2017 In : Science. 357, 6354, p. 886-891 6 p.

Research output: Research - peer-reviewArticle

Neuroglia
Drosophila
Cues
Neurons
Epidermal Growth Factor

Global nickel anomaly links Siberian Traps eruptions and the latest Permian mass extinction

Rampino, M. R., Rodriguez, S., Baransky, E. & Cai, Y. Dec 1 2017 In : Scientific Reports. 7, 1, 12416

Research output: Research - peer-reviewArticle

mass extinction
nickel
Permian
volcanic eruption
anomaly

Impact of phenylalanines outside the dimer interface on phosphotriesterase stability and function

Olsen, A. J., Halvorsen, L. A., Yang, C. Y., Barak Ventura, R., Yin, L., Renfrew, P. D., Bonneau, R. & Montclare, J. K. 2017 In : Molecular BioSystems. 13, 10, p. 2092-2106 15 p.

Research output: Research - peer-reviewArticle

Phosphoric Triester Hydrolases
Phenylalanine
p-Fluorophenylalanine
Mutagenesis
Solubility

Inferring fitness landscapes and selection on phenotypic states from single-cell genealogical data

Nozoe, T., Kussell, E. & Wakamoto, Y. Mar 1 2017 In : PLoS Genetics. 13, 3, e1006653

Research output: Research - peer-reviewArticle

fitness
cells
methodology
Population
phenotype

Integrated Analysis of Biopsies from Inflammatory Bowel Disease Patients Identifies SAA1 as a Link between Mucosal Microbes with T H 17 and T H 22 Cells

Tang, M. S., Bowcutt, R., Leung, J. M., Wolff, M. J., Gundra, U. M., Hudesman, D., Malter, L. B., Poles, M. A., Chen, L. A., Pei, Z., Neto, A. G., Abidi, W. M., Ullman, T., Mayer, L., Bonneau, R. A., Cho, I. & Loke, P. Sep 1 2017 In : Inflammatory Bowel Diseases. 23, 9, p. 1544-1554 11 p.

Research output: Research - peer-reviewArticle

Inflammatory Bowel Diseases
Biopsy
T-Lymphocytes
Pediatrics
Datasets

Integration of temporal and spatial patterning generates neural diversity

Erclik, T., Li, X., Courgeon, M., Bertet, C., Chen, Z., Baumert, R., Ng, J., Koo, C., Arain, U., Behnia, R., del Valle Rodriguez, A., Senderowicz, L., Negre, N., White, K. P. & Desplan, C. Jan 19 2017 In : Nature. 541, 7637, p. 365-370 6 p.

Research output: Research - peer-reviewArticle

Neurons
Neuropil
Automatic Data Processing
Drosophila
Cell Body

L-2-Hydroxyglutarate production arises from noncanonical enzyme function at acidic pH

Intlekofer, A. M., Wang, B., Liu, H., Shah, H., Carmona-Fontaine, C., Rustenburg, A. S., Salah, S., Gunner, M. R., Chodera, J. D., Cross, J. R. & Thompson, C. B. Mar 6 2017 (Accepted/In press) In : Nature Chemical Biology.

Research output: Research - peer-reviewArticle

Enzymes
alpha-hydroxyglutarate
alpha-ketoglutaric acid
Physiological Adaptation
Isocitrate Dehydrogenase

Landscape of X chromosome inactivation across human tissues

Tukiainen, T., Villani, A. C., Yen, A., Rivas, M. A., Marshall, J. L., Satija, R., Aguirre, M., Gauthier, L., Fleharty, M., Kirby, A., Cummings, B. B., Castel, S. E., Karczewski, K. J., Aguet, F., Byrnes, A., Lappalainen, T., Regev, A., Ardlie, K. G., Hacohen, N. & Macarthur, D. G. Oct 11 2017 In : Nature. 550, 7675, p. 244-248 5 p.

Research output: Research - peer-reviewArticle

X Chromosome Inactivation
Genes
X Chromosome
Transcriptome
Sexism

Lessons from the genomes and transcriptomes of filarial nematodes

Grote, A., Lustigman, S. & Ghedin, E. Jan 11 2017 (Accepted/In press) In : Molecular and Biochemical Parasitology.

Research output: Research - peer-reviewArticle

Transcriptome
Genome
Infection
Pharmaceutical Preparations
Gene Expression Profiling

Liberal and Conservative Values: What We Can Learn From Congressional Tweets

Jones, K. L., Noorbaloochi, S., Jost, J. T., Bonneau, R., Nagler, J. & Tucker, J. A. 2017 (Accepted/In press) In : Political Psychology.

Research output: Research - peer-reviewArticle

Security Measures
Beneficence
Social Security
Self Report
Observational Studies

Lung microbiome and host immune tone in subjects with idiopathic pulmonary fibrosis treated with inhaled interferon-γ

Wang, J., Lesko, M., Badri, M. H., Kapoor, B. C., Wu, B. G., Li, Y., Smaldone, G. C., Bonneau, R., Kurtz, Z. D., Condos, R. & Segal, L. N. Jul 1 2017 In : ERS Monograph. 3, 3

Research output: Research - peer-reviewArticle

Idiopathic Pulmonary Fibrosis
Microbiota
Interferon-gamma
Lung
Biomarkers

Mechanosensitive Adhesion Explains Stepping Motility in Amoeboid Cells

Copos, C. A., Walcott, S., del Álamo, J. C., Bastounis, E., Mogilner, A. & Guy, R. D. Jun 20 2017 In : Biophysical Journal. 112, 12, p. 2672-2682 11 p.

Research output: Research - peer-reviewArticle

Dictyostelium
Traction
Locomotion
Amoeba
Surface Properties

Metabolic origins of spatial organization in the tumor microenvironment

Carmona-Fontaine, C., Deforet, M., Akkari, L., Thompson, C. B., Joyce, J. A. & Xavier, J. B. Mar 14 2017 In : Proceedings of the National Academy of Sciences of the United States of America. 114, 11, p. 2934-2939 6 p.

Research output: Research - peer-reviewArticle

Tumor Microenvironment
Neoplasms
Macrophages
Arginase
Embryology

Mocap: Large-scale inference of transcription factor binding sites from chromatin accessibility

Chen, X., Yu, B., Carriero, N., Silva, C. & Bonneau, R. 2017 In : Nucleic Acids Research. 45, 8, p. 4315-4329 15 p.

Research output: Research - peer-reviewArticle

Chromatin
Transcription Factors
Binding Sites
ethoprop
CpG Islands

Myosin Clusters of Finite Size Develop Contractile Stress in 1D Random Actin Arrays

Rubinstein, B. Y. & Mogilner, A. Aug 22 2017 In : Biophysical Journal. 113, 4, p. 937-947 11 p.

Research output: Research - peer-reviewArticle

Myosins
Actins
Actomyosin
Biological Phenomena
Stress Fibers

Network heterogeneity regulates steering in actin-based motility /631/80/128/1276 /631/80/84/1756 article

Boujemaa-Paterski, R., Suarez, C., Klar, T., Zhu, J., Guérin, C., Mogilner, A., Théry, M. & Blanchoin, L. Dec 1 2017 In : Nature Communications. 8, 1, 655

Research output: Research - peer-reviewArticle

Actins
Growth
locomotion
Network architecture
Monomers
Acetylation
Nucleosomes
Benzo(a)pyrene
Histones
Lysine
Benzo(a)pyrene
Repair
Nucleotides
DNA
Proteins