Howard Hughes Medical Institution

Research Output 1988 2017

2017

Can multidrug-resistant candida auris be reliably identified in clinical microbiology laboratories?

Mizusawa, M., Miller, H., Green, R., Lee, R., Durante, M., Perkins, R., Hewitt, C., Simner, P. J., Carroll, K. C., Hayden, R. T. & Zhang, S. X. Feb 1 2017 In : Journal of Clinical Microbiology. 55, 2, p. 638-640 3 p.

Research output: Research - peer-reviewShort survey

Matrix-Assisted Laser Desorption-Ionization Mass Spectrometry
Microbiology
Candida

Cerebral Vein Malformations Result from Loss of Twist1 Expression and BMP Signaling from Skull Progenitor Cells and Dura

Tischfield, M. A., Robson, C. D., Gilette, N. M., Chim, S. M., Sofela, F. A., DeLisle, M. M., Gelber, A., Barry, B. J., MacKinnon, S., Dagi, L. R., Nathans, J. & Engle, E. C. 2017 (Accepted/In press) In : Developmental Cell.

Research output: Research - peer-reviewArticle

Cerebral Veins
Bone Morphogenetic Proteins
Skull
Stem Cells
Mutation

eIF5A Functions Globally in Translation Elongation and Termination

Schuller, A. P., Wu, C. C. C., Dever, T. E., Buskirk, A. R. & Green, R. Apr 20 2017 In : Molecular Cell. 66, 2, p. 194-205.e5

Research output: Research - peer-reviewArticle

Ribosomes
Proline
In Vitro Techniques
Peptide Initiation Factors
Terminator Codon

Establishing Wiring Specificity in Visual System Circuits: From the Retina to the Brain

Zhang, C., Kolodkin, A. L., Wong, R. O. & James, R. E. Jul 25 2017 In : Annual Review of Neuroscience. 40, p. 395-424 30 p.

Research output: Research - peer-reviewArticle

Retina
Brain
Visual Pathways
Nervous System

Intramembrane proteolysis of astrotactins

Chang, H., Smallwood, P. M., Williams, J. & Nathans, J. Feb 24 2017 In : Journal of Biological Chemistry. 292, 8, p. 3506-3516 11 p.

Research output: Research - peer-reviewArticle

Proteolysis
Asialoglycoprotein Receptor
Transferrin Receptors
Neurology
Leucine

MIP-MAP: High-throughput mapping of Caenorhabditis elegans temperature-sensitive mutants via molecular inversion probes

Mok, C. A., Au, V., Thompson, O. A., Edgley, M. L., Gevirtzman, L., Yochem, J., Lowry, J., Memar, N., Wallenfang, M. R., Rasoloson, D., Bowerman, B., Schnabel, R., Seydoux, G., Moerman, D. G. & Waterston, R. H. Oct 1 2017 In : Genetics. 207, 2, p. 447-463 17 p.

Research output: Research - peer-reviewArticle

Molecular Probes
Caenorhabditis elegans
Temperature
Essential Genes
Libraries

Netrin-Mediated Axon Guidance to the CNS Midline Revisited

Hand, R. A. & Kolodkin, A. L. May 17 2017 In : Neuron. 94, 4, p. 691-693 3 p.

Research output: Research - peer-reviewShort survey

Neurons
Axon Guidance
netrin-1

Neuropilin-2/PlexinA3 Receptors Associate with GluA1 and Mediate Sema3F-Dependent Homeostatic Scaling in Cortical Neurons

Wang, Q., Chiu, S. L., Koropouli, E., Hong, I., Mitchell, S., Easwaran, T. P., Hamilton, N. R., Gustina, A. S., Zhu, Q., Ginty, D. D., Huganir, R. L. & Kolodkin, A. L. Dec 6 2017 In : Neuron. 96, 5, p. 1084-1098.e7

Research output: Research - peer-reviewArticle

Neuropilin-2
Semaphorins
Neurons
Synapses
AMPA Receptors

Population growth: Help to make food go further in Egypt

Nathans, J. Jun 7 2017 In : Nature. 546, 7657, p. 210 1 p.

Research output: Research - peer-reviewLetter

Northern Africa
Egypt
Population Growth
Population Dynamics
Developing Countries

Precision genome editing using CRISPR-Cas9 and linear repair templates in C. elegans

Paix, A., Folkmann, A. & Seydoux, G. Jan 16 2017 (Accepted/In press) In : Methods.

Research output: Research - peer-reviewArticle

Clustered Regularly Interspaced Short Palindromic Repeats
Genome
Gene Editing
Repair
Genes

Precision genome editing using synthesis-dependent repair of Cas9-induced DNA breaks

Paix, A., Folkmann, A., Goldman, D. H., Kulaga, H., Grzelak, M. J., Rasoloson, D., Paidemarry, S., Green, R., Reed, R. R. & Seydoux, G. Dec 12 2017 In : Proceedings of the National Academy of Sciences of the United States of America. 114, 50, p. E10745-E10754

Research output: Research - peer-reviewArticle

DNA Breaks
DNA
Gene Editing
Nucleotides
Genome

Rapid generation of hypomorphic mutations

Arthur, L. L., Chung, J. J., Jankirama, P., Keefer, K. M., Kolotilin, I., Pavlovic-Djuranovic, S., Chalker, D. L., Grbic, V., Green, R., Menassa, R., True, H. L., Skeath, J. B. & Djuranovic, S. Jan 20 2017 In : Nature Communications. 8, 14112

Research output: Research - peer-reviewArticle

mutations
Mutation
Genes
organisms
genes

Reck and Gpr124 Are Essential Receptor Cofactors for Wnt7a/Wnt7b-Specific Signaling in Mammalian CNS Angiogenesis and Blood-Brain Barrier Regulation

Cho, C., Smallwood, P. M. & Nathans, J. Aug 30 2017 In : Neuron. 95, 5, p. 1056-1073.e5

Research output: Research - peer-reviewArticle

Blood-Brain Barrier
Leucine
Membrane Proteins
Endothelial Cells
Mutagenesis

Regulated Ire1-dependent mRNA decay requires no-go mRNA degradation to maintain endoplasmic reticulum homeostasis in S. Pombe

Guydosh, N. R., Kimmig, P., Walter, P. & Green, R. Sep 25 2017 In : eLife. 6, e29216

Research output: Research - peer-reviewArticle

Schizosaccharomyces
RNA Stability
Endoplasmic Reticulum
Homeostasis
Degradation

Ribosome pausing, arrest and rescue in bacteria and eukaryotes

Buskirk, A. R. & Green, R. Mar 19 2017 In : Philosophical Transactions of the Royal Society B: Biological Sciences. 372, 1716, 20160183

Research output: Research - peer-reviewReview article

Elongation
Bacteria
ribosomes
eukaryotic cells
bacteria

Slowed decay of mRNAs enhances platelet specific translation

Mills, E. W., Green, R. & Ingolia, N. T. Apr 27 2017 In : Blood. 129, 17, p. e38-e48

Research output: Research - peer-reviewArticle

Blood Platelets
Messenger RNA
Platelets
Ribosomes
RNA Sequence Analysis

The ABC(E1)s of Ribosome Recycling and Reinitiation

Schuller, A. P. & Green, R. Jun 1 2017 In : Molecular Cell. 66, 5, p. 578-580 3 p.

Research output: Research - peer-reviewShort survey

Recycling
Ribosomes
Molecular Biology

The laminar organization of the drosophila ellipsoid body is semaphorin-dependent and prevents the formation of ectopic synaptic connections

Xie, X., Tabuchi, M., Brown, M. P., Mitchell, S. P., Wu, M. N. & Kolodkin, A. L. Jun 20 2017 In : eLife. 6, e25328

Research output: Research - peer-reviewArticle

Semaphorins
Drosophila
Neurons
Axons
Optogenetics

Translation of poly(A) tails leads to precise mRNA cleavage

Guydosh, N. R. & Green, R. May 1 2017 In : RNA. 23, 5, p. 749-761 13 p.

Research output: Research - peer-reviewArticle

Ribosomes
Messenger RNA
Polyadenylation
RNA Stability
Nucleotides

Varicose and cheerio collaborate with pebble to mediate semaphorin-1a reverse signaling in Drosophila

Jeong, S., Yang, D. S., Hong, Y. G., Mitchell, S. P., Brown, M. P. & Kolodkin, A. L. Sep 26 2017 In : Proceedings of the National Academy of Sciences of the United States of America. 114, 39, p. E8254-E8263

Research output: Research - peer-reviewArticle

Semaphorins
Drosophila
Proteins
Actin Cytoskeleton
Axons

Wiring visual systems: common and divergent mechanisms and principles

Kolodkin, A. L. & Hiesinger, P. R. Feb 1 2017 In : Current Opinion in Neurobiology. 42, p. 128-135 8 p.

Research output: Research - peer-reviewReview article

Diptera
Fishes
History
2016

Cas9-assisted recombineering in C. elegans: Genome editing using in vivo assembly of linear DNAs

Paix, A., Schmidt, H. & Seydoux, G. Sep 6 2016 In : Nucleic Acids Research. 44, 15, p. e128

Research output: Research - peer-reviewArticle

DNA
Gene Editing
DNA Repair
Gene Knock-In Techniques
Clustered Regularly Interspaced Short Palindromic Repeats

Clarifying the Translational Pausing Landscape in Bacteria by Ribosome Profiling

Mohammad, F., Woolstenhulme, C. J., Green, R. & Buskirk, A. R. Feb 2 2016 In : Cell Reports. 14, 4, p. 686-694 9 p.

Research output: Research - peer-reviewArticle

Bacteria
Messenger RNA
Ribosomes
Gene expression
Elongation

Connections Underlying Translation and mRNA Stability

Radhakrishnan, A. & Green, R. Sep 11 2016 In : Journal of Molecular Biology. 428, 18, p. 3558-3564 7 p.

Research output: Research - peer-reviewReview article

RNA Stability
Messenger RNA
Ribosomes
Untranslated RNA
Protein Stability

Dynamic Regulation of a Ribosome Rescue Pathway in Erythroid Cells and Platelets

Mills, E. W., Wangen, J., Green, R. & Ingolia, N. T. Sep 27 2016 In : Cell Reports. 17, 1, p. 1-10 10 p.

Research output: Research - peer-reviewArticle

Platelets
Blood
Cells
Erythroid Cells
Ribosomes

Epigenomic landscapes of retinal rods and cones

Mo, A., Luo, C., Davis, F. P., Mukamel, E. A., Henry, G. L., Nery, J. R., Urich, M. A., Picard, S., Lister, R., Eddy, S. R., Beer, M. A., Ecker, J. R. & Nathans, J. Mar 7 2016 In : eLife. 5, MARCH2016, e11613

Research output: Research - peer-reviewArticle

Retinal Cone Photoreceptor Cells
Retinal Rod Photoreceptor Cells
Vertebrate Photoreceptor Cells
Epigenomics
Cones

Frizzled Receptors in Development and Disease

Wang, Y., Chang, H., Rattner, A. & Nathans, J. 2016 (Accepted/In press) In : Current Topics in Developmental Biology.

Research output: Research - peer-reviewArticle

Frizzled Receptors
Cell Polarity
Central Nervous System
Wnt Receptors
Ventricular Septum

How scientists can reduce their carbon footprint

Nathans, J. & Sterling, P. Mar 31 2016 In : eLife. 5, MARCH2016, e15928

Research output: Research - peer-reviewArticle

Carbon Footprint
Air Travel
Gases
Carbon footprint
Greenhouse gases

Inhibition of Eukaryotic Translation by the Antitumor Natural Product Agelastatin A

McClary, B., Zinshteyn, B., Meyer, M., Jouanneau, M., Pellegrino, S., Yusupova, G., Schuller, A., Reyes, J. C. P., Lu, J., Guo, Z., Ayinde, S., Luo, C., Dang, Y., Romo, D., Yusupov, M., Green, R. & Liu, J. O. Dec 18 2016 (Accepted/In press) In : Cell Chemical Biology.

Research output: Research - peer-reviewArticle

Biological Products
agelastatin A
Ribosomes
Proteins
Porifera

Loss-of-function genetic tools for animal models: cross-species and cross-platform differences

Housden, B. E., Muhar, M., Gemberling, M., Gersbach, C. A., Stainier, D. Y. R., Seydoux, G., Mohr, S. E., Zuber, J. & Perrimon, N. Dec 13 2016 In : Nature Reviews Genetics. 18, 1, p. 24-40 17 p.

Research output: Research - peer-reviewReview article

Animal Models
Phenotype
Genes
Biological Phenomena
Clustered Regularly Interspaced Short Palindromic Repeats

Patterning of papillae on the mouse tongue: A system for the quantitative assessment of planar cell polarity signaling

Wang, Y., Williams, J., Rattner, A., Wu, S., Bassuk, A. G., Goffinet, A. M. & Nathans, J. Nov 15 2016 In : Developmental Biology. 419, 2, p. 298-310 13 p.

Research output: Research - peer-reviewArticle

Cell Polarity
Tongue
Alleles
Phenotype
Genes

Regressive phenomena: Refining connections

Agnew-Svoboda, W., Kolodkin, A. L. & Riccomagno, M. M. Jan 1 2016 Neuroscience in the 21st Century: From Basic to Clinical, Second Edition. Springer New York, p. 265-294 30 p.

Research output: ResearchChapter

refining
nervous system
Nervous System
neurons
Neurons

Ryk controls remapping of motor cortex during functional recovery after spinal cord injury

Hollis, E. R., Ishiko, N., Yu, T., Lu, C. C., Haimovich, A., Tolentino, K., Richman, A., Tury, A., Wang, S. H., Pessian, M., Jo, E., Kolodkin, A. & Zou, Y. May 1 2016 In : Nature Neuroscience. 19, 5, p. 697-705 9 p.

Research output: Research - peer-reviewArticle

Forelimb
Motor Cortex
Spinal Cord Injuries
Knockout Mice
Rehabilitation

Spatial patterning of P granules by RNA-induced phase separation of the intrinsically-disordered protein MEG-3

Smith, J., Calidas, D., Schmidt, H., Lu, T., Rasoloson, D. & Seydoux, G. Dec 3 2016 In : eLife. 5, DECEMBER2016, e21337

Research output: Research - peer-reviewArticle

Intrinsically Disordered Proteins
Phase separation
RNA
RNA-Binding Proteins
In Vitro Techniques

The DEAD-Box Protein Dhh1p Couples mRNA Decay and Translation by Monitoring Codon Optimality

Radhakrishnan, A., Chen, Y. H., Martin, S., Alhusaini, N., Green, R. & Coller, J. Sep 22 2016 In : Cell. 167, 1, p. 122-132.e9

Research output: Research - peer-reviewArticle

RNA Stability
Protein Biosynthesis
Codon
Proteins
Messenger RNA

The fail-safe mechanism of post-transcriptional silencing of unspliced HAC1 mRNA

Di Santo, R., Aboulhouda, S., Weinberg, D. E. & Green, R. Oct 1 2016 In : eLife. 5, OCTOBER2016, e20069

Research output: Research - peer-reviewArticle

Unfolded Protein Response
Messenger RNA
Proteins
Introns
Stored Messenger RNA

When stop makes sense

Zinshteyn, B. & Green, R. Dec 2 2016 In : Science. 354, 6316, p. 1106 1 p.

Research output: Research - peer-reviewShort survey

Translational Peptide Chain Termination
Euplotes
Ciliophora
Terminator Codon
RNA Stability
2015

Avoiding the ends: Internal epitope tagging of proteins using transposon Tn7

Zordan, R. E., Beliveau, B. J., Trow, J. A., Craig, N. L. & Cormack, B. P. Jan 1 2015 In : Genetics. 200, 1, p. 47-58 12 p.

Research output: Research - peer-reviewArticle

Epitopes
Proteins
Peptides
GPI-Linked Proteins
Saccharomyces cerevisiae Proteins

Axon Dynamics during Neocortical Laminar Innervation

Hand, R. A., Khalid, S., Tam, E. & Kolodkin, A. L. Jul 14 2015 In : Cell Reports. 12, 2, p. 172-182 11 p.

Research output: Research - peer-reviewArticle

Pyramidal Cells
Cerebral Cortex
Axons
Neurons
Networks (circuits)

Endothelial microRNA-150 is an intrinsic suppressor of pathologic ocular neovascularization

Liu, C. H., Sun, Y., Li, J., Gong, Y., Tian, K. T., Evans, L. P., Morss, P. C., Fredrick, T. W., Saba, N. J., Chen, J. & Nathans, J. Sep 29 2015 In : Proceedings of the National Academy of Sciences of the United States of America. 112, 39, p. 12163-12168 6 p.

Research output: Research - peer-reviewArticle

Pathologic Neovascularization
MicroRNAs
Endothelial Cells
Physiologic Neovascularization
Retinal Neovascularization

Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain

Mo, A., Mukamel, E. A., Davis, F. P., Luo, C., Henry, G. L., Picard, S., Urich, M. A., Nery, J. R., Sejnowski, T. J., Lister, R., Eddy, S. R., Ecker, J. R. & Nathans, J. Jun 17 2015 In : Neuron. 86, 6, p. 1369-1384 16 p.

Research output: Research - peer-reviewArticle

Epigenomics
Brain
Neurons
DNA Methylation
Chromatin

Functional Assembly of Accessory Optic System Circuitry Critical for Compensatory Eye Movements

Sun, L. O., Brady, C. M., Cahill, H., Al-Khindi, T., Sakuta, H., Dhande, O. S., Noda, M., Huberman, A. D., Nathans, J. & Kolodkin, A. L. May 20 2015 In : Neuron. 86, 4, p. 971-984 14 p.

Research output: Research - peer-reviewArticle

Semaphorins
Eye Movements
Visual Fields
varespladib methyl
plexin

High efficiency, homology-directed genome editing in Caenorhabditis elegans using CRISPR-Cas9ribonucleoprotein complexes

Paix, A., Folkmann, A., Rasoloson, D. & Seydoux, G. Sep 1 2015 In : Genetics. 201, 1, p. 47-54 8 p.

Research output: Research - peer-reviewArticle

Clustered Regularly Interspaced Short Palindromic Repeats
Caenorhabditis elegans
Gene Editing
Guide RNA
RNA

High-Precision analysis of translational pausing by ribosome profiling in bacteria lacking EFP

Woolstenhulme, C. J., Guydosh, N. R., Green, R. & Buskirk, A. R. Apr 7 2015 In : Cell Reports. 11, 1, p. 13-21 9 p.

Research output: Research - peer-reviewArticle

Peptide Elongation Factors
Proline
Escherichia coli
Elongation
Bacteria

Identification of Astrotactin2 as a Genetic Modifier That Regulates the Global Orientation of Mammalian Hair Follicles

Chang, H., Cahill, H., Smallwood, P. M., Wang, Y. & Nathans, J. 2015 In : PLoS Genetics. 11, 9, e1005532

Research output: Research - peer-reviewArticle

hair follicles
modifiers (genes)
hairs
mice
Hair Follicle

Large-scale clinical validation of a lateral flow immunoassay for detection of cryptococcal antigen in serum and cerebrospinal fluid specimens

Suwantarat, N., Dalton, J. B., Lee, R., Green, R., Memon, W., Carroll, K. C., Riedel, S. & Zhang, S. X. May 1 2015 In : Diagnostic Microbiology and Infectious Disease. 82, 1, p. 54-56 3 p.

Research output: Research - peer-reviewArticle

Immunoassay
Cerebrospinal Fluid
Antigens
Serum
Cryptococcosis

MIR retrotransposon sequences provide insulators to the human genome

Wang, J., Vicente-García, C., Seruggia, D., Moltó, E., Fernandez-Miñán, A., Neto, A., Lee, E., Gómez-Skarmeta, J. L., Montoliu, L., Lunyak, V. V., Jordan, I. K. & Craig, N. L. Aug 11 2015 In : Proceedings of the National Academy of Sciences of the United States of America. 112, 32, p. E4428-E4437

Research output: Research - peer-reviewArticle

Retroelements
Human Genome
Chromatin
T-Lymphocytes
DNA Transposable Elements

Rac1 plays an essential role in axon growth and guidance and in neuronal survival in the central and peripheral nervous systems

Hua, Z. L., Emiliani, F. E. & Nathans, J. Sep 23 2015 In : Neural Development. 10, 1, 21

Research output: Research - peer-reviewArticle

Peripheral Nervous System
Axons
Central Nervous System
Growth
Axon Guidance

Reviewer acknowledgement 2015

Craig, N. L., Eikbush, T. H., Feschotte, C. & Levin, H. Mar 26 2015 (Accepted/In press) In : Mobile DNA. p. 1-2 2 p.

Research output: Research - peer-reviewArticle

DNA