Howard Hughes Medical Institution

Research Output 1988 2017

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2017

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

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

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

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 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
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

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

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

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
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

Ribosomes slide on lysine-encoding homopolymeric A stretches

Koutmou, K. S., Schuller, A. P., Brunelle, J. L., Radhakrishnan, A., Djuranovic, S. & Green, R. Feb 19 2015 In : eLife. 2015, 4

Research output: Research - peer-reviewArticle

Ribosomes
Codon
Lysine
Proteins
Messenger RNA

Rli1/ABCE1 Recycles Terminating Ribosomes and Controls Translation Reinitiation in 3′UTRs In Vivo

Young, D. J., Guydosh, N. R., Zhang, F., Hinnebusch, A. G. & Green, R. Aug 17 2015 In : Cell. 162, 4, p. 872-884 13 p., 8356

Research output: Research - peer-reviewArticle

3' Untranslated Regions
Ribosomes
Recycling
Biochemistry
Mass spectrometry

Saccharomyces cerevisiae Ski7 Is a GTP-Binding Protein Adopting the Characteristic Conformation of Active Translational GTPases

Kowalinski, E., Schuller, A., Green, R. & Conti, E. Feb 17 2015 In : Structure. 23, 7, p. 1336-1343 8 p., 3180

Research output: Research - peer-reviewArticle

GTP Phosphohydrolases
Guanosine Triphosphate
Saccharomyces cerevisiae
Carrier Proteins
Messenger RNA

Sculpting Neural Circuits by Axon and Dendrite Pruning

Riccomagno, M. M. & Kolodkin, A. L. Nov 13 2015 In : Annual Review of Cell and Developmental Biology. 31, p. 779-805 27 p.

Research output: Research - peer-reviewArticle

Neuronal Plasticity
Mental Disorders
Neuroglia
Synapses
Axons

Sox7, Sox17, and Sox18 cooperatively regulate vascular development in the mouse retina

Zhou, Y., Williams, J., Smallwood, P. M. & Nathans, J. Dec 1 2015 In : PLoS One. 10, 12, 0143650

Research output: Research - peer-reviewArticle

retina
blood vessels
mice
Blood Vessels
Retina

Synthesis at the Speed of Codons

Koutmou, K. S., Radhakrishnan, A. & Green, R. 2015 In : Trends in Biochemical Sciences. 40, 12, p. 717-718 2 p.

Research output: Research - peer-reviewArticle

Codon
Messenger RNA
Protein Folding
Peptides
Proteins

The spatio-temporal domains of Frizzled6 action in planar polarity control of hair follicle orientation

Chang, H., Smallwood, P. M., Williams, J. & Nathans, J. Sep 18 2015 (Accepted/In press) In : Developmental Biology.

Research output: Research - peer-reviewArticle

Hair Follicle
Epidermis
Genes
Merkel Cells
Phenotype

Tip cell-specific requirement for an atypical Gpr124- and Reck-dependent Wnt/β-catenin pathway during brain angiogenesis

Vanhollebeke, B., Stone, O. A., Bostaille, N., Cho, C., Zhou, Y., Maquet, E., Gauquier, A., Cabochette, P., Fukuhara, S., Mochizuki, N., Nathans, J. & Stainier, D. Y. R. Jun 8 2015 In : eLife. 4, JUNE, p. 1-25 25 p., e06489

Research output: Research - peer-reviewArticle

beta Catenin
Brain
Blood Vessels
Central Nervous System
Endothelial Cells
2014

Canonical WNT signaling components in vascular development and barrier formation

Zhou, Y., Wang, Y., Tischfield, M., Williams, J., Smallwood, P. M., Rattner, A., Taketo, M. M. & Nathans, J. Sep 2 2014 In : Journal of Clinical Investigation. 124, 9, p. 3825-3846 22 p.

Research output: Research - peer-reviewArticle

beta Catenin
Blood-Brain Barrier
Blood Vessels
Low Density Lipoprotein Receptor-Related Protein-1
Retina

Cas adaptor proteins organize the retinal ganglion cell layer downstream of integrin signaling

Riccomagno, M. M., Sun, L. O., Brady, C. M., Alexandropoulos, K., Seo, S., Kurokawa, M. & Kolodkin, A. L. Feb 19 2014 In : Neuron. 81, 4, p. 779-786 8 p.

Research output: Research - peer-reviewArticle

Retinal Ganglion Cells
Integrins
Proteins
Laminin
Laminin Receptors

Cellular Resolution Maps of X Chromosome Inactivation: Implications for Neural Development, Function, and Disease

Wu, H., Luo, J., Yu, H., Rattner, A., Mo, A., Wang, Y., Smallwood, P., Erlanger, B., Wheelan, S. & Nathans, J. Jan 8 2014 In : Neuron. 81, 1, p. 103-119 17 p.

Research output: Research - peer-reviewArticle

X Chromosome Inactivation
Mammals
Retinal Vessels
Mosaicism
X Chromosome