Waksman Institute of Microbiology

Research Output 1972 2019

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2011
27 Citations (Scopus)

Molecular mechanism of transcription inhibition by phage T7 gp2 protein

Mekler, V., Minakhin, L., Sheppard, C., Wigneshweraraj, S. & Severinov, K., Nov 11 2011, In : Journal of molecular biology. 413, 5, p. 1016-1027 12 p.

Research output: Contribution to journalArticle

Bacteriophage T7
DNA-Directed RNA Polymerases
Proteins
Jaw
DNA
62 Citations (Scopus)

NanoRNAs Prime Transcription Initiation In Vivo

Goldman, S. R., Sharp, J. S., Vvedenskaya, I. O., Livny, J., Dove, S. L. & Nickels, B., Jun 24 2011, In : Molecular cell. 42, 6, p. 817-825 9 p.

Research output: Contribution to journalArticle

RNA
Oligoribonucleotides
Gene Expression
Exonucleases
DNA-Directed RNA Polymerases
13 Citations (Scopus)

Non-coding nucleotides and amino acids near the active site regulate peptide deformylase expression and inhibitor susceptibility in Chlamydia trachomatis

Bao, X., Pachikara, N. D., Oey, C. B., Balakrishnan, A., Westblade, L. F., Tan, M., Chase, T., Nickels, B. E. & Fan, H., Sep 1 2011, In : Microbiology. 157, 9, p. 2569-2581 13 p.

Research output: Contribution to journalArticle

peptide deformylase
Chlamydia trachomatis
Catalytic Domain
Nucleotides
Hydroxamic Acids
15 Citations (Scopus)

Photocatalytic oxygen evolution from non-potable water by a bioinspired molecular water oxidation catalyst

Brimblecombe, R., Chen, J., Wagner, P., Buchhorn, T., Dismukes, G., Spiccia, L. & Swiegers, G. F., Mar 16 2011, In : Journal of Molecular Catalysis A: Chemical. 338, 1-2, p. 1-6 6 p.

Research output: Contribution to journalArticle

Oxygen
catalysts
Oxidation
oxidation
Catalysts
134 Citations (Scopus)

Plastid biotechnology: Food, fuel, and medicine for the 21st century

Maliga, P. & Bock, R., Apr 1 2011, In : Plant physiology. 155, 4, p. 1501-1510 10 p.

Research output: Contribution to journalArticle

Molecular Farming
food biotechnology
molecular farming
Chloroplast Genome
Genetic Transformation
24 Citations (Scopus)

RanGTP is required for meiotic spindle organization and the initiation of embryonic development in Drosophila

Cesario, J. & McKim, K. S., Nov 15 2011, In : Journal of cell science. 124, 22, p. 3797-3810 14 p.

Research output: Contribution to journalArticle

Spindle Apparatus
Microtubules
Drosophila
Embryonic Development
Chromosomes
58 Citations (Scopus)

Regulated antisense transcription controls expression of cell-type-specific genes in yeast

Gelfand, B., Mead, J., Bruning, A., Apostolopoulos, N., Tadigotla, V., Nagaraj, V., Sengupta, A. & Vershon, A., Apr 1 2011, In : Molecular and cellular biology. 31, 8, p. 1701-1709 9 p.

Research output: Contribution to journalArticle

Meiosis
Yeasts
Untranslated RNA
Genes
Haploidy
42 Citations (Scopus)

Regulation of Drosophila glial cell proliferation by Merlin-Hippo signaling

Reddy, B. V. V. G. & Irvine, K., Dec 1 2011, In : Development. 138, 23, p. 5201-5212 12 p.

Research output: Contribution to journalArticle

Neurofibromin 2
Neuroglia
Drosophila
Cell Proliferation
Cell Count
11 Citations (Scopus)

Regulation of gene expression in restriction-modification system Eco29kI

Nagornykh, M., Zakharova, M., Protsenko, A., Bogdanova, E., Solonin, A. S. & Severinov, K., Jun 1 2011, In : Nucleic acids research. 39, 11, p. 4653-4663 11 p.

Research output: Contribution to journalArticle

DNA Restriction-Modification Enzymes
Gene Expression Regulation
Methyltransferases
Genes
Overlapping Genes
146 Citations (Scopus)
Regeneration
Phosphotransferases
Cell Proliferation
Imaginal Discs
Apoptosis
3 Citations (Scopus)

Reprint of: Inhibition of Escherichia coli RNAp by T7 Gp2 protein: Role of Negatively Charged Strip of Amino Acid Residues in Gp2

Sheppard, C., Cámara, B., Shadrin, A., Akulenko, N., Liu, M., Baldwin, G., Severinov, K., Cota, E., Matthews, S. & Wigneshweraraj, S. R., Oct 7 2011, In : Journal of molecular biology. 412, 5, p. 832-841 10 p.

Research output: Contribution to journalArticle

DNA-Directed RNA Polymerases
Escherichia coli
Amino Acids
Proteins
Bacteriophage T7
26 Citations (Scopus)

Sperm status regulates sexual attraction in Caenorhabditis elegans

Morsci, N. S., Haas, L. A. & Barr, M. M., Dec 1 2011, In : Genetics. 189, 4, p. 1341-1346 6 p.

Research output: Contribution to journalArticle

Caenorhabditis elegans
Spermatozoa
Animal Sexual Behavior
Cues
Insemination
17 Citations (Scopus)

Structural basis for microcin C7 inactivation by the MccE acetyltransferase

Agarwal, V., Metlitskaya, A., Severinov, K. & Nair, S. K., Jun 17 2011, In : Journal of Biological Chemistry. 286, 24, p. 21295-21303 9 p.

Research output: Contribution to journalArticle

Acetyltransferases
Aspartate-tRNA Ligase
Nucleotidyltransferases
RNA Cap-Binding Proteins
Anti-Bacterial Agents
24 Citations (Scopus)

Synechococcus sp. strain PCC 7002 nifJ mutant lacking pyruvate:Ferredoxin oxidoreductase

McNeely, K., Xu, Y., Ananyev, G., Bennette, N., Bryant, D. A. & Dismukes, G., Apr 1 2011, In : Applied and environmental microbiology. 77, 7, p. 2435-2444 10 p.

Research output: Contribution to journalArticle

pyruvate synthase
Pyruvate Synthase
Synechococcus
NAD (coenzyme)
NAD
21 Citations (Scopus)

Temporal regulation of gene expression of the thermus thermophilus bacteriophage P23-45

Berdygulova, Z., Westblade, L. F., Florens, L., Koonin, E. V., Chait, B. T., Ramanculov, E., Washburn, M. P., Darst, S. A., Severinov, K. & Minakhin, L., Jan 7 2011, In : Journal of molecular biology. 405, 1, p. 125-142 18 p.

Research output: Contribution to journalArticle

Thermus thermophilus
Gene Expression Regulation
Bacteriophages
DNA-Directed RNA Polymerases
Rifampin
43 Citations (Scopus)

The antibacterial threaded-lasso peptide capistruin inhibits bacterial RNA polymerase

Kuznedelov, K., Semenova, E., Knappe, T. A., Mukhamedyarov, D., Srivastava, A., Chatterjee, S., Ebright, R., Marahiel, M. A. & Severinov, K., Oct 7 2011, In : Journal of molecular biology. 412, 5, p. 842-848 7 p.

Research output: Contribution to journalArticle

Bacterial RNA
DNA-Directed RNA Polymerases
Peptides
Burkholderia
Escherichia coli
92 Citations (Scopus)

The Initiation Factor TFE and the Elongation Factor Spt4/5 Compete for the RNAP Clamp during Transcription Initiation and Elongation

Grohmann, D., Nagy, J., Chakraborty, A., Klose, D., Fielden, D., Ebright, R., Michaelis, J. & Werner, F., Jul 22 2011, In : Molecular cell. 43, 2, p. 263-274 12 p.

Research output: Contribution to journalArticle

Peptide Elongation Factors
Peptide Initiation Factors
Polytetrafluoroethylene
DNA
Zinc
23 Citations (Scopus)

The maize high-lysine mutant opaque7 is defective in an Acyl-CoA synthetase-like protein

Miclaus, M., Wu, Y., Xu, J. H., Dooner, H. K. & Messing, J., Dec 1 2011, In : Genetics. 189, 4, p. 1271-1280 10 p.

Research output: Contribution to journalArticle

Coenzyme A Ligases
Lysine
Zea mays
Genes
Alleles
59 Citations (Scopus)

The tubulin deglutamylase CCPP-1 regulates the function and stability of sensory cilia in C. elegans

O'Hagan, R., Piasecki, B. P., Silva, M., Phirke, P., Nguyen, K. C. Q., Hall, D. H., Swoboda, P. & Barr, M. M., Oct 25 2011, In : Current Biology. 21, 20, p. 1685-1694 10 p.

Research output: Contribution to journalArticle

Cilia
cilia
Tubulin
tubulin
Kinesin
10 Citations (Scopus)

Visual spectinomycin resistance (aadAau) gene for facile identification of transplastomic sectors in tobacco leaves

Tungsuchat-Huang, T., Slivinski, K. M., Sinagawa-Garcia, S. R. & Maliga, P., Jul 1 2011, In : Plant Molecular Biology. 76, 3-5, p. 453-461 9 p.

Research output: Contribution to journalArticle

Spectinomycin
spectinomycin
Tobacco
tobacco
Genes
108 Citations (Scopus)

Zyxin links fat signaling to the hippo pathway

Rauskolb, C., Pan, G., Reddy, B. V. V. G., Oh, H. & Irvine, K. D., Jun 1 2011, In : PLoS biology. 9, 6, e1000624.

Research output: Contribution to journalArticle

Zyxin
warts
Warts
Fats
lipids
2010
101 Citations (Scopus)

Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution

Murat, F., Xu, J. H., Tannier, E., Abrouk, M., Guilhot, N., Pont, C., Messing, J. & Salse, J., Nov 1 2010, In : Genome research. 20, 11, p. 1545-1557 13 p.

Research output: Contribution to journalArticle

Poaceae
Karyotype
Chromosomes
Genome
Synteny
26 Citations (Scopus)

A tandem water-splitting device based on a bio-inspired manganese catalyst

Brimblecombe, R., Koo, A., Dismukes, G., Swiegers, G. F. & Spiccia, L., Jan 1 2010, In : ChemSusChem. 3, 10, p. 1146-1150 5 p.

Research output: Contribution to journalArticle

Manganese
manganese
catalyst
Catalysts
Water
37 Citations (Scopus)

Autoluminescent plants

Krichevsky, A., Meyers, B., Vainstein, A., Maliga, P. & Citovsky, V., Dec 9 2010, In : PloS one. 5, 11, e15461.

Research output: Contribution to journalArticle

Light emission
Gene expression
Bioluminescence
Machinery
Chloroplasts
18 Citations (Scopus)
phosphine
Azides
Fluorescence Spectrometry
Fluorescence spectroscopy
Biomolecules
14 Citations (Scopus)

Bicarbonate coordinates to Mn3+ during photo-assembly of the catalytic Mn4Ca core of photosynthetic water oxidation: EPR characterization

Dasgupta, J., Tyryshkin, A. M., Baranov, S. V. & Dismukes, G. C., Jan 1 2010, In : Applied Magnetic Resonance. 37, 1, p. 137-150 14 p.

Research output: Contribution to journalArticle

carbonates
electron paramagnetic resonance
assembly
oxidation
water
58 Citations (Scopus)

Boosting autofermentation rates and product yields with sodium stress cycling: Application to production of renewable fuels by cyanobacteria

Carrieri, D., Momot, D., Brasg, I. A., Ananyev, G., Lenz, O., Bryant, D. A. & Dismukes, G. C., Oct 1 2010, In : Applied and environmental microbiology. 76, 19, p. 6455-6462 8 p.

Research output: Contribution to journalArticle

Cyanobacteria
cyanobacterium
Sodium
sodium
carbohydrate
21 Citations (Scopus)

Caenorhabditis elegans SMA-10/lrig is a conserved transmembrane protein that enhances bone morphogenetic protein signaling

Gumienny, T. L., MacNeil, L., Zimmerman, C. M., Wang, H., Chin, L., Wrana, J. L. & Padgett, R., May 1 2010, In : PLoS genetics. 6, 5, 1 p.

Research output: Contribution to journalArticle

bone morphogenetic proteins
Bone Morphogenetic Proteins
transmembrane proteins
Caenorhabditis elegans
bone
33 Citations (Scopus)
crossing over
Meiosis
meiosis
Drosophila
Chromosome Structures
9 Citations (Scopus)

Determinants of affinity and activity of the anti-sigma factor AsiA

Gilmore, J. M., Bieber Urbauer, R. J., Minakhin, L., Akoyev, V., Zolkiewski, M., Severinov, K. & Urbauer, J. L., Jul 27 2010, In : Biochemistry. 49, 29, p. 6143-6154 12 p.

Research output: Contribution to journalArticle

Sigma Factor
Protein Subunits
Transcription
DNA-Directed RNA Polymerases
Bacteriophages
52 Citations (Scopus)

Direct detection of oxygen ligation to the Mn4Ca cluster of photosystem II by X-ray emission spectroscopy

Pushkar, Y., Long, X., Glatzel, P., Brudvig, G. W., Dismukes, G. C., Collins, T. J., Yachandra, V. K., Yano, J. & Bergmann, U., Jan 18 2010, In : Angewandte Chemie - International Edition. 49, 4, p. 800-803 4 p.

Research output: Contribution to journalArticle

Photosystem II Protein Complex
Ligands
Oxygen
Coordination Complexes
Biological systems
13 Citations (Scopus)

Divergence of gene regulation through chromosomal rearrangements

Goettel, W. & Messing, J., Nov 30 2010, In : BMC genomics. 11, 1, 678.

Research output: Contribution to journalArticle

Alleles
Genes
Gene Duplication
Pigmentation
Genetic Recombination
70 Citations (Scopus)

DNA barcoding of the Lemnaceae, a family of aquatic monocots.

Wang, W., Wu, Y., Yan, Y., Ermakova, M., Kerstetter, R. & Messing, J., Jan 1 2010, In : BMC plant biology. 10, 1 p.

Research output: Contribution to journalArticle

Araceae
DNA barcoding
Liliopsida
barcoding
plastids
14 Citations (Scopus)

Drosophila I-R hybrid dysgenesis is associated with catastrophic meiosis and abnormal zygote formation

Orsi, G. A., Joyce, E. F., Couble, P., McKim, K. S. & Loppin, B., Oct 15 2010, In : Journal of cell science. 123, 20, p. 3515-3524 10 p.

Research output: Contribution to journalArticle

Zygote
Meiosis
Infertility
Drosophila
Embryonic Structures
56 Citations (Scopus)

EHBP-1 functions with RAB-10 during endocytic recycling in Caenorhabditis elegans

Shi, A., Chen, C. C. H., Banerjee, R., Glodowski, D., Audhya, A., Rongo, C. & Grant, B. D., Aug 15 2010, In : Molecular Biology of the Cell. 21, 16, p. 2930-2943 14 p.

Research output: Contribution to journalArticle

Caenorhabditis elegans
Interneurons
Madin Darby Canine Kidney Cells
Membrane Transport Proteins
Endosomes
19 Citations (Scopus)

Functional specialization of sensory cilia by an RFX transcription factor isoform

Wang, J., Schwartz, H. T. & Barr, M. M., Dec 1 2010, In : Genetics. 186, 4, p. 1295-1307 13 p.

Research output: Contribution to journalArticle

Cilia
Protein Isoforms
Polycystic Kidney Diseases
Genes
Neurons
1111 Citations (Scopus)

Genome sequencing and analysis of the model grass Brachypodium distachyon

Vogel, J. P., Garvin, D. F., Mockler, T. C., Schmutz, J., Rokhsar, D., Bevan, M. W., Barry, K., Lucas, S., Harmon-Smith, M., Lail, K., Tice, H., Grimwood, J., McKenzie, N., Huo, N., Gu, Y. Q., Lazo, G. R., Anderson, O. D., You, F. M., Luo, M. C., Dvorak, J. & 117 others, Wright, J., Febrer, M., Idziak, D., Hasterok, R., Lindquist, E., Wang, M., Fox, S. E., Priest, H. D., Filichkin, S. A., Givan, S. A., Bryant, D. W., Chang, J. H., Wu, H., Wu, W., Hsia, A. P., Schnable, P. S., Kalyanaraman, A., Barbazuk, B., Michael, T. P., Hazen, S. P., Bragg, J. N., Laudencia-Chingcuanco, D., Weng, Y., Haberer, G., Spannagl, M., Mayer, K., Rattei, T., Mitros, T., Lee, S. J., Rose, J. K. C., Mueller, L. A., York, T. L., Wicker, T., Buchmann, J. P., Tanskanen, J., Schulman, A. H., Gundlach, H., Beven, M., Costa De Oliveira, A., Da C. Maia, L., Belknap, W., Jiang, N., Lai, J., Zhu, L., Ma, J., Sun, C., Pritham, E., Salse, J., Murat, F., Abrouk, M., Bruggmann, R., Messing, J., Fahlgren, N., Sullivan, C. M., Carrington, J. C., Chapman, E. J., May, G. D., Zhai, J., Ganssmann, M., Gurazada, S. G. R., German, M., Meyers, B. C., Green, P. J., Tyler, L., Wu, J., Thomson, J., Chen, S., Scheller, H. V., Harholt, J., Ulvskov, P., Kimbrel, J. A., Bartley, L. E., Cao, P., Jung, K. H., Sharma, M. K., Vega-Sanchez, M., Ronald, P., Dardick, C. D., De Bodt, S., Verelst, W., Inzé, D., Heese, M., Schnittger, A., Yang, X., Kalluri, U. C., Tuskan, G. A., Hua, Z., Vierstra, R. D., Cui, Y., Ouyang, S., Sun, Q., Liu, Z., Yilmaz, A., Grotewold, E., Sibout, R., Hematy, K., Mouille, G., Höfte, H., Micheel, T., Pelloux, J., O'Connor, D., Schnable, J., Rowe, S., Harmon, F., Cass, C. L., Sedbrook, J. C., Byrne, M. E., Walsh, S., Higgins, J., Li, P., Brutnell, T., Unver, T., Budak, H., Belcram, H., Charles, M., Chalhoub, B. & Baxter, I., Feb 11 2010, In : Nature. 463, 7282, p. 763-768 6 p.

Research output: Contribution to journalArticle

Brachypodium
Poaceae
Genome
Renewable Energy
Sorghum
48 Citations (Scopus)

Hematopoietic stem cells in Drosophila

Minakhina, S. & Steward, R., Jan 1 2010, In : Development. 137, 1, p. 27-31 5 p.

Research output: Contribution to journalArticle

Hematopoietic Stem Cells
Hemocytes
Drosophila
Lymph
Vertebrates
226 Citations (Scopus)

Increased lipid accumulation in the Chlamydomonas reinhardtii sta7-10 starchless isoamylase mutant and increased carbohydrate synthesis in complemented strains

Work, V. H., Radakovits, R., Jinkerson, R. E., Meuser, J. E., Elliott, L. G., Vinyard, D. J., Laurens, L. M. L., Dismukes, G. & Posewitz, M. C., Aug 1 2010, In : Eukaryotic Cell. 9, 8, p. 1251-1261 11 p.

Research output: Contribution to journalArticle

Isoamylase
Chlamydomonas reinhardtii
Starch
Carbohydrates
Lipids
104 Citations (Scopus)

Influence of Fat-Hippo and Notch signaling on the proliferation and differentiation of Drosophila optic neuroepithelia

Reddy, B. V. V. G., Rauskolb, C. & Irvine, K. D., Jul 15 2010, In : Development. 137, 14, p. 2397-2408 12 p.

Research output: Contribution to journalArticle

Neuroepithelial Cells
Drosophila
Fats
Cell Cycle Checkpoints
Cell Cycle
9 Citations (Scopus)

Isolation and in vitro activation of caenorhabditis elegans sperm

Singaravelu, G., Chatterjee, I., Marcello, M. R. & Singson, A., Jan 1 2010, In : Journal of Visualized Experiments. 47, e2336.

Research output: Contribution to journalArticle

Pronase
Caenorhabditis elegans
Spermatozoa
Chemical activation
HEPES
6 Citations (Scopus)

Large-scale identification and analysis of C-proteins.

Sorokin, V., Severinov, K. & Gelfand, M. S., 2010, In : Methods in molecular biology (Clifton, N.J.). 674, p. 269-282 14 p.

Research output: Contribution to journalArticle

Protein C
Binding Sites
DNA Restriction-Modification Enzymes
Computational Biology
Protein Binding
22 Citations (Scopus)

MccE Provides resistance to protein synthesis inhibitor microcin C by acetylating the processed form of the antibiotic

Novikova, M., Kazakov, T., Vondenhoff, G. H., Semenova, E., Rozenski, J., Metlytskaya, A., Zukher, I., Tikhonov, A., Van Aerschot, A. & Severinov, K., Apr 23 2010, In : Journal of Biological Chemistry. 285, 17, p. 12662-12669 8 p.

Research output: Contribution to journalArticle

Protein Synthesis Inhibitors
Anti-Bacterial Agents
Serine-tRNA Ligase
Aspartate-tRNA Ligase
Nucleotides
104 Citations (Scopus)

Modulation of Fat:Dachsous Binding by the Cadherin Domain Kinase Four-Jointed

Simon, M. A., Xu, A., Ishikawa, H. O. & Irvine, K. D., May 11 2010, In : Current Biology. 20, 9, p. 811-817 7 p.

Research output: Contribution to journalArticle

cadherins
Cadherins
phosphotransferases (kinases)
Phosphotransferases
Fats
100 Citations (Scopus)

Redirecting reductant flux into hydrogen production via metabolic engineering of fermentative carbon metabolism in a cyanobacterium

McNeely, K., Xu, Y., Bennette, N., Bryant, D. A. & Dismukes, G., Aug 1 2010, In : Applied and environmental microbiology. 76, 15, p. 5032-5038 7 p.

Research output: Contribution to journalArticle

Metabolic Engineering
hydrogen production
metabolic engineering
reducing agents
Reducing Agents
32 Citations (Scopus)

Regulation of genes affecting body size and innate immunity by the DBL-1/BMP-like pathway in Caenorhabditis elegans

Roberts, A. F., Gumienny, T. L., Gleason, R. J., Wang, H. & Padgett, R., Jun 9 2010, In : BMC Developmental Biology. 10, 61.

Research output: Contribution to journalArticle

Bone Morphogenetic Protein 1
Caenorhabditis elegans
Body Size
Innate Immunity
Bone Morphogenetic Proteins
7 Citations (Scopus)

Rescue of a dominant mutant with RNA interference

Wu, Y. & Messing, J., Dec 1 2010, In : Genetics. 186, 4, p. 1493-1496 4 p.

Research output: Contribution to journalArticle

RNA Interference
Phenotype
Zein
Zea mays
Seeds
12 Citations (Scopus)

Restriction-modification systems and bacteriophage invasion: Who wins?

Enikeeva, F. N., Severinov, K. & Gelfand, M. S., Oct 1 2010, In : Journal of Theoretical Biology. 266, 4, p. 550-559 10 p.

Research output: Contribution to journalArticle

DNA Restriction-Modification Enzymes
Bacteriophages
restriction endonucleases
Invasion
bacteriophages
61 Citations (Scopus)

RNA interference-mediated change in protein body morphology and seed opacity through loss of different zein proteins

Wu, Y. & Messing, J., May 1 2010, In : Plant physiology. 153, 1, p. 337-347 11 p.

Research output: Contribution to journalArticle

Zein
zein
protein bodies
opacity
RNA Interference
343 Citations (Scopus)

Solar driven water oxidation by a bioinspired manganese molecular catalyst

Brlmblecombe, R., Koo, A., Dismukes, G., Swlegers, G. F. & Spiccia, L., Mar 10 2010, In : Journal of the American Chemical Society. 132, 9, p. 2892-2894 3 p.

Research output: Contribution to journalArticle

Manganese
Photoelectrochemical cells
Oxidation
Catalysts
Photooxidation