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Research Output 2006 2019

2019

Directions for research and training in plant omics: Big Questions and Big Data

Argueso, C. T., Assmann, S. M., Birnbaum, K. D., Chen, S., Dinneny, J. R., Doherty, C. J., Eveland, A. L., Friesner, J., Greenlee, V. R., Law, J. A., Marshall-Colón, A., Mason, G. A., O'Lexy, R., Peck, S. C., Schmitz, R. J., Song, L., Stern, D., Varagona, M. J., Walley, J. W. & Williams, C. M., Apr 2019, In : Plant Direct. 3, 4, e00133.

Research output: Contribution to journalArticle

Open Access
training (plants)
Education
plant biology
Research
Arabidopsis
Computer Simulation
Computing Methodologies
DNA Shuffling
Genome
Technology

Plant Networks as Traits and Hypotheses: Moving Beyond Description

Marshall-Colón, A. & Kliebenstein, D. J., Sep 2019, In : Trends in Plant Science. 24, 9, p. 840-852 13 p.

Research output: Contribution to journalReview article

Biological Sciences
organisms
phenotype
gene interaction
linkage (genetics)

WRKY1 Mediates Transcriptional Regulation of Light and Nitrogen Signaling Pathways

Heerah, S., Katari, M., Penjor, R., Coruzzi, G. & Marshall-Colon, A., Nov 1 2019, In : Plant physiology. 181, 3, p. 1371-1388 18 p.

Research output: Contribution to journalArticle

Open Access
Nitrogen
Light
nitrogen
metabolism
Arabidopsis
2018

Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants

Varala, K., Marshall-Colón, A., Cirrone, J., Brooks, M. D., Pasquino, A. V., Léran, S., Mittal, S., Rock, T. M., Edwards, M. B., Kim, G. J., Ruffel, S., Richard McCombie, W., Shasha, D. & Coruzzi, G. M., Jun 19 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 25, p. 6494-6499 6 p.

Research output: Contribution to journalArticle

Nitrogen
Gene Regulatory Networks
Transcription Factors
Genes
Genome
Food Supply
Technology
Agriculture
Climate
Research Personnel
2017

Crops in silico: Generating virtual crops using an integrative and multi-scale modeling platform

Marshall-Colon, A., Long, S. P., Allen, D. K., Allen, G. D., Beard, D. A., Benes, B., Von Caemmerer, S., Christensen, A. J., Cox, D. J., Hart, J. C., Hirst, P. M., Kannan, K., Katz, D. S., Lynch, J. P., Millar, A. J., Panneerselvam, B., Price, N. D., Prusinkiewicz, P., Raila, D., Shekar, R. G. & 9 others, Shrivastava, S., Shukla, D., Srinivasan, V., Stitt, M., Turk, M. J., Voit, E. O., Wang, Y., Yin, X. & Zhu, X. G., May 15 2017, In : Frontiers in Plant Science. 8, 786.

Research output: Contribution to journalArticle

crops
engineering
ecosystems
plant biology
climate models

Tyrosine-610 in the receptor kinase BAK1 does not play a major role in brassinosteroid signaling or innate immunity

Singh, V., Perraki, A., Kim, S. Y., Shrivastava, S., Lee, J. H., Zhao, Y., Schwessinger, B., Oh, M. H., Marshall-Colon, A., Zipfel, C. & Huber, S. C., Aug 2 2017, In : Frontiers in Plant Science. 8, 1273.

Research output: Contribution to journalArticle

brassinosteroids
tyrosine
phosphotransferases (kinases)
receptors
flagellin
2015

AtNIGT1/HRS1 integrates nitrate and phosphate signals at the Arabidopsis root tip

Medici, A., Marshall-Colon, A., Ronzier, E., Szponarski, W., Wang, R., Gojon, A., Crawford, N. M., Ruffel, S., Coruzzi, G. M. & Krouk, G., Feb 27 2015, In : Nature communications. 6, 6274.

Research output: Contribution to journalArticle

Meristem
Arabidopsis
Nitrates
Global Atmospheric Research Program
nitrates

Hit-and-Run leaves its mark: Catalyst transcription factors and chromatin modification

Varala, K., Li, Y., Marshall-Colón, A., Para, A. & Coruzzi, G. M., Aug 1 2015, In : BioEssays. 37, 8, p. 851-856 6 p.

Research output: Contribution to journalArticle

Chromatin
Transcription Factors
Catalysts
Genes
Transcription

Meeting the global food demand of the future by engineering crop photosynthesis and yield potential

Long, S. P., Marshall-Colon, A. & Zhu, X. G., Mar 26 2015, In : Cell. 161, 1, p. 56-66 11 p., 8102.

Research output: Contribution to journalReview article

Genetic Engineering
Photosynthesis
Computer Simulation
Crops
Food
2014

Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis

Para, A., Li, Y., Marshall-Coloń, A., Varala, K., Francoeur, N. J., Moran, T. M., Edwards, M. B., Hackley, C., Bargmann, B. O. R., Birnbaum, K. D., Richard McCombie, W., Krouk, G. & Coruzzi, G. M., Jul 15 2014, In : Proceedings of the National Academy of Sciences of the United States of America. 111, 28, p. 10371-10376 6 p.

Research output: Contribution to journalArticle

Leucine Zippers
Arabidopsis
Transcription Factors
Food
Gene Regulatory Networks

Simulating labeling to estimate kinetic parameters for flux control analysis

Marshall-Colon, A., Sengupta, N., Rhodes, D. & Morgan, J. A., 2014, Plant Metabolic Flux Analysis: Methods and Protocols. Humana Press Inc., p. 211-222 12 p. (Methods in Molecular Biology; vol. 1090).

Research output: Chapter in Book/Report/Conference proceedingChapter

Petunia
Information Services
Enzymes
2013

Gene regulatory networks in plants: Learning causality from time and perturbation

Krouk, G., Lingeman, J., Marshall-Colon, A., Coruzzi, G. & Shasha, D., Jun 27 2013, In : Genome biology. 14, 6, 123.

Research output: Contribution to journalArticle

Systems Biology
Gene Regulatory Networks
Causality
learning
perturbation

TARGET: A transient transformation system for genome-wide transcription factor target discovery

Bargmann, B. O. R., Marshall-Colon, A., Efroni, I., Ruffel, S., Birnbaum, K. D., Coruzzi, G. M. & Krouk, G., May 2013, In : Molecular Plant. 6, 3, p. 978-980 3 p.

Research output: Contribution to journalLetter

Transcription Factors
transcription factors
Genome
genome
2010

A kinetic model describes metabolic response to perturbations and distribution of flux control in the benzenoid network of Petunia hybrida

Colón, A. M., Sengupta, N., Rhodes, D., Dudareva, N. & Morgan, J., Apr 1 2010, In : Plant Journal. 62, 1, p. 64-76 13 p.

Research output: Contribution to journalArticle

Petunia
Petunia hybrida
Phenylalanine
kinetics
phenylalanine
2009

Application of dynamic flux analysis in plant metabolic networks

Marshall-Colon, A., Morgan, J. A., Dudareva, N. & Rhodes, D., Jan 1 2009, Plant Metabolic Networks. Springer New York, p. 285-305 21 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Metabolic Flux Analysis
Metabolic Networks and Pathways
biochemical pathways
metabolites
enzyme stability
2006

Reduction of benzenoid synthesis in petunia flowers reveals multiple pathways to benzoic acid and enhancement in auxin transport

Orlova, I., Marshall-Colón, A., Schnepp, J., Wood, B., Varbanova, M., Fridman, E., Blakeslee, J. J., Peer, W. A., Murphy, A. S., Rhodes, D., Pichersky, E. & Dudareva, N., Dec 1 2006, In : Plant Cell. 18, 12, p. 3458-3475 18 p.

Research output: Contribution to journalArticle

Petunia
Indoleacetic Acids
Benzoic Acid
benzoic acid
auxins