Scientific Commons: Joseph R. Ecker

Abscisic acid (ABA) signal transduction has been proposed to utilize cytosolic Ca2+ in guard cell ion channel regulation. However, genetic mutants in Ca2+ sensors that impair guard cell or plant ion...

Retroviral DNA Integration: Viral and Cellular Determinants of Target-Site Selection (2006)

Mary K. Lewinski, Masahiro Yamashita, Michael Emerman, Angela Ciuffi, Heather Marshall, Gregory Crawford, ...

Retroviruses differ in their preferences for sites for viral DNA integration in the chromosomes of infected cells. Human immunodeficiency virus (HIV) integrates preferentially within active...

ArabidopsisETO1 specifically interacts with and negatively regulates type 2 1-aminocyclopropane-1-carboxylate synthases (2005)

Yoshida, Hitoshi, Nagata, Masayasu, Saito, Koji, Wang, Kevin LC, Ecker, Joseph R

Abstract Background In Arabidopsis , ETO1 (ETHYLENE-OVERPRODUCER1) is a negative regulator of ethylene evolution by interacting with AtACS5, an isoform of the rate-limiting enzyme,...

FRIGIDA-Independent Variation in Flowering Time of Natural Arabidopsis thaliana Accessions (2005)

Werner,Jonathan D., Borevitz,Justin O., Uhlenhaut,N. Henriette, Ecker,Joseph R., Chory,Joanne, Weigel,Detlef

Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation (2005)

Werner,Jonathan D., Borevitz,Justin O., Warthmann,Norman, Trainer,Gabriel T., Ecker,Joseph R., Chory,Joanne, ...

Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation (2005)

Werner, Jonathan D., Borevitz, Justin O., Warthmann, Norman, Trainer, Gabriel T., Ecker, Joseph R., Chory, Joanne, ...

FRIGIDA-Independent Variation in Flowering Time of Natural Arabidopsis thaliana Accessions (2005)

Werner, Jonathan D., Borevitz, Justin O., Uhlenhaut, N. Henriette, Ecker, Joseph R., Chory, Joanne, Weigel, Detlef

Retroviral DNA Integration: ASLV, HIV, and MLV Show Distinct Target Site Preferences (2004)

Rick S. Mitchell, Brett F. Beitzel, Paul Shinn, Huaming Chen, Charles C. Berry, ...

Retroviruses have potential for gene therapy only if they do not activate endogenous genes. Of three tested retroviral vectors, ASLV showed no preference for integration into human transcription...

Retroviral DNA Integration: ASLV, HIV, and MLV Show Distinct Target Site Preferences (2004)

Rick S. Mitchell, Brett F. Beitzel, Paul Shinn, Huaming Chen, Charles C. Berry, ...

The completion of the human genome sequence has made possible genome-wide studies of retroviral DNA integration. Here we report an analysis of 3,127 integration site sequences from human cells. We...

Genome-wide insertional mutagenesis of Arabidopsis thaliana (2003)

Alonso,José M, Stepanova,Anna N., Leisse,Thomas J., Kim,Christopher J., Chen,Huaming, Shinn,Paul, ...

Genome-wide insertional mutagenesis of Arabidopsis thaliana (2003)

Alonso, José M, Stepanova, Anna N., Leisse, Thomas J., Kim, Christopher J., Chen, Huaming, Shinn, Paul, ...

Molecular cloning and structural determination of varicella-zoster virus DNA--by Joseph R. Ecker. (1982)

Ecker, Joseph R.

Thesis (Ph. D.)--Pennsylvania State University. The Milton S. Hershey Medical Center.

Signaling in plants

Mulligan, R. Michael, Chory, Joanne, Ecker, Joseph R.

Higher plants are sessile organisms that perceive environmental cues such as light and chemical signals and respond by changing their morphologies. Signaling pathways utilize a complex network of...

The β-Subunit of the Arabidopsis G Protein Negatively Regulates Auxin-Induced Cell Division and Affects Multiple Developmental ProcessesW⃞

Ullah, Hemayet, Chen, Jin-Gui, Temple, Brenda, Boyes, Douglas C., Alonso, José M., Davis, Keith R., ...

Plant cells respond to low concentrations of auxin by cell expansion, and at a slightly higher concentration, these cells divide. Previous work revealed that null mutants of the α-subunit of a...

Ethylene Biosynthesis and Signaling Networks

Wang, Kevin L.-C., Li, Hai, Ecker, Joseph R.

Five components of the ethylene-response pathway identified in a screen for weak ethylene-insensitive mutants in Arabidopsis

Alonso, Jose M., Stepanova, Anna N., Solano, Roberto, Wisman, Ellen, Ferrari, Simone, Ausubel, Frederick M., ...

Five ethylene-insensitive loci (wei1–wei5) were identified by using a low-dose screen for “weak” ethylene-insensitive mutants. wei1, wei2, and wei3 seedlings showed hormone insensitivity only...

NPSN11 Is a Cell Plate-Associated SNARE Protein That Interacts with the Syntaxin KNOLLE1

Zheng, Haiyan, Bednarek, Sebastian Y., Sanderfoot, Anton A., Alonso, Jose, Ecker, Joseph R., Raikhel, Natasha V.

SNAREs are important components of the vesicle trafficking machinery in eukaryotic cells. In plants, SNAREs have been found to play a variety of roles in the development and physiology of the whole...

A Reevaluation of the Role of the Heterotrimeric G Protein in Coupling Light Responses in Arabidopsis1

Jones, Alan M., Ecker, Joseph R., Chen, Jin-Gui

Previous studies implicated the involvement of a heterotrimeric G protein in red (R) and far-red (FR) light signal transduction, but these studies utilized pharmacological or gain-of-function...

Isolation and Characterization of phyC Mutants in Arabidopsis Reveals Complex Crosstalk between Phytochrome Signaling Pathways

Monte, Elena, Alonso, José M., Ecker, Joseph R., Zhang, Yuelin, Li, Xin, Young, Jeff, ...

Studies with mutants in four members of the five-membered Arabidopsis phytochrome (phy) family (phyA, phyB, phyD, and phyE) have revealed differential photosensory and/or physiological functions...

Trp-dependent auxin biosynthesis in Arabidopsis: involvement of cytochrome P450s CYP79B2 and CYP79B3

Zhao, Yunde, Hull, Anna K., Gupta, Neeru R., Goss, Kendrick A., Alonso, José, Ecker, Joseph R., ...

The plant hormone auxin regulates many aspects of plant growth and development. Although several auxin biosynthetic pathways have been proposed, none of these pathways has been precisely defined at...

Mutations in the Ca2+/H+ Transporter CAX1 Increase CBF/DREB1 Expression and the Cold-Acclimation Response in Arabidopsis

Catalá, Rafael, Santos, Elisa, Alonso, José M., Ecker, Joseph R., Martínez-Zapater, José M., Salinas, Julio

Transient increases in cytosolic free calcium concentration ([Ca2+]cyt) are essential for plant responses to a variety of environmental stimuli, including low temperature. Subsequent reestablishment...

A Growth Regulatory Loop That Provides Homeostasis to Phytochrome A SignalingW⃞

Lariguet, Patricia, Boccalandro, Hernan E., Alonso, José M., Ecker, Joseph R., Chory, Joanne, Casal, Jorge J., ...

Phytochrome kinase substrate1 (PKS1) is a cytoplasmic protein that interacts physically with, and is phosphorylated by, the plant photoreceptor phytochrome. Here, we show that light transiently...

Plant defense genes are regulated by ethylene

Ecker, Joseph R., Davis, Ronald W.

One of the earliest detectable events during plant-pathogen interaction is a rapid increase in ethylene biosynthesis. This gaseous plant stress hormone may be a signal for plants to activate defense...

Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1

Solano, Roberto, Stepanova, Anna, Chao, Qimin, Ecker, Joseph R.

Response to the gaseous plant hormone ethylene in Arabidopsis requires the EIN3/EIL family of nuclear proteins. The biochemical function(s) of EIN3/EIL proteins, however, has remained unknown. In...

CBF2/DREB1C is a negative regulator of CBF1/DREB1B and CBF3/DREB1A expression and plays a central role in stress tolerance in Arabidopsis

Novillo, Fernando, Alonso, José M., Ecker, Joseph R., Salinas, Julio

CBF/DREB1 (C-repeat-binding factor/dehydration responsive element-binding factor 1) genes encode a small family of transcriptional activators that have been described as playing an important role in...

Type-A Arabidopsis Response Regulators Are Partially Redundant Negative Regulators of Cytokinin SignalingW⃞

To, Jennifer P.C., Haberer, Georg, Ferreira, Fernando J., Deruère, Jean, Mason, Michael G., Schaller, G. Eric, ...

Type-A Arabidopsis (Arabidopsis thaliana) response regulators (ARRs) are a family of 10 genes that are rapidly induced by cytokinin and are highly similar to bacterial two-component response...

Inhibition of gene expression in plant cells by expression of antisense RNA

Ecker, Joseph R., Davis, Ronald W.

Due to the paucity of mutations in biochemical pathways in plants, an alternative approach to classical genetics was tested by expressing antisense RNA in plant cells. A series of plasmids was...

Retroviral DNA Integration: ASLV, HIV, and MLV Show Distinct Target Site Preferences

Mitchell, Rick S, Beitzel, Brett F, Schroder, Astrid R. W, Shinn, Paul, Chen, Huaming, Berry, Charles C, ...

The completion of the human genome sequence has made possible genome-wide studies of retroviral DNA integration. Here we report an analysis of 3,127 integration site sequences from human cells. We...

GCR1 Can Act Independently of Heterotrimeric G-Protein in Response to Brassinosteroids and Gibberellins in Arabidopsis Seed Germination1[w]

Chen, Jin-Gui, Pandey, Sona, Huang, Jirong, Alonso, José M., Ecker, Joseph R., Assmann, Sarah M., ...

Signal recognition by seven-transmembrane (7TM) cell-surface receptors is typically coupled by heterotrimeric G-proteins to downstream effectors in metazoan, fungal, and amoeboid cells. Some...

DELLA Proteins and Gibberellin-Regulated Seed Germination and Floral Development in Arabidopsis1[w]

Tyler, Ludmila, Thomas, Stephen G., Hu, Jianhong, Dill, Alyssa, Alonso, Jose M., Ecker, Joseph R., ...

RGA (repressor of ga1-3) and GAI (gibberellin insensitive) are negative regulators of plant hormone gibberellin (GA) signaling in Arabidopsis. The GA-deficient mutant ga1-3 is a nongerminating,...

Regulation of flowering time in Arabidopsis by K homology domain proteins

Mockler, Todd C., Yu, Xuhong, Shalitin, Dror, Parikh, Dhavan, Michael, Todd P., Liou, Jasmine, ...

The transition from vegetative growth to reproductive development in Arabidopsis is regulated by multiple floral induction pathways, including the photoperiodic, the autonomous, the vernalization,...

The Central Role of PhEIN2 in Ethylene Responses throughout Plant Development in Petunia1

Shibuya, Kenichi, Barry, Kristin G., Ciardi, Joseph A., Loucas, Holly M., Underwood, Beverly A., Nourizadeh, Saeid, ...

The plant hormone ethylene regulates many aspects of growth and development. Loss-of-function mutations in ETHYLENE INSENSITIVE2 (EIN2) result in ethylene insensitivity in Arabidopsis, indicating an...

Short-Term Growth Responses to Ethylene in Arabidopsis Seedlings Are EIN3/EIL1 Independent1

Binder, Brad M., Mortimore, Laura A., Stepanova, Anna N., Ecker, Joseph R., Bleecker, Anthony B.

Kinetic studies indicate there are two phases to growth inhibition by ethylene for the hypocotyls of etiolated Arabidopsis seedlings. Phase I is transient, while phase II results in sustained growth...

The phytochrome-interacting transcription factor, PIF3, acts early, selectively, and positively in light-induced chloroplast development

Monte, Elena, Tepperman, James M., Al-Sady, Bassem, Kaczorowski, Karen A., Alonso, Jose M., Ecker, Joseph R., ...

The phytochrome (phy) family of sensory photoreceptors transduce informational light signals to selected nuclear genes, inducing plant growth and developmental responses appropriate to the...

Reentry of the Ethylene MPK6 Module

Ecker, Joseph R.

Class III Homeodomain-Leucine Zipper Gene Family Members Have Overlapping, Antagonistic, and Distinct Roles in Arabidopsis DevelopmentW⃞

Prigge, Michael J., Otsuga, Denichiro, Alonso, José M., Ecker, Joseph R., Drews, Gary N., Clark, Steven E.

The Arabidopsis thaliana genome contains five class III homeodomain-leucine zipper genes. We have isolated loss-of-function alleles for each family member for use in genetic analysis. This gene...

Functional Genomic Analysis of the AUXIN RESPONSE FACTOR Gene Family Members in Arabidopsis thaliana: Unique and Overlapping Functions of ARF7 and ARF19W⃞

Okushima, Yoko, Overvoorde, Paul J., Arima, Kazunari, Alonso, Jose M., Chan, April, Chang, Charlie, ...

The AUXIN RESPONSE FACTOR (ARF) gene family products, together with the AUXIN/INDOLE-3-ACETIC ACID proteins, regulate auxin-mediated transcriptional activation/repression. The biological function(s)...

Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation

Werner, Jonathan D., Borevitz, Justin O., Warthmann, Norman, Trainer, Gabriel T., Ecker, Joseph R., Chory, Joanne, ...

Much of the flowering time variation in wild strains of Arabidopsis thaliana is due to allelic variation at two epistatically acting loci, FRIGIDA (FRI) and FLOWERING LOCUS C (FLC). FLC encodes a...

Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues

Zhang, Xinmin, Odom, Duncan T., Koo, Seung-Hoi, Conkright, Michael D., Canettieri, Gianluca, Best, Jennifer, ...

Hormones and nutrients often induce genetic programs via signaling pathways that interface with gene-specific activators. Activation of the cAMP pathway, for example, stimulates cellular gene...

LUX ARRHYTHMO encodes a Myb domain protein essential for circadian rhythms

Hazen, Samuel P., Schultz, Thomas F., Pruneda-Paz, Jose L., Borevitz, Justin O., Ecker, Joseph R., Kay, Steve A.

In higher plants, the circadian clock orchestrates fundamental processes such as light signaling and the transition to flowering. We isolated mutants of the circadian clock from an Arabidopsis...

Arabidopsis ETO1 specifically interacts with and negatively regulates type 2 1-aminocyclopropane-1-carboxylate synthases

Yoshida, Hitoshi, Nagata, Masayasu, Saito, Koji, Wang, Kevin LC, Ecker, Joseph R

Rapid Array Mapping of Circadian Clock and Developmental Mutations in Arabidopsis1

Hazen, Samuel P., Borevitz, Justin O., Harmon, Frank G., Pruneda-Paz, Jose L., Schultz, Thomas F., Yanovsky, Marcelo J., ...

Classical forward genetics, the identification of genes responsible for mutant phenotypes, remains an important part of functional characterization of the genome. With the advent of extensive genome...

Retroviral DNA Integration: Viral and Cellular Determinants of Target-Site Selection

Lewinski, Mary K, Yamashita, Masahiro, Emerman, Michael, Ciuffi, Angela, Marshall, Heather, Crawford, Gregory, ...

Retroviruses differ in their preferences for sites for viral DNA integration in the chromosomes of infected cells. Human immunodeficiency virus (HIV) integrates preferentially within active...

FRIGIDA-Independent Variation in Flowering Time of Natural Arabidopsis thaliana Accessions

Werner, Jonathan D., Borevitz, Justin O., Uhlenhaut, N. Henriette, Ecker, Joseph R., Chory, Joanne, Weigel, Detlef

FRIGIDA (FRI) and FLOWERING LOCUS C (FLC) are two genes that, unless plants are vernalized, greatly delay flowering time in Arabidopsis thaliana. Natural loss-of-function mutations in FRI cause the...

Three redundant brassinosteroid early response genes encode putative bHLH transcription factors required for normal growth.

Friedrichsen, Danielle M, Nemhauser, Jennifer, Muramitsu, Takamichi, Maloof, Julin N, Alonso, José, Ecker, Joseph R, ...

Brassinosteroids (BRs) are a class of polyhydroxylated steroids that are important regulators of plant growth and development. We have identified three closely related basic helix-loop-helix (bHLH)...

Light-response quantitative trait loci identified with composite interval and eXtreme array mapping in Arabidopsis thaliana.

Wolyn, David J, Borevitz, Justin O, Loudet, Olivier, Schwartz, Chris, Maloof, Julin, Ecker, Joseph R, ...

Genetic analysis of natural variation in ecotypes of Arabidopsis thaliana can facilitate the discovery of new genes or of allelic variants of previously identified genes controlling physiological...

CDPKs CPK6 and CPK3 Function in ABA Regulation of Guard Cell S-Type Anion- and Ca2+- Permeable Channels and Stomatal Closure

Mori, Izumi C, Murata, Yoshiyuki, Yang, Yingzhen, Munemasa, Shintaro, Wang, Yong-Fei, Andreoli, Shannon, ...