A direct interaction of the Arabidopsis thaliana immunophilin ROF1 with phosphatidylinositol-3-phosphate and phosphatidylinositol-3,5-bisphosphate was identified using a phosphatidylinositol-phosphate affinity chromatography of cell suspension extracts, combined with a mass spectrometry (nano LC ESI-MS/MS) analysis. The first FK506 binding domain was shown sufficient to bind to both phosphatidy...

Title of Thesis: TIME SERIES TRANSCRIPTIONAL PROFILING ANALYSIS OF THE Arabidopsis thaliana USING FULL GENOME DNA MICROARRAY AND METABOLIC INFORMATION. Bhaskar Dutta, Master of Science, 2004 Thesis Directed By: Dr. Maria Klapa, Assistant Professor Department of Chemical Engineering Dr. John Quackenbush, Investigator The Institute for Genomic Research With the advent of the DNA microarray techno...

Basic helix-loop-helix (bHLH) transcription factors represent a family of proteins that contain a bHLH domain, a motif involved in binding DNA. Recently, two groups independently analyzed the BHLH gene family of Arabidopsis thaliana (Heim et al., 2003; Toledo-Ortiz et al., 2003). These analyses revealed that this family is one of the largest transcription factor gene families in Arabidopsis tha...

Evolution of chromosome complements can be resolved by genome sequencing, comparative genetic mapping, and comparative chromosome painting. Previously, comparison of genetic maps and gene-based phylogenies suggested that the karyotypes of Arabidopsis thaliana (n = 5) and of related species with six or seven chromosome pairs were derived from an ancestral karyotype with eight chromosome pairs. T...

Abstract Plants synthesize specialized metabolites to facilitate environmental and ecological interactions. During evolution, plants diversified in their potential these metabolites. Quantitative differences metabolite levels of natural Arabidopsis (Arabidopsis thaliana) accessions can be employed unravel the genetic basis for metabolic traits using genome-wide association studies (GWAS). Here,...

Since the sequencing of the nuclear genome of Arabidopsis thaliana ten years ago, various large-scale analyses of gene function have been performed in this model species. In particular, the availability of collections of lines harbouring random T-DNA or transposon insertions, which include mutants for almost all of the ~27,000 A. thaliana genes, has been crucial for the success of forward and r...

Following the identification of the male (S-locus Cysteine Rich/S-locus Protein 11) and female (S Receptor kinase [SRK]) factors controlling self-incompatibility in the Brassicaceae, research in this field has focused on understanding the nature of the cellular responses activated by these regulators. We previously identified the ARM Repeat Containing1 (ARC1) E3 ligase as a component of the SRK...

Small RNAs, including microRNAs (miRNAs), small interfering RNAs (siRNAs), and trans-acting siRNAs (tasiRNAs), control gene expression and epigenetic regulation. Although the roles of miRNAs and siRNAs have been extensively studied, their expression diversity and evolution in closely related species and interspecific hybrids are poorly understood. Here, we show comprehensive analyses of miRNA e...

Abstract In plants high affinity transport proteins mediate the essential of ammonium across membranes. Arabidopsis thaliana six these AMmonium Transporters (AMTs) are encoded by genome. All them show a unique expression pattern. While most AMTs highly expressed in root, AtAMT1;4 is limited to pollen grains and tube. Here, we addressed characteristics heterologous Xenopus laevis oocytes system....

A combination of forward and reverse genetic approaches together with transcriptome-scale gene expression analyses have allowed the elaboration of a model for the Arabidopsis thaliana circadian clock. The working model largely conforms to the expected negative feedback loop model that has emerged from studies in other model systems. Although a core loop has emerged, it is clear that additional ...