Sample Preparation of Arabidopsis thaliana Shoot Apices for Expression Studies of Photoperiod-Induced Genes

The plant hormone auxin controls many aspects of development and acts in part by inducing expression of various genes. Arabidopsis thaliana semidominant shy2 (short hypocotyl) mutations cause leaf formation in dark-grown plants, suggesting that SHY2 has an important role in regulating development. Here we show that the SHY2 gene encodes IAA3, a previously known member of the Aux/IAA family of auxin-induced genes. Dominant shy2 mutations cause amino acid changes in domain II, conserved among all members of this family. We isolated loss-of-function shy2 alleles including a putative null mutation. Gain-of-function and loss-of-function shy2 mutations affect auxin-dependent root growth, lateral root formation, and timing of gravitropism, indicating that SHY2/IAA3 regulates multiple auxin responses in roots. The phenotypes suggest that SHY2/IAA3 may activate some auxin responses and repress others. Models invoking tissue-specificity, feedback regulation, or control of auxin transport may explain these results.

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The use of isotope-coded affinity tags (ICAT) to study organelle proteomes in Arabidopsis thaliana

Biochemical Society Transactions ◽

10.1042/bst0320520 ◽

2004 ◽

Vol 32 (3) ◽

pp. 520-523 ◽

Cited By ~ 38

Author(s):

T.P.J. Dunkley ◽

P. Dupree ◽

R.B. Watson ◽

K.S. Lilley

Keyword(s):

Arabidopsis Thaliana ◽

Sample Preparation ◽

Quantitative Proteomics ◽

Endomembrane System ◽

Specific Component ◽

Affinity Tags ◽

Subcellular Compartment

Organelle proteomics is the analysis of the protein contents of a subcellular compartment. Proteins identified in subcellular proteomic studies can only be assigned to an organelle if there are no contaminants present in the sample preparation. As a result, the majority of plant organelle proteomic studies have focused on the chloroplast and mitochondria, which can be isolated relatively easily. However, the isolation of components of the endomembrane system is far more difficult due to their similar sizes and densities. For this reason, quantitative proteomics methods are being developed to enable the assignment of proteins to a specific component of the endomembrane system without the need to obtain pure organelles.

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Sample Preparation for Phosphoproteomic Analysis of Circadian Time Series in Arabidopsis thaliana

Circadian Rhythms and Biological Clocks, Part A - Methods in Enzymology ◽

10.1016/bs.mie.2014.10.022 ◽

2015 ◽

pp. 405-431 ◽

Cited By ~ 5

Author(s):

Johanna Krahmer ◽

Matthew M. Hindle ◽

Sarah F. Martin ◽

Thierry Le Bihan ◽

Andrew J. Millar

Keyword(s):

Time Series ◽

Arabidopsis Thaliana ◽

Sample Preparation ◽

Circadian Time

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Phytotransformation of 2,4-Dinitrotoluene in Arabidopsis thaliana: Toxicity, Fate, and Gene Expression Studies in Vitro

Biotechnology Progress ◽

10.1021/bp0601443 ◽

2006 ◽

Vol 22 (6) ◽

pp. 1524-1531 ◽

Cited By ~ 2

Author(s):

J.M. Yoon ◽

D.J. Oliver ◽

J.V. Shanks

Keyword(s):

Gene Expression ◽

Arabidopsis Thaliana ◽

Expression Studies ◽

Gene Expression Studies

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cDNA array analysis of mercury- and ozone-induced genes in Arabidopsis thaliana

Acta Physiologiae Plantarum ◽

10.1007/s11738-005-0035-1 ◽

2005 ◽

Vol 27 (1) ◽

pp. 45-51 ◽

Cited By ~ 5

Author(s):

Bernd Heidenreich ◽

Georg Haberer ◽

Klaus Mayer ◽

Heinrich Sandermann ◽

Ernst Dieter

Keyword(s):

Arabidopsis Thaliana ◽

Cdna Array ◽

Array Analysis ◽

Induced Genes

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In silico analysis of promoter regions from cold-induced genes in rice (Oryza sativa L.) and Arabidopsis thaliana reveals the importance of combinatorial control

Bioinformatics ◽

10.1093/bioinformatics/btp172 ◽

2009 ◽

Vol 25 (11) ◽

pp. 1345-1348 ◽

Cited By ~ 19

Author(s):

Angelica Lindlöf ◽

Marcus Bräutigam ◽

Aakash Chawade ◽

Olof Olsson ◽

Björn Olsson

Keyword(s):

Arabidopsis Thaliana ◽

Oryza Sativa ◽

In Silico ◽

Oryza Sativa L ◽

In Silico Analysis ◽

Promoter Regions ◽

Combinatorial Control ◽

Induced Genes ◽

Silico Analysis

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Differential expression analysis of boron transporters and some stress-related genes in response to 24-epibrassinolide and boron by semi-quantitative RT-PCR in Arabidopsis thaliana (L.) Heynh

Genetika ◽

10.2298/gensr1602547s ◽

2016 ◽

Vol 48 (2) ◽

pp. 547-563 ◽

Cited By ~ 4

Author(s):

Yonca Surgun ◽

Bekir Çöl ◽

Betül Bürün

Keyword(s):

Arabidopsis Thaliana ◽

Stress Responses ◽

Differential Expression Analysis ◽

Transcriptional Level ◽

Rt Pcr ◽

Model Plant Arabidopsis Thaliana ◽

Induced Genes ◽

High Concentrations ◽

Stress Related Genes ◽

Root Tissues

Plant steroidal hormones, brassinosteroids (BRs), promote plant developmental processes and enhance tolerance to several abiotic stresses including high boron (B) stress. To examine the possible role of BR in high B-induced stress at the transcriptional level, we investigated the response of B transporter genes (BOR1-4), high B-induced genes (MATE, Hsp-like), BR-induced genes (Hsp70-4, Hsp90-1) and other stress-related genes (LTI/COR78, LEA4-5) upon exogenous treatments of 24-epibrassinolide (EBL) on Arabidopsis thaliana (L.) Heynh exposed to high concentrations of boric acid (BA) using semi-quantitative RT-PCR. BA treatments led to down regulation of BOR1 and BOR3 genes in leaf and root tissues and higher concentration of EBL further decreased expression of these genes in roots. The expression of high B-induced genes was observed to be upregulated by 1 ?M EBL treatment under high B stress in both tissues of the seedlings. The upregulation of BR-induced genes were clearly evident in root tissues co-treated with 1 ?M EBL and BA as compared to BA alone. Higher concentration of EBL was found to be more effective in increasing expression of LTI/COR78 gene in root and LEA4-5 gene in shoot tissues. To our knowledge, this is the first report how exogenous application of EBL modulates high B stress responses at molecular level in model plant Arabidopsis thaliana.

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