Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon

Mönke G, Seifert M, Keilwagen J, Mohr M, Grosse I, Hähnel U, Junker A, Weisshaar B, Conrad U, Bäumlein H, Altschmied L (2012)
Nucleic Acids Research 40(17): 8240-8254.

Download
No fulltext has been uploaded. References only!
Journal Article | Original Article | Published | English

No fulltext has been uploaded

Author
; ; ; ; ; ; ; ; ; ;
Abstract / Notes
The plant-specific, B3 domain-containing transcription factor ABSCISIC ACID INSENSITIVE3 (ABI3) is an essential component of the regulatory network controlling the development and maturation of the Arabidopsis thaliana seed. Genome-wide chromatin immunoprecipitation (ChIP-chip), transcriptome analysis, quantitative reverse transcriptase-polymerase chain reaction and a transient promoter activation assay have been combined to identify a set of 98 ABI3 target genes. Most of these presumptive ABI3 targets require the presence of abscisic acid for their activation and are specifically expressed during seed maturation. ABI3 target promoters are enriched for G-box-like and RY-like elements. The general occurrence of these cis motifs in non-ABI3 target promoters suggests the existence of as yet unidentified regulatory signals, some of which may be associated with epigenetic control. Several members of the ABI3 regulon are also regulated by other transcription factors, including the seed-specific, B3 domain-containing FUS3 and LEC2. The data strengthen and extend the notion that ABI3 is essential for the protection of embryonic structures from desiccation and raise pertinent questions regarding the specificity of promoter recognition.
Publishing Year
ISSN
eISSN
PUB-ID

Cite this

Mönke G, Seifert M, Keilwagen J, et al. Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon. Nucleic Acids Research. 2012;40(17):8240-8254.
Mönke, G., Seifert, M., Keilwagen, J., Mohr, M., Grosse, I., Hähnel, U., Junker, A., et al. (2012). Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon. Nucleic Acids Research, 40(17), 8240-8254. doi:10.1093/nar/gks594
Mönke, G., Seifert, M., Keilwagen, J., Mohr, M., Grosse, I., Hähnel, U., Junker, A., Weisshaar, B., Conrad, U., Bäumlein, H., et al. (2012). Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon. Nucleic Acids Research 40, 8240-8254.
Mönke, G., et al., 2012. Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon. Nucleic Acids Research, 40(17), p 8240-8254.
G. Mönke, et al., “Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon”, Nucleic Acids Research, vol. 40, 2012, pp. 8240-8254.
Mönke, G., Seifert, M., Keilwagen, J., Mohr, M., Grosse, I., Hähnel, U., Junker, A., Weisshaar, B., Conrad, U., Bäumlein, H., Altschmied, L.: Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon. Nucleic Acids Research. 40, 8240-8254 (2012).
Mönke, Gudrun, Seifert, Michael, Keilwagen, Jens, Mohr, Michaela, Grosse, Ivo, Hähnel, Urs, Junker, Astrid, Weisshaar, Bernd, Conrad, Udo, Bäumlein, Helmut, and Altschmied, Lothar. “Toward the identification and regulation of the Arabidopsis thaliana ABI3 regulon”. Nucleic Acids Research 40.17 (2012): 8240-8254.
This data publication is cited in the following publications:
This publication cites the following data publications:

47 Citations in Europe PMC

Data provided by Europe PubMed Central.

Acquisition and loss of desiccation tolerance in seeds: from experimental model to biological relevance.
Dekkers BJ, Costa MC, Maia J, Bentsink L, Ligterink W, Hilhorst HW., Planta 241(3), 2015
PMID: 25567203
Regulation of FATTY ACID ELONGATION1 expression in embryonic and vascular tissues of Brassica napus.
Chiron H, Wilmer J, Lucas MO, Nesi N, Delseny M, Devic M, Roscoe TJ., Plant Mol Biol 88(1-2), 2015
PMID: 25795129
Genomic analysis and expression investigation of caleosin gene family in Arabidopsis.
Shen Y, Xie J, Liu RD, Ni XF, Wang XH, Li ZX, Zhang M., Biochem Biophys Res Commun 448(4), 2014
PMID: 24796675
Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis.
Para A, Li Y, Marshall-Colón A, Varala K, Francoeur NJ, Moran TM, Edwards MB, Hackley C, Bargmann BO, Birnbaum KD, McCombie WR, Krouk G, Coruzzi GM., Proc Natl Acad Sci U S A 111(28), 2014
PMID: 24958886
The functions of the endosperm during seed germination.
Yan D, Duermeyer L, Leoveanu C, Nambara E., Plant Cell Physiol 55(9), 2014
PMID: 24964910
Current perspectives on the hormonal control of seed development in Arabidopsis and maize: a focus on auxin.
Locascio A, Roig-Villanova I, Bernardi J, Varotto S., Front Plant Sci 5(), 2014
PMID: 25202316
Genomic dissection of the seed.
Becker MG, Hsu SW, Harada JJ, Belmonte MF., Front Plant Sci 5(), 2014
PMID: 25309563
ABI4: versatile activator and repressor.
Wind JJ, Peviani A, Snel B, Hanson J, Smeekens SC., Trends Plant Sci 18(3), 2013
PMID: 23182343
The transcription factor AtDOF4.2 regulates shoot branching and seed coat formation in Arabidopsis.
Zou HF, Zhang YQ, Wei W, Chen HW, Song QX, Liu YF, Zhao MY, Wang F, Zhang BC, Lin Q, Zhang WK, Ma B, Zhou YH, Zhang JS, Chen SY., Biochem J 449(2), 2013
PMID: 23095045
TARGET: a transient transformation system for genome-wide transcription factor target discovery.
Bargmann BO, Marshall-Colon A, Efroni I, Ruffel S, Birnbaum KD, Coruzzi GM, Krouk G., Mol Plant 6(3), 2013
PMID: 23335732
Seed-development programs: a systems biology-based comparison between dicots and monocots.
Sreenivasulu N, Wobus U., Annu Rev Plant Biol 64(), 2013
PMID: 23451786
Gene regulatory networks in plants: learning causality from time and perturbation.
Krouk G, Lingeman J, Colon AM, Coruzzi G, Shasha D., Genome Biol 14(6), 2013
PMID: 23805876
LegumeGRN: a gene regulatory network prediction server for functional and comparative studies.
Wang M, Verdier J, Benedito VA, Tang Y, Murray JD, Ge Y, Becker JD, Carvalho H, Rogers C, Udvardi M, He J., PLoS One 8(7), 2013
PMID: 23844010
MYB56 encoding a R2R3 MYB transcription factor regulates seed size in Arabidopsis thaliana.
Zhang Y, Liang W, Shi J, Xu J, Zhang D., J Integr Plant Biol 55(11), 2013
PMID: 23911125
LEA polypeptide profiling of recalcitrant and orthodox legume seeds reveals ABI3-regulated LEA protein abundance linked to desiccation tolerance.
Delahaie J, Hundertmark M, Bove J, Leprince O, Rogniaux H, Buitink J., J Exp Bot 64(14), 2013
PMID: 24043848
An emerging picture of the seed desiccome: confirmed regulators and newcomers identified using transcriptome comparison.
Terrasson E, Buitink J, Righetti K, Ly Vu B, Pelletier S, Zinsmeister J, Lalanne D, Leprince O., Front Plant Sci 4(), 2013
PMID: 24376450

96 References

Data provided by Europe PubMed Central.

Inventory, evolution and expression profiling diversity of the LEA (late embryogenesis abundant) protein gene family in Arabidopsis thaliana.
Bies-Etheve N, Gaubier-Comella P, Debures A, Lasserre E, Jobet E, Raynal M, Cooke R, Delseny M., Plant Mol. Biol. 67(1-2), 2008
PMID: 18265943
Gene duplication, exon gain and neofunctionalization of OEP16-related genes in land plants.
Drea SC, Lao NT, Wolfe KH, Kavanagh TA., Plant J. 46(5), 2006
PMID: 16709189
ABI3 mediates expression of the peroxiredoxin antioxidant AtPER1 gene and induction by oxidative stress.
Haslekas C, Grini PE, Nordgard SH, Thorstensen T, Viken MK, Nygaard V, Aalen RB., Plant Mol. Biol. 53(3), 2003
PMID: 14750521
A novel transcriptional cascade regulating expression of heat stress proteins during seed development of Arabidopsis.
Kotak S, Vierling E, Baumlein H, von Koskull-Doring P., Plant Cell 19(1), 2007
PMID: 17220197
The lateral organ boundaries gene defines a novel, plant-specific gene family.
Shuai B, Reynaga-Pena CG, Springer PS., Plant Physiol. 129(2), 2002
PMID: 12068116
Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
Riechmann JL, Heard J, Martin G, Reuber L, Jiang C, Keddie J, Adam L, Pineda O, Ratcliffe OJ, Samaha RR, Creelman R, Pilgrim M, Broun P, Zhang JZ, Ghandehari D, Sherman BK, Yu G., Science 290(5499), 2000
PMID: 11118137
A network of local and redundant gene regulation governs Arabidopsis seed maturation.
To A, Valon C, Savino G, Guilleminot J, Devic M, Giraudat J, Parcy F., Plant Cell 18(7), 2006
PMID: 16731585
Positional distribution of human transcription factor binding sites.
Koudritsky M, Domany E., Nucleic Acids Res. 36(21), 2008
PMID: 18953043
Post-translational regulation of plant bZIP factors.
Schutze K, Harter K, Chaban C., Trends Plant Sci. 13(5), 2008
PMID: 18424222
Arabidopsis basic leucine zipper transcription factors involved in an abscisic acid-dependent signal transduction pathway under drought and high-salinity conditions.
Uno Y, Furihata T, Abe H, Yoshida R, Shinozaki K, Yamaguchi-Shinozaki K., Proc. Natl. Acad. Sci. U.S.A. 97(21), 2000
PMID: 11005831
The RY/Sph element mediates transcriptional repression of maturation genes from late maturation to early seedling growth.
Guerriero G, Martin N, Golovko A, Sundstrom JF, Rask L, Ezcurra I., New Phytol. 184(3), 2009
PMID: 19659659
Regulators of PP2C phosphatase activity function as abscisic acid sensors.
Ma Y, Szostkiewicz I, Korte A, Moes D, Yang Y, Christmann A, Grill E., Science 324(5930), 2009
PMID: 19407143
Abscisic acid inhibits type 2C protein phosphatases via the PYR/PYL family of START proteins.
Park SY, Fung P, Nishimura N, Jensen DR, Fujii H, Zhao Y, Lumba S, Santiago J, Rodrigues A, Chow TF, Alfred SE, Bonetta D, Finkelstein R, Provart NJ, Desveaux D, Rodriguez PL, McCourt P, Zhu JK, Schroeder JI, Volkman BF, Cutler SR., Science 324(5930), 2009
PMID: 19407142
Mechanisms of transcription factor selectivity.
Pan Y, Tsai CJ, Ma B, Nussinov R., Trends Genet. 26(2), 2010
PMID: 20074831
Determinants and dynamics of genome accessibility.
Bell O, Tiwari VK, Thoma NH, Schubeler D., Nat. Rev. Genet. 12(8), 2011
PMID: 21747402
Integrative epigenomic mapping defines four main chromatin states in Arabidopsis.
Roudier F, Ahmed I, Berard C, Sarazin A, Mary-Huard T, Cortijo S, Bouyer D, Caillieux E, Duvernois-Berthet E, Al-Shikhley L, Giraut L, Despres B, Drevensek S, Barneche F, Derozier S, Brunaud V, Aubourg S, Schnittger A, Bowler C, Martin-Magniette ML, Robin S, Caboche M, Colot V., EMBO J. 30(10), 2011
PMID: 21487388

Export

0 Marked Publications

Open Data PUB

Web of Science

View record in Web of Science®

Sources

PMID: 22730287
PubMed | Europe PMC

Search this title in

Google Scholar