A Network of Local and Redundant Gene Regulation Governs Arabidopsis Seed Maturation

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A Network of Local and Redundant Gene Regulation Governs Arabidopsis Seed Maturation

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by François Parcy A

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249	Intrinsic noise in gene regulatory networks - Thattai, Oudenaarden - 2001
232	Gene regulatory networks for development - Levine, Davidson - 2005 (Show Context) Citation Context ...ation network presented in Figure 6A resembles modules that are known to drive developmental progression or patterning in other higher eukaryotes (Davidson et al., 2002, 2003; Rudel and Sommer, 2003; =-=Levine and Davidson, 2005-=-). The network analyzed here appears to function to ensure a uniform expression of essential regulators, such as ABI3 and FUS3, during the entirephase ofseedmaturation ina manner thatisindependent of ...
125	Noise in eukaryotic gene expression. - Blake, Kærn, et al. - 2003 (Show Context) Citation Context ... of intense studies, and theoretical analyses have predicted that small variations (or noise) can be stabilized as a result of bistability generated by the network (Thattai and van Oudenaarden, 2001; =-=Blake et al., 2003-=-; Seed Maturation Regulatory Network 1649 1.1-kb wild-type band 0.35-kb mutant band RsaI cuts the wild-type band twice and the mutant once Wild-type band 0.4 kb 0.6-kb mutant band 0.75-kb wild-type ba...
88	Gene regulatory network growth by duplication,” - Teichmann, Babu - 2004 (Show Context) Citation Context ...Finally, it would be interesting to understand when and how this regulatory network was first established over the course of plant evolution. A likely mechanism (Wagner, 2001; Amoutzias et al., 2004; =-=Teichmann and Babu, 2004-=-) for the generation of this complex regulatory network of B3 transcription factors could be the repeated duplication of an ancestral B3 gene with autoregulatorys1650 The Plant Cell properties, thereb...
77	Prediction and measurement of an autoregulatory genetic module. - Isaacs, Hasty, et al. - 2003 (Show Context) Citation Context ...atory Network 1649 1.1-kb wild-type band 0.35-kb mutant band RsaI cuts the wild-type band twice and the mutant once Wild-type band 0.4 kb 0.6-kb mutant band 0.75-kb wild-type band 0.52-kb mutant band =-=Isaacs et al., 2003-=-). Applying these principles to the situation analyzed here, we can propose the following explanation. In lec2 mutant embryo development, there might be a critical moment where ABI3 initial induction ...
64	The viviparous I developmental gene of maize encodes a novel transcriptional activator. - McCarty, Hattori, et al. - 1991 (Show Context) Citation Context ...orys1650 The Plant Cell properties, thereby generating three B3 transcription factors that regulate their own and each other’s expression. The existence of ABI3 orthologs in monocotyledonous species (=-=McCarty et al., 1991-=-), together with the recent discovery of FUS3 and LEC2 homologs in cereals (F. Parcy and J. Vicente-Carbajosa, unpublished data), suggests that this network may also function in cereal grains and that...
38	Regulatory gene networks and the properties of the developmental process. - Davidson, McClay, et al. - 2003
38	Isolation of the Arabidopsis ABI3 gene by positional cloning, - Giraudat - 1992 (Show Context) Citation Context ...ll.org) is: François Parcy (francois.parcy@cea.fr). Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.105.039925. served B3 DNA binding domain (=-=Giraudat et al., 1992-=-; Luerssen et al., 1998; Stone et al., 2001), whereas LEC1 encodes a CBF transcription factor (Lotan et al., 1998). All four abi3, lec1, lec2, and fus3 mutants are severely affected in seed maturation...
38	Regulation of gene expression programs during Arabidopsis seed development: roles of the ABI3 locus and of endogenous abscisic acid, - Parcy - 1994 (Show Context) Citation Context ...nt, lec2), an intolerance to desiccation (abi3, fus3, and lec1), or defects in cotyledon identity (lec1, fus3, and lec2) (Meinke, 1992; Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; =-=Parcy et al., 1994-=-, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; Raz et al., 2001; Stone et al., 2001; Kroj et al., 2003). Despite numerous studies, t...
33	FUSCA3 encodes a protein with a conserved VP1/AB13-like B3 domain which is of functional importance for the regulation of seed maturation in Arabidopsis thaliana. - Luerssen, Kirik, et al. - 1998 (Show Context) Citation Context ...rcy (francois.parcy@cea.fr). Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.105.039925. served B3 DNA binding domain (Giraudat et al., 1992; =-=Luerssen et al., 1998-=-; Stone et al., 2001), whereas LEC1 encodes a CBF transcription factor (Lotan et al., 1998). All four abi3, lec1, lec2, and fus3 mutants are severely affected in seed maturation and share some common ...
32	The transcription factor FUSCA3 controls developmental timing in Arabidopsis through the hormones gibberellin and abscisic acid. - Gazzarrini, Tsuchiya, et al. - 2004 (Show Context) Citation Context ...We concluded that our experimental conditions were not sufficient to detect the weak level of FUS3 expression. However, based on in situ hybridization (Tsuchiya et al., 2004), mutant complementation (=-=Gazzarrini et al., 2004-=-), and functional evidence (Kroj et al., 2003), FUS3 expression appears to be faithfully reproduced by the sensitive FUS3:GUS reporter. Furthermore, this construct offers the unique opportunity to mon...
24	LEAFY COTYLEDON2 encodes a B3 domain transcription factor that induces embryo development. - Stone, Kwong, et al. - 2001 (Show Context) Citation Context ....fr). Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.105.039925. served B3 DNA binding domain (Giraudat et al., 1992; Luerssen et al., 1998; =-=Stone et al., 2001-=-), whereas LEC1 encodes a CBF transcription factor (Lotan et al., 1998). All four abi3, lec1, lec2, and fus3 mutants are severely affected in seed maturation and share some common phenotypes, such as ...
23	The role of ABI3 and FUS3 loci in Arabidopsis thaliana on phase transition from late embyro development to germination. - Nambara, Hayama, et al. - 2000 (Show Context) Citation Context ... these genes interact to control the various facets of seed maturation remain poorly understood (Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; West et al., 1994; Parcy et al., 1997; =-=Nambara et al., 2000-=-; Vicient et al., 2000a; Raz et al., 2001). Since lec2, fus3, and abi3 single mutants have similar but distinct phenotypic traits, which are additive in double mutants, ABI3, LEC2, and FUS3 may work i...
23	Seed maturation: developing an intrusive phase to accomplish a quiescent state - Vicente-Carbajosa, Carbonero - 2005
22	A homeotic mutant of Arabidopsis thaliana with leafy cotyledons, - Meinke - 1992 (Show Context) Citation Context ...nt, lec1), the accumulation of anthocyanins (fus3, lec1, and, to a lesser extent, lec2), an intolerance to desiccation (abi3, fus3, and lec1), or defects in cotyledon identity (lec1, fus3, and lec2) (=-=Meinke, 1992-=-; Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; R...
22	Birth and death of duplicated genes in completely sequenced eukaryotes. Trends Genet - Wagner - 2001 (Show Context) Citation Context ... point will require further analysis. Finally, it would be interesting to understand when and how this regulatory network was first established over the course of plant evolution. A likely mechanism (=-=Wagner, 2001-=-; Amoutzias et al., 2004; Teichmann and Babu, 2004) for the generation of this complex regulatory network of B3 transcription factors could be the repeated duplication of an ancestral B3 gene with aut...
22	LEAFY COTYLEDON1 is an essential regulator of late embryogenesis and cotyledon identity in Arabidopsis, - West - 1994 (Show Context) Citation Context ...to desiccation (abi3, fus3, and lec1), or defects in cotyledon identity (lec1, fus3, and lec2) (Meinke, 1992; Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; =-=West et al., 1994-=-; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; Raz et al., 2001; Stone et al., 2001; Kroj et al., 2003). Despite numerous studies, the mechanisms through whi...
19	Plant embryogenesis: Zygote to seed. - Goldberg, Paiva, et al. - 1994
16	Regulation and role of the Arabidopsis abscisic acid-insensitive 5 gene in abscisic acid, sugar, and stress response. Plant Physiol - Brocard, Lynch, et al. - 2002 (Show Context) Citation Context ...owing that LEC2 and LEC1 can induce FUS3 expression in vegetative tissues (Kagaya et al., 2005; Santos Mendoza et al., 2005) and that FUS3 expression is reduced in whole-seed mRNA of the lec1 mutant (=-=Brocard et al., 2002-=-; Kagaya et al., 2005). We also showed that ABI3 expression is controlled by LEC1, LEC2, FUS3, and by ABI3 itself in the developing cotyledons. The decreased ABI3 expression in fus3 lec2 and fus3 abi3...
16	RJ: The evolution of developmental mechanisms - Rudel, Sommer (Show Context) Citation Context ...l Predictions? The maturation network presented in Figure 6A resembles modules that are known to drive developmental progression or patterning in other higher eukaryotes (Davidson et al., 2002, 2003; =-=Rudel and Sommer, 2003-=-; Levine and Davidson, 2005). The network analyzed here appears to function to ensure a uniform expression of essential regulators, such as ABI3 and FUS3, during the entirephase ofseedmaturation ina m...
15	The Fus3 gene of Arabidopsis thaliana is a regulator of gene expression during late embryogenesis - Baumlein, Misera, et al. - 1994 (Show Context) Citation Context ... accumulation of anthocyanins (fus3, lec1, and, to a lesser extent, lec2), an intolerance to desiccation (abi3, fus3, and lec1), or defects in cotyledon identity (lec1, fus3, and lec2) (Meinke, 1992; =-=Bäumlein et al., 1994-=-; Keith et al., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; Raz et al., 2001; Stone ...
15	LEAFY COTYLEDON1 controls seed storage protein genes through its regulation - Kagaya, Toyoshima, et al. - 2005 (Show Context) Citation Context ...tween ABI3 and FUS3 but without elucidating their molecular nature (Parcy et al., 1997; Nambara et al., 2000; Vicient et al., 2000a). Recently, LEC1 was shown to regulate expression of ABI3 and FUS3 (=-=Kagaya et al., 2005-=-). Also, FUS3 and LEC2 were shown to act in a partially redundant manner to control SSP gene expression, and LEC2 was shown to locally regulate FUS3 expression in regions of the cotyledons (Kroj et al...
13	Synergistic activation of seed storage protein gene expression in Arabidopsis by ABI3 and two bZIPs related to OPAQUE2 - Lara, Onate-Sanchez, et al. - 2003 (Show Context) Citation Context ...and to establish FUS3 autoregulation. ABI3 Expression Is Regulated by LEC2, ABI3,andFUS3 We also investigated ABI3 expression using the ABI3:GUS construct. As previously reported (Parcy et al., 1994; =-=Lara et al., 2003-=-), ABI3 expression was detected throughout the embryo axis and cotyledons in wild-type seeds (Figure 1B). The root meristem staining was usually weak. In the lec2 mutant, the ABI3 expression pattern w...
11	Genes directly regulated by LEAFY COTYLEDON2 provide insight into the control of embryo maturation and somatic embryogenesis - Braybrook, Stone, et al. - 2006 (Show Context) Citation Context ...s not act only via ABI3 or FUS3. Several complementary studies have shown that LEC2 is capable of activating directly 12S and 2S storage protein genes (Kroj et al., 2003; Santos Mendoza et al., 2005; =-=Braybrook et al., 2006-=-). It is thus likely that, in wild-type plants, LEC2 controls SSP gene expression through two different mechanisms: directly, by binding the SSP promoter, and indirectly, by activating FUS3 and ABI3 a...
11	Regulation of storage protein gene expression in Arabidopsis - Kroj, Savino, et al. - 2003 (Show Context) Citation Context ..., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; Raz et al., 2001; Stone et al., 2001; =-=Kroj et al., 2003-=-). Despite numerous studies, the mechanisms through which these genes interact to control the various facets of seed maturation remain poorly understood (Bäumlein et al., 1994; Keith et al., 1994; Mei...
11	Sequential steps for developmental arrest - Raz, Bergervoet, et al. - 2001 (Show Context) Citation Context ...2; Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; =-=Raz et al., 2001-=-; Stone et al., 2001; Kroj et al., 2003). Despite numerous studies, the mechanisms through which these genes interact to control the various facets of seed maturation remain poorly understood (Bäumlei...
11	The FUS3 transcription factor functions through the epidermal regulator TTG1 during embryogenesis in Arabidopsis - Tsuchiya, Nambara, et al. - 2004 (Show Context) Citation Context ...lination [DAP]) (Figure 1A). As demonstrated previously, FUS3 expression is detectable throughout the various parts of the wild-type embryo (root tip, embryo axis, and cotyledons) (Kroj et al., 2003; =-=Tsuchiya et al., 2004-=-). It was recently shown that this expression mainly originates from the protoderm of the embryo (Tsuchiya et al., 2004). Introduction of the FUS3:GUS reporter transgene in abi3, fus3, and abi3 fus3 m...
7	Changes in gene expression - Vicient, Bies-Etheve, et al. - 2000 (Show Context) Citation Context ... and lec2) (Meinke, 1992; Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; =-=Vicient et al., 2000-=-a; Raz et al., 2001; Stone et al., 2001; Kroj et al., 2003). Despite numerous studies, the mechanisms through which these genes interact to control the various facets of seed maturation remain poorly ...
6	LEAFY COTYLEDON 2 activation is sufficient to trigger the accumulation of oil and seed specific mRNAs in Arabidopsis leaves - Mendoza, Dubreucq, et al. - 2005 (Show Context) Citation Context ...ulates FUS3 expression in cotyledons. Our data are consistent with recently published analyses showing that LEC2 and LEC1 can induce FUS3 expression in vegetative tissues (Kagaya et al., 2005; Santos =-=Mendoza et al., 2005-=-) and that FUS3 expression is reduced in whole-seed mRNA of the lec1 mutant (Brocard et al., 2002; Kagaya et al., 2005). We also showed that ABI3 expression is controlled by LEC1, LEC2, FUS3, and by A...
4	fusca3: aheterochronic mutation affecting late embryo development in Arabidopsis. Plant Cell 6 - Keith, Kraml, et al. - 1994 (Show Context) Citation Context ...yanins (fus3, lec1, and, to a lesser extent, lec2), an intolerance to desiccation (abi3, fus3, and lec1), or defects in cotyledon identity (lec1, fus3, and lec2) (Meinke, 1992; Bäumlein et al., 1994; =-=Keith et al., 1994-=-; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; Nambara et al., 1995; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; Raz et al., 2001; Stone et al., 2001; Kroj e...
4	The evolution and biological significance of seeds. - Steeves - 1983 (Show Context) Citation Context ...lar explanation for the puzzling variable features of lec2 mutant embryos. INTRODUCTION The conquest of most terrestrial niches by land plants has been greatly facilitated by the appearance of seeds (=-=Steeves, 1983-=-). Seeds offer plants a unique opportunity to interrupt their life cycle by withstanding adverse environmental conditions in a desiccated state and then resuming growth using endogenous storage compou...
3	Convergent networks by single-gene duplications in higher eukaryotes - Amoutzias, Robertson, et al. - 2004 (Show Context) Citation Context ...quire further analysis. Finally, it would be interesting to understand when and how this regulatory network was first established over the course of plant evolution. A likely mechanism (Wagner, 2001; =-=Amoutzias et al., 2004-=-; Teichmann and Babu, 2004) for the generation of this complex regulatory network of B3 transcription factors could be the repeated duplication of an ancestral B3 gene with autoregulatorys1650 The Pla...
1	A regulatory Seed Maturation Regulatory Network 1651 role for the ABI3 gene in the establishment of embryo maturation in Arabidopsis thaliana - Nambara, Keith, et al. - 1995 (Show Context) Citation Context ...3, fus3, and lec1), or defects in cotyledon identity (lec1, fus3, and lec2) (Meinke, 1992; Bäumlein et al., 1994; Keith et al., 1994; Meinke et al., 1994; Parcy et al., 1994, 1997; West et al., 1994; =-=Nambara et al., 1995-=-; Lotan et al., 1998; Luerssen et al., 1998; Vicient et al., 2000a; Raz et al., 2001; Stone et al., 2001; Kroj et al., 2003). Despite numerous studies, the mechanisms through which these genes interac...