SnapShot: Control of Flowering in Arabidopsis

Fornara, Fabio; Montaigu, Amaury de; Coupland, George

doi:10.1016/j.cell.2010.04.024

Cited by 580 publications

(573 citation statements)

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“…The transcription factor genes that are homologs of OsMADS1, OsMADS2, OsMADS3 and OsMADS14 in rice 30 were determined to be involved in floral meristem identity (FMI), which converts the vegetative meristem to a flowering fate. However, the genes employed in typical flowering promotion pathways (such as those in the photoperiod, gibberellins, ambient-temperature or lightquality pathways) and floral pathway integrator (FPI) genes 31,32 were not highly expressed in these floral tissues in bamboo. Repeat insertions were found in the genic or regulatory region of most homologs encoding CONSTANS (CO) 33 and FPI genes, which might result in low gene expression in floral tissues (Supplementary Tables 17 and 18).…”

Section: E T T E R Smentioning

confidence: 99%

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

et al. 2013

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l e t t e r sBamboo represents the only major lineage of grasses that is native to forests and is one of the most important nontimber forest products in the world. However, no species in the Bambusoideae subfamily has been sequenced. Here, we report a high-quality draft genome sequence of moso bamboo (P. heterocycla var. pubescens). The 2.05-Gb assembly covers 95% of the genomic region. Gene prediction modeling identified 31,987 genes, most of which are supported by cDNA and deep RNA sequencing data. Analyses of clustered gene families and gene collinearity show that bamboo underwent whole-genome duplication 7-12 million years ago. Identification of gene families that are key in cell wall biosynthesis suggests that the whole-genome duplication event generated more gene duplicates involved in bamboo shoot development. RNA sequencing analysis of bamboo flowering tissues suggests a potential connection between droughtresponsive and flowering genes.Bamboo is one of the most important non-timber forest products in the world. About 2.5 billion people depend economically on bamboo, and international trade in bamboo amounts to over 2.5 billion US dollars per year 1 . Bamboo has a rather striking life history, characterized by a prolonged vegetative phase lasting decades before flowering, thereby inhibiting genetic improvement. Recent genomic studies in bamboo have included genome-wide full-length cDNA sequencing 2 , chloroplast genome sequencing 3 , identification of syntenic genes between bamboo and other grasses 4 and phylogenetic analysis of Bambusoideae subspecies 5 . Fifty-nine simple sequence repeat markers from rice and sugarcane were used in the genetic diversity analyses of 23 bamboo species 6 , and 2 species-specific sequence-characterized amplified region markers were developed in the identification of different bamboo species 7 .Here, we report the draft genome of moso bamboo, a large woody bamboo that has ecological, economic and cultural value in Asia and accounts for ~70% of the total bamboo growth area. Comparative genome-wide analyses of bamboo to other grass species, including rice, maize and sorghum, yielded new genetic insights into the rapid and marked phenotypic and ecological divergence of bamboo and closely related grasses.The moso bamboo genome contains 24 pairs of chromosomes 8 (2n = 48) and is characteristic of a diploid (Supplementary Fig. 1a). We conducted a flow cytometry analysis and estimated that it had a genome size of 2.075 Gb (2C = 4.24 pg; Supplementary Fig. 1b), which was very close to that estimated in a previous report 9 .Because it is difficult to generate an inbred line of moso bamboo, owing to its infrequent sexual reproduction and the long periods of time between flowering intervals, we selected five plants from a single individual rhizome of the moso bamboo ecotype (P. heterocycla var. pubescens) and performed whole-genome shotgun sequencing. We generated 295 Gb of raw sequence data (approximately 147-fold coverage), including Illumina short reads and 10,327 pairs of BAC end ...

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Section: E T T E R Smentioning

confidence: 99%

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

et al. 2013

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“…Alterations in leaf morphology and branching are likely consequences of changes in auxin production and receptor expression (Willige et al, 2011). Effects on flowering and conversion to a perennial growth pattern were associated with changes in the expression of flowering and vernalization regulators (Fornara et al, 2010), including increased FLOWERING LOCUS C SUPPRESSOR OF OVEREXPRESSION OF CO1 (FLC) and decreased SUPPRESSOR OF OVEREXPRESSION OF CO1 (SOC1) expression (Fig. 5B), as well as increased miR156 and decreased miR172 levels (Fig.…”

Section: Msh1 Suppression Alters Numerous Plant Pathwaysmentioning

confidence: 99%

The Chloroplast Triggers Developmental Reprogramming When MUTS HOMOLOG1 Is Suppressed in Plants

Santamaria

Virdi

et al. 2012

Plant Physiology

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Multicellular eukaryotes demonstrate nongenetic, heritable phenotypic versatility in their adaptation to environmental changes. This inclusive inheritance is composed of interacting epigenetic, maternal, and environmental factors. Yet-unidentified maternal effects can have a pronounced influence on plant phenotypic adaptation to changing environmental conditions. To explore the control of phenotypy in higher plants, we examined the effect of a single plant nuclear gene on the expression and transmission of phenotypic variability in Arabidopsis (Arabidopsis thaliana). MutS HOMOLOG1 (MSH1) is a plant-specific nuclear gene product that functions in both mitochondria and plastids to maintain genome stability. RNA interference suppression of the gene elicits strikingly similar programmed changes in plant growth pattern in six different plant species, changes subsequently heritable independent of the RNA interference transgene. The altered phenotypes reflect multiple pathways that are known to participate in adaptation, including altered phytohormone effects for dwarfed growth and reduced internode elongation, enhanced branching, reduced stomatal density, altered leaf morphology, delayed flowering, and extended juvenility, with conversion to perennial growth pattern in short days. Some of these effects are partially reversed with the application of gibberellic acid. Genetic hemicomplementation experiments show that this phenotypic plasticity derives from changes in chloroplast state. Our results suggest that suppression of MSH1, which occurs under several forms of abiotic stress, triggers a plastidial response process that involves nongenetic inheritance.

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“…Nevertheless, several components of these complexes are evolutionarily conserved in plants, such as the SWI3 subunits (Sarnowski et al, 2005), the SNF5/BSH subunit (Brzeski et al, 1999), the nuclear actin-related protein ARP4 , BRAHMA (BRM), or SPLAYED (SYD). Both of these latter proteins are ATPases of Arabidopsis SWI/SNF complexes and have been shown to participate in the control of flower development and flowering time (Wagner and Meyerowitz, 2002;Farrona et al, 2004;Hurtado et al, 2006;Bezhani et al, 2007;Fornara et al, 2010;Wu, 2012). Likewise, the SWI3B protein interacts with the flowering regulator FCA (Sarnowski et al, 2005).…”

Section: Introductionmentioning

confidence: 99%

The BAF60 Subunit of the SWI/SNF Chromatin-Remodeling Complex Directly Controls the Formation of a Gene Loop at FLOWERING LOCUS C in Arabidopsis

et al. 2014

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SWI/SNF complexes mediate ATP-dependent chromatin remodeling to regulate gene expression. Many components of these complexes are evolutionarily conserved, and several subunits of Arabidopsis thaliana SWI/SNF complexes are involved in the control of flowering, a process that depends on the floral repressor FLOWERING LOCUS C (FLC). BAF60 is a SWI/SNF subunit, and in this work, we show that BAF60, via a direct targeting of the floral repressor FLC, induces a change at the highorder chromatin level and represses the photoperiod flowering pathway in Arabidopsis. BAF60 accumulates in the nucleus and controls the formation of the FLC gene loop by modulation of histone density, composition, and posttranslational modification. Physiological analysis of BAF60 RNA interference mutant lines allowed us to propose that this chromatinremodeling protein creates a repressive chromatin configuration at the FLC locus.

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SnapShot: Control of Flowering in Arabidopsis

Cited by 580 publications

References 10 publications

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla)

The Chloroplast Triggers Developmental Reprogramming When MUTS HOMOLOG1 Is Suppressed in Plants

The BAF60 Subunit of the SWI/SNF Chromatin-Remodeling Complex Directly Controls the Formation of a Gene Loop at FLOWERING LOCUS C in Arabidopsis

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