LAZY1 controls rice shoot gravitropism through regulating polar auxin transport

Li, Peijin; Wang, Yonghong; Qian, Qian; Fu, Zhiming; Wang, Mei; Zeng, Dali; Li, Baohua; Wang, Xiu‐Jie; Li, Jiayang

doi:10.1038/cr.2007.38

Cited by 302 publications

(345 citation statements)

References 55 publications

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“…LAZY1 is a member of the IGT protein family 27 and regulates tiller orientation in rice and maize as well as inflorescence branch angle in Arabidopsis [28][29][30] . It is thought to influence gravitropism through regulation of auxin transport and signaling [28][29][30] . Lateral organs in maize lazy1 mutants fail to grow vertically, giving rise to a phenotype similar to that observed in 'Youngii' .…”

Section: 6mentioning

confidence: 99%

Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

Salojärvi¹,

Smolander²,

Nieminen³

et al. 2017

Nat Genet

228

253

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Forest ecosystems maintain a large share of Northern Hemisphere biodiversity. Boreal forests comprise roughly 30% of global forest area 1 and contain the highest tree density among climate zones 2 . Moreover, boreal regions are undergoing extensive climate change. Annual temperature increases exceeding 1.5 °C are projected to result in a warming of 4-11 °C by the end of this century, with little concomitant increase in precipitation 1 . At this pace, climate zones will shift northward at a greater speed than trees can migrate 3 . To understand how future populations of forest trees may respond to climate change, it is essential to uncover past and present signatures of molecular adaptation in their genomes. Silver birch, B. pendula, is a pioneer species in boreal forests of Eurasia. Flowering of the species can be artificially accelerated 4 , giving it an advantage over other tree species with published genome sequences (such as poplar 5 , spruce 6 , and pine 7 ) for the optimization of fiber and biomass production.Here we sequenced 150 birch individuals and assembled a B. pendula reference genome from a fourth-generation inbred line, resulting in a high-quality assembly of 435 Mb that was linked to chromosomes using a dense genetic map. We analyzed SNPs in the genomes of 80 birch individuals spanning most of the geographic range of B. pendula, as well as seven other members of Betulaceae. Population genomic analyses of these data provide insights into the deep-time evolution of the birch family and on recent natural selection acting on silver birch.Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch Silver birch (Betula pendula) is a pioneer boreal tree that can be induced to flower within 1 year. Its rapid life cycle, small (440-Mb) genome, and advanced germplasm resources make birch an attractive model for forest biotechnology. We assembled and chromosomally anchored the nuclear genome of an inbred B. pendula individual. Gene duplicates from the paleohexaploid event were enriched for transcriptional regulation, whereas tandem duplicates were overrepresented by environmental responses. Population resequencing of 80 individuals showed effective population size crashes at major points of climatic upheaval. Selective sweeps were enriched among polyploid duplicates encoding key developmental and physiological triggering functions, suggesting that local adaptation has tuned the timing of and cross-talk between fundamental plant processes. Variation around the tightlylinked light response genes PHYC and FRS10 correlated with latitude and longitude and temperature, and with precipitation for PHYC. Similar associations characterized the growth-promoting cytokinin response regulator ARR1, and the wood development genes KAK and MED5A.A full list of affiliations appears at the end of the paper.

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Section: 6mentioning

confidence: 99%

Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

Salojärvi¹,

Smolander²,

Nieminen³

et al. 2017

Nat Genet

228

253

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“…S2D) confirms the accuracy of the transcriptome analysis. Genes GRAS19 (Chen et al, 2013), LAZY1 (Li et al, 2007), CYP51G3 (Xia et al, 2015), and GSR1 ) present high expression levels at the lamina joint, validating their roles in lamina joint development. In addition, genes involved in the biosynthesis and signaling of BR and auxin, which have been implicated in important roles in the leaf angle, present diverse expression patterns, including decreased expression (CYP51G3 and CYCU4:1), increased expression (DLT [Tong et al, 2009] and GRAS19 and GH3-2 [Tong et al, 2012]), constant high expression levels (LIC and LAZY1 [Zhang et al, 2012]), and constant low expression levels (ILI1 [Zhang et al, 2009a] and REL1 [Chen et al, 2015a]), suggesting the complex regulation of leaf angles via different pathways.…”

Section: Cytological Observation Reveals the Distinct Characteristicsmentioning

confidence: 97%

Dynamic Cytology and Transcriptional Regulation of Rice Lamina Joint Development

2017

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Rice (Oryza sativa) leaf angle is determined by lamina joint and is an important agricultural trait determining leaf erectness and, hence, the photosynthesis efficiency and grain yield. Genetic studies reveal a complex regulatory network of lamina joint development; however, the morphological changes, cytological transitions, and underlying transcriptional programming remain to be elucidated. A systemic morphological and cytological study reveals a dynamic developmental process and suggests a common but distinct regulation of the lamina joint. Successive and sequential cell division and expansion, cell wall thickening, and programmed cell death at the adaxial or abaxial sides form the cytological basis of the lamina joint, and the increased leaf angle results from the asymmetric cell proliferation and elongation. Analysis of the gene expression profiles at four distinct developmental stages ranging from initiation to senescence showed that genes related to cell division and growth, hormone synthesis and signaling, transcription (transcription factors), and protein phosphorylation (protein kinases) exhibit distinct spatiotemporal patterns during lamina joint development. Phytohormones play crucial roles by promoting cell differentiation and growth at early stages or regulating the maturation and senescence at later stages, which is consistent with the quantitative analysis of hormones at different stages. Further comparison with the gene expression profile of leaf inclination1, a mutant with decreased auxin and increased leaf angle, indicates the coordinated effects of hormones in regulating lamina joint. These results reveal a dynamic cytology of rice lamina joint that is fine-regulated by multiple factors, providing informative clues for illustrating the regulatory mechanisms of leaf angle and plant architecture.

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“…Modification of plant architecture to create new elite cultivars is considered as a viable approach to increasing grain yield [1]. So far, numerous QTLs or genes controlling plant architecture have been cloned [2][3][4][5]. In the case of the 'Green Revolution', grain yields have been significantly increased by growing lodging-resistant semi-dwarf varieties of wheat and rice [6,7].…”

Section: Introductionmentioning

confidence: 99%

Rice DENSE AND ERECT PANICLE 2 is essential for determining panicle outgrowth and elongation

et al. 2010

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The architecture of the panicle, including grain size and panicle morphology, directly determines grain yield. Panicle erectness, which is selected for achieving ideal plant architecture in the northern part of China, has drawn increasing attention of rice breeders. Here, dense and erect panicle 2 (dep2) mutant, which shows a dense and erect panicle phenotype, was identified. DEP2 encodes a plant-specific protein without any known functional domain. Expression profiling of DEP2 revealed that it is highly expressed in young tissues, with most abundance in young panicles. Morphological and expression analysis indicated that mutation in DEP2 mainly affects the rapid elongation of rachis and primary and secondary branches, but does not impair the initiation or formation of panicle primordia. Further analysis suggests that decrease of panicle length in dep2 is caused by a defect in cell proliferation during the exponential elongation of panicle. Despite a more compact plant type in the dep2 mutant, no significant alteration in grain production was found between wild type and dep2 mutant. Therefore, the study of DEP2 not only strengthens our understanding of the molecular genetic basis of panicle architecture but also has important implications for rice breeding.

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LAZY1 controls rice shoot gravitropism through regulating polar auxin transport

Cited by 302 publications

References 55 publications

Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

Dynamic Cytology and Transcriptional Regulation of Rice Lamina Joint Development

Rice DENSE AND ERECT PANICLE 2 is essential for determining panicle outgrowth and elongation

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