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Transcriptomic analysis of Col and arf7 responding to auxin in hypocotyl

ABSTRACT: The goal of this study is to clarify the function of ARF7 in the pathway of auxin inducing the process responding to gravity in hypocotyl. We isolated total RNA from the hypocotyls of 4-day-old Col-0 and arf7 seedlings that were grown in the darkness. New genes act downstream of ARF7 after responding to auxin treatment, responding to gravity, are discovered.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE136635 | GEO | 2019/08/30

REPOSITORIES: GEO

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Transcriptomic analysis of Col and arf7 responding to auxin in hypocotyl

Project description:Transcriptomic analysis of Col and arf7 responding to auxin in hypocotyl

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Transcriptomic analysis of Col and arf7 responding to auxin

Project description:The goal of this study is to clarify the function of ARF7 in the pathway of auxin inducing lateral root development. We isolated total RNA from the roots of 8-day-old Col-0 and arf7 seedlings. New genes act downstream of ARF7 after responding to auxin treatment, during the lateral root formation, are discovered.

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Auxin mediated gene expression in WT, arf7, arf19 and arf7 arf19 mutants

Project description:RNA samples were extracted from liquid cultured seedlings treated with or without auxin (5ÂµM IAA) for 2 h. Lines used for this study: Columbia wild-type nph4-1(arf7) single mutant arf19-1 single mutant nph4-1 arf19-1 double mutant Treatment: Control (EtOH) Auxin treated (5ÂµM IAA) Keywords = Auxin Keywords = Auxin response factor Keywords: parallel sample

2010-06-09 | E-GEOD-627 | biostudies-arrayexpress

Auxin mediated gene expression in WT, arf7, arf19 and arf7 arf19 mutants

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Profiling primary and secondary targets of ARF7 and ARF19 in Arabidopsis thaliana roots

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Auxin signaling in the epidermis regulates stem growth via interactions with the brassinosteroid pathway

Project description:Growth of a complex multicellular organism requires coordinated changes in diverse cell types. These cellular changes generate organs of the correct size, shape and functionality. During plant development, the growth hormone auxin induces stem elongation; however, which cell types of the stem perceive the auxin signal and contribute to organ growth is poorly understood. Here, we show that auxin signalling is required in many cell types for correct hypocotyl stem growth, with a key role for the epidermis. Combining genetic manipulations in Arabidopsis thaliana with transcriptional profiling of the hypocotyl epidermis from Brassica rapa, we show that auxin functions in the epidermis in part by inducing activity of the locally-acting, growth-promoting brassinosteroid pathway. Our findings clarify cell-specific auxin function in the hypocotyl, and highlight the complexity of cell-type interactions within a growing organ. We performed whole-genome transcriptome (mRNA-Seq) on 5 d-old W light-grown Arabidopsis thaliana plants (CER6pro>>axr3-1::mCit experimental plants and UAS::axr3-1::mCit hemizygous control plants; whole-seedling tissue) treated for 4 h W light or low R:FR shade. In addition, we performed mRNA-Seq on 4 d-old Brassica rapa plants (FPsc strain) treated for 9 h W light or shade. Brassica tissues collected were hypocotyl epidermal peels or whole hypocotyls.

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The epidermis coordinates thermoresponsive growth through the phyB-PIF4-auxin pathway

Project description:In plants, an elevation in ambient temperature induces morphological changes including elongation hypocotyls, considered to be adaptive responses to alleviate the heat-induced damages. The high temperature-induced morphological changes are called thermomorphogenesis, which is predominantly regulated by a bHLH transcription factor PIF4. Although PIF4 is expressed in all aerial tissues including the epidermis, mesophyll, and vascular bundle, its tissue-specific functions in thermomorphogenesis are not known. Here, we found that epidermis-specific expression of PIF4 induced constitutive long hypocotyls, while vasculature-specific expression of PIF4 had no effect on hypocotyl growth. Consistently, RNA-Seq and qRT-PCR analyses revealed that auxin responsive genes and growth-related genes were highly activated by epidermal, but not by vascular, PIF4. The epidermal, but not vascular, inactivation of PIF4 by a PIF4 artificial microRNA or a dominant negative form of PIF4 suppressed thermoresponsive gene expression and hypocotyl growth. Additionally, both the block of epidermal auxin signaling and the epidermal overexpression of a thermosensor phytochrome B (phyB) inhibited thermoresponsive growth, indicating that epidermal PIF4-auxin pathway are essential for the temperature responses. We further show that epidermal PIF4 is increased by high temperatures mainly through the transcriptional activation of PIF4. Taken together, our study demonstrates that the epidermis regulates thermoresponsive growth through the phyB-PIF4-auxin pathway.

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2022-08-08 | GSE174655 | GEO

Hypocotyl and cotyledon transcriptome in Arabidopsis thaliana treated with 1 ppm ethylene and shade (low PAR, low blue and low R:FR)

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2016-06-10 | E-GEOD-83212 | biostudies-arrayexpress

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