Comparative transcriptomic and proteomic profiling reveals molecular models of light signal regulation of shade tolerance in bowl lotus (Nelumbo nucifera)

Shade Avoidance: Expanding the Color and Hormone Palette

(2021) Guadalupe L. Fernández-Milmanda et al.   TRENDS IN PLANT SCIENCE

Comparative transcriptome analyses for metribuzin tolerance provide insights into key genes and mechanisms restoring photosynthetic efficiency in bread wheat (Triticum aestivum L.)

(2021) Roopali Bhoite et al.   GENOMICS

Phytochrome-interacting factors interact with transcription factor CONSTANS to suppress flowering in rose

(2021) Jingjing Sun et al.   PLANT PHYSIOLOGY

Photobiology: light signal transduction and photomorphogenesis

(2020) Hongtao Liu et al.   Journal of Integrative Plant Biology

Light-induced HY5 functions as a systemic signal to coordinate the photoprotective response to light fluctuation

(2020) Xiaochun Jiang et al.   PLANT PHYSIOLOGY

HY5-COP1: the central module of light signaling pathway

(2020) Akanksha Bhatnagar et al.   JOURNAL OF PLANT BIOCHEMISTRY AND BIOTECHNOLOGY

Recalculating growth and defense strategies under competition: Key roles of photoreceptors and jasmonates

(2019) Carlos L Ballaré et al.   JOURNAL OF EXPERIMENTAL BOTANY

Transcriptome analysis of shade avoidance and shade tolerance in conifers

(2019) Sonali Sachin Ranade et al.   PLANTA

Identification of key genes and regulators associated with carotenoid metabolism in apricot (Prunus armeniaca) fruit using weighted gene coexpression network analysis

(2019) Lina Zhang et al.   BMC GENOMICS

COP1 and BBXs‐HY5‐mediated light signal transduction in plants

(2019) Dongqing Xu   NEW PHYTOLOGIST

Photoreceptor-mediated regulation of the COP1/SPA E3 ubiquitin ligase

(2018) Roman Podolec et al.   CURRENT OPINION IN PLANT BIOLOGY

Transcriptomic analysis of bagging-treated ‘Pingguo’ pear shows that MYB4-like1, MYB4-like2, MYB1R1 and WDR involved in anthocyanin biosynthesis are up-regulated in fruit peels in response to light

(2018) Bingyan Liu et al.   SCIENTIA HORTICULTURAE

Hormonal Regulation in Shade Avoidance

(2017) Chuanwei Yang et al.   Frontiers in Plant Science

Identification of Submergence-Responsive MicroRNAs and Their Targets Reveals Complex MiRNA-Mediated Regulatory Networks in Lotus (Nelumbo nucifera Gaertn)

(2017) Qijiang Jin et al.   Frontiers in Plant Science

RNA-seq studies using wheat PHYTOCHROME B and PHYTOCHROME C mutants reveal shared and specific functions in the regulation of flowering and shade-avoidance pathways

(2016) Stephen Pearce et al.   BMC PLANT BIOLOGY

Cryptochromes Interact Directly with PIFs to Control Plant Growth in Limiting Blue Light

(2016) Ullas V. Pedmale et al.   CELL

Photoreceptor crosstalk in shade avoidance

(2016) Donald P Fraser et al.   CURRENT OPINION IN PLANT BIOLOGY

The Red Light Receptor Phytochrome B Directly Enhances Substrate-E3 Ligase Interactions to Attenuate Ethylene Responses

(2016) Hui Shi et al.   DEVELOPMENTAL CELL

Transcriptomic and proteomic analyses provide new insights into the regulation mechanism of low-temperature-induced leafy head formation in Chinese cabbage

(2016) Chang-wei Zhang et al.   Journal of Proteomics

The Multifaceted Roles of HY5 in Plant Growth and Development

(2016) Sreeramaiah N. Gangappa et al.   Molecular Plant

Functional and Integrative Analysis of the Proteomic Profile of Radish Root under Pb Exposure

(2016) Yan Wang et al.   Frontiers in Plant Science

Proteomic profile of the Bradysia odoriphaga in response to the microbial secondary metabolite benzothiazole

(2016) Yunhe Zhao et al.   Scientific Reports

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

MYBD employed by HY5 increases anthocyanin accumulation via repression ofMYBL2in Arabidopsis

(2015) Nguyen Hoai Nguyen et al.   PLANT JOURNAL

Jasmonic acid enhancement of anthocyanin accumulation is dependent on phytochrome A signaling pathway under far-red light in Arabidopsis

(2014) Ting Li et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

PHYTOCHROME C plays a major role in the acceleration of wheat flowering under long-day photoperiod

(2014) A. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Light intensity modulates the regulatory network of the shade avoidance response in Arabidopsis

(2014) M. Hersch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

IQuant: An automated pipeline for quantitative proteomics based upon isobaric tags

(2014) Bo Wen et al.   PROTEOMICS

Photoreceptor Signaling Networks in Plant Responses to Shade

(2013) Jorge J. Casal   Annual Review of Plant Biology

HY5 regulates anthocyanin biosynthesis by inducing the transcriptional activation of the MYB75/PAP1 transcription factor inArabidopsis

(2013) Dong Ho Shin et al.   FEBS LETTERS

The sacred lotus genome provides insights into the evolution of flowering plants

(2013) Yun Wang et al.   PLANT JOURNAL

Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)

(2013) Ray Ming et al.   GENOME BIOLOGY

Linking photoreceptor excitation to changes in plant architecture

(2012) L. Li et al.   GENES & DEVELOPMENT

Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling

(2012) Patricia Hornitschek et al.   PLANT JOURNAL

The photomorphogenic repressors COP1 and DET1: 20 years later

(2012) On Sun Lau et al.   TRENDS IN PLANT SCIENCE

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Regulation of flowering time: all roads lead to Rome

(2011) Anusha Srikanth et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Blue Light-Dependent Interaction of CRY2 with SPA1 Regulates COP1 activity and Floral Initiation in Arabidopsis

(2011) Zecheng Zuo et al.   CURRENT BIOLOGY

Arabidopsis cryptochrome 1 interacts with SPA1 to suppress COP1 activity in response to blue light

(2011) B. Liu et al.   GENES & DEVELOPMENT

Differential expression in RNA-seq: A matter of depth

(2011) S. Tarazona et al.   GENOME RESEARCH

Comparative analysis of genetic diversity in sacred lotus (Nelumbo nucifera Gaertn.) using AFLP and SSR markers

(2011) Jihong Hu et al.   MOLECULAR BIOLOGY REPORTS

Cryptochrome 1 and phytochrome B control shade-avoidance responses in Arabidopsis via partially independent hormonal cascades

(2011) Mercedes M. Keller et al.   PLANT JOURNAL

Recent advances on the regulation of anthocyanin synthesis in reproductive organs

(2011) Katia Petroni et al.   PLANT SCIENCE

Automated analysis of hypocotyl growth dynamics during shade avoidance in Arabidopsis

(2010) Benjamin Cole et al.   PLANT JOURNAL

Arabidopsis DOF Transcription Factors Act Redundantly to Reduce CONSTANS Expression and Are Essential for a Photoperiodic Flowering Response

(2009) Fabio Fornara et al.   DEVELOPMENTAL CELL

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Regulation and Identity of Florigen: FLOWERING LOCUS T Moves Center Stage

(2008) Franziska Turck et al.   Annual Review of Plant Biology

Rapid Synthesis of Auxin via a New Tryptophan-Dependent Pathway Is Required for Shade Avoidance in Plants

(2008) Yi Tao et al.   CELL

Cultivation of lotus (Nelumbo nucifera Gaertn. ssp. nucifera) and its utilization in China

(2008) H. B. Guo   GENETIC RESOURCES AND CROP EVOLUTION

COP1 and ELF3 Control Circadian Function and Photoperiodic Flowering by Regulating GI Stability

(2008) Jae-Woong Yu et al.   MOLECULAR CELL

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS