Translational Landscape of Protein-Coding and Non-Protein-Coding RNAs upon Light Exposure in Arabidopsis

Control of cognate sense mRNA translation by cis-natural antisense RNAs

(2019) Jules Deforges et al.   PLANT PHYSIOLOGY

MicroRNAs and Their Regulatory Roles in Plant–Environment Interactions

(2019) Xianwei Song et al.   Annual Review of Plant Biology

The Plant Translatome Surveyed by Ribosome Profiling

(2019) Tomoya Fujita et al.   PLANT AND CELL PHYSIOLOGY

Plant photoreceptors: Multi-functional sensory proteins and their signaling networks

(2019) Inyup Paik et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

The tomato translational landscape revealed by transcriptome assembly and ribosome profiling

(2019) Hsin-Yen Larry Wu et al.   PLANT PHYSIOLOGY

Heterogeneity and specialized functions of translation machinery: from genes to organisms

(2018) Naomi R. Genuth et al.   NATURE REVIEWS GENETICS

A noncoding RNA transcribed from the AGAMOUS (AG ) second intron binds to CURLY LEAF and represses AG expression in leaves

(2018) Hui-Wen Wu et al.   NEW PHYTOLOGIST

The putative peptide gene FEP1 regulates iron deficiency response in Arabidopsis

(2018) Takashi Hirayama et al.   PLANT AND CELL PHYSIOLOGY

AtPep3 is a hormone-like peptide that plays a role in the salinity stress tolerance of plants

(2018) Kentaro Nakaminami et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcripts from downstream alternative transcription start sites evade uORF-mediated inhibition of gene expression inArabidopsis

(2018) Yukio Kurihara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome editing of upstream open reading frames enables translational control in plants

(2018) Huawei Zhang et al.   NATURE BIOTECHNOLOGY

ELF18-INDUCED LONG NONCODING RNA 1 evicts fibrillarin from mediator subunit to enhance PATHOGENESIS-RELATED GENE 1 (PR1 ) expression

(2018) Jun Sung Seo et al.   NEW PHYTOLOGIST

Global identification of Arabidopsis lncRNAs reveals the regulation of MAF4 by a natural antisense RNA

(2018) Xinyue Zhao et al.   Nature Communications

uORF-mediated translation allows engineered plant disease resistance without fitness costs

(2017) Guoyong Xu et al.   NATURE

New insights into the mechanisms of phytochrome-cryptochrome coaction

(2017) Qin Wang et al.   NEW PHYTOLOGIST

The antiphasic regulatory module comprising CDF5 and its antisense RNA FLORE links the circadian clock to photoperiodic flowering

(2017) Rossana Henriques et al.   NEW PHYTOLOGIST

Translation regulation in plants: an interesting past, an exciting present and a promising future

(2017) Catharina Merchante et al.   PLANT JOURNAL

A Nucleus-Localized Long Non-Coding RNA Enhances Drought and Salt Stress Tolerance

(2017) Tao Qin et al.   PLANT PHYSIOLOGY

Global analysis of ribosome-associated noncoding RNAs unveils new modes of translational regulation

(2017) Jérémie Bazin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small but Mighty: Functional Peptides Encoded by Small ORFs in Plants

(2017) Polly Yingshan Hsu et al.   PROTEOMICS

The Growing Toolbox for Protein Synthesis Studies

(2017) Shintaro Iwasaki et al.   TRENDS IN BIOCHEMICAL SCIENCES

Beyond the Triplet Code: Context Cues Transform Translation

(2016) Gloria A. Brar   CELL

Control of cell proliferation by microRNAs in plants

(2016) Ramiro E Rodriguez et al.   CURRENT OPINION IN PLANT BIOLOGY

Functions of long intergenic non-coding (linc) RNAs in plants

(2016) Masashi Yamada   JOURNAL OF PLANT RESEARCH

Super-resolution ribosome profiling reveals unannotated translation events inArabidopsis

(2016) Polly Yingshan Hsu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Decoding sORF translation – from small proteins to gene regulation

(2016) Luis Enrique Cabrera-Quio et al.   RNA Biology

Translational control by 5'-untranslated regions of eukaryotic mRNAs

(2016) A. G. Hinnebusch et al.   SCIENCE

Gene-Specific Translation Regulation Mediated by the Hormone-Signaling Molecule EIN2

(2015) Catharina Merchante et al.   CELL

Detecting actively translated open reading frames in ribosome profiling data

(2015) Lorenzo Calviello et al.   NATURE METHODS

Nonsense-mediated mRNA decay: an intricate machinery that shapes transcriptomes

(2015) Søren Lykke-Andersen et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Identification of novel Arabidopsis thaliana upstream open reading frames that control expression of the main coding sequences in a peptide sequence-dependent manner

(2015) Isao Ebina et al.   NUCLEIC ACIDS RESEARCH

Profiling and Characterization of Small RNAs in the Liverwort,Marchantia polymorpha, Belonging to the First Diverged Land Plants

(2015) Masayuki Tsuzuki et al.   PLANT AND CELL PHYSIOLOGY

Long noncoding RNA transcriptome of plants

(2015) Jun Liu et al.   PLANT BIOTECHNOLOGY JOURNAL

Gene Expression Regulation in Photomorphogenesis from the Perspective of the Central Dogma

(2014) Shu-Hsing Wu   Annual Review of Plant Biology

Genome-wide identification of long noncoding natural antisense transcripts and their responses to light in Arabidopsis

(2014) H. Wang et al.   GENOME RESEARCH

Arabidopsis noncoding RNA mediates control of photomorphogenesis by red light

(2014) Y. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ribosome Profiling Reveals Pervasive Translation Outside of Annotated Protein-Coding Genes

(2014) Nicholas T. Ingolia et al.   Cell Reports

Translational Landscape of Photomorphogenic Arabidopsis

(2013) M.-J. Liu et al.   PLANT CELL

Regulation of plant translation by upstream open reading frames

(2013) Albrecht G. von Arnim et al.   PLANT SCIENCE

Small open reading frames associated with morphogenesis are hidden in plant genomes

(2013) K. Hanada et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

(2013) P. Juntawong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ShortStack: Comprehensive annotation and quantification of small RNA genes

(2013) M. J. Axtell   RNA

BAIUCAS: a novel BLAST-based algorithm for the identification of upstream open reading frames with conserved amino acid sequences and its application to the Arabidopsis thaliana genome

(2012) Hiro Takahashi et al.   BIOINFORMATICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Known and novel post-transcriptional regulatory sequences are conserved across plant families

(2012) J. N. Vaughn et al.   RNA

Surveillance of 3′ Noncoding Transcripts Requires FIERY1 and XRN3 in Arabidopsis

(2012) Yukio Kurihara et al.   G3-Genes Genomes Genetics

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

Genome-wide suppression of aberrant mRNA-like noncoding RNAs by NMD in Arabidopsis

(2009) Y. Kurihara et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

(2009) N. T. Ingolia et al.   SCIENCE

Arabidopsis Transcriptome Analysis under Drought, Cold, High-Salinity and ABA Treatment Conditions using a Tiling Array

(2008) A. Matsui et al.   PLANT AND CELL PHYSIOLOGY