Wide‐ranging transcriptome remodelling mediated by alternative polyadenylation in response to abiotic stresses in Sorghum

Impact of Alternatively Polyadenylated Isoforms of ETHYLENE RESPONSE FACTOR4 with Activator and Repressor Function on Senescence in Arabidopsis thaliana L.

(2019) Lena Riester et al.   Genes

Perspective on Alternative Splicing and Proteome Complexity in Plants

(2019) Saurabh Chaudhary et al.   TRENDS IN PLANT SCIENCE

Antagonistic actions of FPA and IBM2 regulate transcript processing from genes containing heterochromatin

(2019) Aurélie Deremetz et al.   PLANT PHYSIOLOGY

Arabidopsis FLL2 promotes liquid–liquid phase separation of polyadenylation complexes

(2019) Xiaofeng Fang et al.   NATURE

The polyadenylation factor FIP 1 is important for plant development and root responses to abiotic stresses

(2019) Barbara Telléz‐Robledo et al.   PLANT JOURNAL

Sequence Dynamics of Pre-mRNA G-Quadruplexes in Plants

(2019) Piotr M. Kopec et al.   Frontiers in Plant Science

Review: Plant G-quadruplex (G4) motifs in DNA and RNA; abundant, intriguing sequences of unknown function

(2018) Brianna D. Griffin et al.   PLANT SCIENCE

Analysis of NRAS RNA G-quadruplex binding proteins reveals DDX3X as a novel interactor of cellular G-quadruplex containing transcripts

(2018) Barbara Herdy et al.   NUCLEIC ACIDS RESEARCH

Genome-wide atlas of alternative polyadenylation in the forage legume red clover

(2018) Manohar Chakrabarti et al.   Scientific Reports

Rapid Responses to Abiotic Stress: Priming the Landscape for the Signal Transduction Network

(2018) Hannes Kollist et al.   TRENDS IN PLANT SCIENCE

Dehydration stress extends mRNA 3′ untranslated regions with noncoding RNA functions in Arabidopsis

(2017) Hai-Xi Sun et al.   GENOME RESEARCH

Noncanonical Alternative Polyadenylation Contributes to Gene Regulation in Response to Hypoxia

(2017) Laura de Lorenzo et al.   PLANT CELL

Polysomes, Stress Granules, and Processing Bodies: A Dynamic Triumvirate Controlling Cytoplasmic mRNA Fate and Function

(2017) Thanin Chantarachot et al.   PLANT PHYSIOLOGY

GBF3 transcription factor imparts drought tolerance in Arabidopsis thaliana

(2017) Venkategowda Ramegowda et al.   Scientific Reports

Drought stress tolerance strategies revealed by RNA-Seq in two sorghum genotypes with contrasting WUE

(2016) Alessandra Fracasso et al.   BMC PLANT BIOLOGY

Genome-wide dynamics of alternative polyadenylation in rice

(2016) Haihui Fu et al.   GENOME RESEARCH

Reactive oxygen species, abiotic stress and stress combination

(2016) Feroza K. Choudhury et al.   PLANT JOURNAL

Experimental Genome-Wide Determination of RNA Polyadenylation in Chlamydomonas reinhardtii

(2016) Stephen A. Bell et al.   PLoS One

A survey of the sorghum transcriptome using single-molecule long reads

(2016) Salah E. Abdel-Ghany et al.   Nature Communications

Genome-wide discovery of G-quadruplex forming sequences and their functional relevance in plants

(2016) Rohini Garg et al.   Scientific Reports

Comparative RNA-Seq analysis reveals pervasive tissue-specific alternative polyadenylation in Caenorhabditis elegans intestine and muscles

(2015) Stephen M Blazie et al.   BMC BIOLOGY

Integrative genome-wide analysis reveals HLP1, a novel RNA-binding protein, regulates plant flowering by targeting alternative polyadenylation

(2015) Yong Zhang et al.   CELL RESEARCH

Genetic mechanisms of abiotic stress tolerance that translate to crop yield stability

(2015) Michael V. Mickelbart et al.   NATURE REVIEWS GENETICS

G-quadruplexes and their regulatory roles in biology

(2015) Daniela Rhodes et al.   NUCLEIC ACIDS RESEARCH

Unique Aspects of Plant Nonsense-Mediated mRNA Decay

(2015) Orit Shaul   TRENDS IN PLANT SCIENCE

Genome-wide determination of poly(A) sites in Medicago truncatula: evolutionary conservation of alternative poly(A) site choice

(2014) Xiaohui Wu et al.   BMC GENOMICS

Transcriptomic analysis of Sorghum bicolor responding to combined heat and drought stress

(2014) Stephanie M Johnson et al.   BMC GENOMICS

Grape contains 4 ICE genes whose expression includes alternative polyadenylation, leading to transcripts encoding at least 7 different ICE proteins

(2014) M. Atikur Rahman et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

BoxPlotR: a web tool for generation of box plots

(2014) Michaela Spitzer et al.   NATURE METHODS

The Polyadenylation Factor Subunit CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR30: A Key Factor of Programmed Cell Death and a Regulator of Immunity in Arabidopsis

(2014) Q. Bruggeman et al.   PLANT PHYSIOLOGY

Integration of Developmental and Environmental Signals via a Polyadenylation Factor in Arabidopsis

(2014) Man Liu et al.   PLoS One

The transcriptional regulatory network in the drought response and its crosstalk in abiotic stress responses including drought, cold, and heat

(2014) Kazuo Nakashima et al.   Frontiers in Plant Science

In human glioblastomas transcript elongation by alternative polyadenylation and miRNA targeting is a potent mechanism of MGMT silencing

(2013) Simone Kreth et al.   ACTA NEUROPATHOLOGICA

Global crop exposure to critical high temperatures in the reproductive period: historical trends and future projections

(2013) Sharon M Gourdji et al.   Environmental Research Letters

Widespread and extensive lengthening of 3' UTRs in the mammalian brain

(2013) P. Miura et al.   GENOME RESEARCH

High throughput characterizations of poly(A) site choice in plants

(2013) Liuyin Ma et al.   METHODS

Alternative cleavage and polyadenylation: extent, regulation and function

(2013) Ran Elkon et al.   NATURE REVIEWS GENETICS

Exploring mRNA 3′-UTR G-quadruplexes: evidence of roles in both alternative polyadenylation and mRNA shortening

(2013) Jean-Denis Beaudoin et al.   NUCLEIC ACIDS RESEARCH

Nonsense-Mediated Decay of Alternative Precursor mRNA Splicing Variants Is a Major Determinant of the Arabidopsis Steady State Transcriptome

(2013) G. Drechsel et al.   PLANT CELL

Anxiety-associated alternative polyadenylation of the serotonin transporter mRNA confers translational regulation by hnRNPK

(2013) Y. Yoon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An alternative polyadenylation mechanism coopted to the Arabidopsis RPP7 gene through intronic retrotransposon domestication

(2013) T. Tsuchiya 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

Assessing agricultural risks of climate change in the 21st century in a global gridded crop model intercomparison

(2013) Cynthia Rosenzweig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Alternative cleavage and polyadenylation: the long and short of it

(2013) Bin Tian et al.   TRENDS IN BIOCHEMICAL SCIENCES

Prediction of seasonal climate-induced variations in global food production

(2013) Toshichika Iizumi et al.   Nature Climate Change

The RNA-binding protein FPA regulates flg22-triggered defense responses and transcription factor activity by alternative polyadenylation

(2013) Rebecca Lyons et al.   Scientific Reports

Transcription Termination and Chimeric RNA Formation Controlled by Arabidopsis thaliana FPA

(2013) Céline Duc et al.   PLoS Genetics

The U.S. drought of 2012 in perspective: A call to action

(2013) J.S. Boyer et al.   Global Food Security-Agriculture Policy Economics and Environment

High-resolution projections of climate-related risks for the Midwestern USA

(2012) SC Pryor et al.   CLIMATE RESEARCH

A quantitative atlas of polyadenylation in five mammals

(2012) Adnan Derti et al.   GENOME RESEARCH

Detecting differential usage of exons from RNA-seq data

(2012) S. Anders et al.   GENOME RESEARCH

Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation

(2012) Alexander Sherstnev et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Estrogen-induced upregulation and 3′-UTR shortening of CDC6

(2012) Begum H. Akman et al.   NUCLEIC ACIDS RESEARCH

Aberrant growth and lethality of Arabidopsis deficient in nonsense-mediated RNA decay factors is caused by autoimmune-like response

(2012) Nina Riehs-Kearnan et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis

(2012) P. E. Thomas et al.   PLANT CELL

Alternative polyadenylation: New insights from global analyses

(2012) Y. Shi   RNA

Functional annotation of the transcriptome of Sorghum bicolor in response to osmotic stress and abscisic acid

(2011) Diana V Dugas et al.   BMC GENOMICS

Sweet sorghum as a model system for bioenergy crops

(2011) Martín Calviño et al.   CURRENT OPINION IN BIOTECHNOLOGY

RNA polymerase II kinetics inpolopolyadenylation signal selection

(2011) Pedro A B Pinto et al.   EMBO JOURNAL

Transcriptome dynamics through alternative polyadenylation in developmental and environmental responses in plants revealed by deep sequencing

(2011) Y. Shen et al.   GENOME RESEARCH

Nonsense-Mediated mRNA Decay Factors, UPF1 and UPF3, Contribute to Plant Defense

(2011) Hee-Jeong Jeong et al.   PLANT AND CELL PHYSIOLOGY

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Genome-wide landscape of polyadenylation in Arabidopsis provides evidence for extensive alternative polyadenylation

(2011) X. Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive Polyadenylation Site Maps in Yeast and Human Reveal Pervasive Alternative Polyadenylation

(2010) Fatih Ozsolak et al.   CELL

The Spen Family Protein FPA Controls Alternative Cleavage and Polyadenylation of RNA

(2010) Csaba Hornyik et al.   DEVELOPMENTAL CELL

RNA G-Quadruplexes in the model plant species Arabidopsis thaliana: prevalence and possible functional roles

(2010) Melissa A. Mullen et al.   NUCLEIC ACIDS RESEARCH

agriGO: a GO analysis toolkit for the agricultural community

(2010) Zhou Du et al.   NUCLEIC ACIDS RESEARCH

Defining the Mitochondrial Stress Response in Arabidopsis thaliana

(2009) Olivier Van Aken et al.   Molecular Plant

Targeted 3' Processing of Antisense Transcripts Triggers Arabidopsis FLC Chromatin Silencing

(2009) F. Liu et al.   SCIENCE

To localize or not to localize: mRNA fate is in 3′UTR ends

(2009) Catia Andreassi et al.   TRENDS IN CELL BIOLOGY

G-Quadruplex DNA Assemblies: Loop Length, Cation Identity, and Multimer Formation†

(2008) Nicolas Smargiasso et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Genome level analysis of rice mRNA 3′-end processing signals and alternative polyadenylation

(2008) Yingjia Shen et al.   NUCLEIC ACIDS RESEARCH

A Polyadenylation Factor Subunit Implicated in Regulating Oxidative Signaling in Arabidopsis thaliana

(2008) Jingxian Zhang et al.   PLoS One