Moving through the Stressed Genome: Emerging Regulatory Roles for Transposons in Plant Stress Response

An Ancient Trans-Kingdom Horizontal Transfer ofPenelope-like Retroelements from Arthropods to Conifers

(2016) Xuan Lin et al.   Genome Biology and Evolution

Spatial distribution and dynamics of sucrose metabolising enzymes in radiation induced mutants of sugarcane

(2016) Shriram J. Mirajkar et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

Genomic-assisted haplotype analysis and the development of high-throughput SNP markers for salinity tolerance in soybean

(2016) Gunvant Patil et al.   Scientific Reports

A transposable element insertion in the susceptibility gene CsaMLO8 results in hypocotyl resistance to powdery mildew in cucumber

(2015) Jeroen A. Berg et al.   BMC PLANT BIOLOGY

Controlled activation of retrotransposition for plant breeding

(2015) Jerzy Paszkowski   CURRENT OPINION IN BIOTECHNOLOGY

A survey of transposable element classification systems – A call for a fundamental update to meet the challenge of their diversity and complexity

(2015) Benoît Piégu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Transcriptional ‘memory’ of a stress: transient chromatin and memory (epigenetic) marks at stress-response genes

(2015) Zoya Avramova   PLANT JOURNAL

A transposon insertion in FLOWERING LOCUS T is associated with delayed flowering in Brassica rapa

(2015) Xueming Zhang et al.   PLANT SCIENCE

A transposable element in a NAC gene is associated with drought tolerance in maize seedlings

(2015) Hude Mao et al.   Nature Communications

Building the sugarcane genome for biotechnology and identifying evolutionary trends

(2014) Nathalia de Setta et al.   BMC GENOMICS

Retrotransposon-based molecular markers for assessment of genomic diversity

(2014) Ahmed M. Alzohairy et al.   FUNCTIONAL PLANT BIOLOGY

Widespread and frequent horizontal transfers of transposable elements in plants

(2014) M. El Baidouri et al.   GENOME RESEARCH

Different tobacco retrotransposons are specifically modulated by the elicitor cryptogein and reactive oxygen species

(2014) Iulia-Andra Anca et al.   JOURNAL OF PLANT PHYSIOLOGY

The genome of the stress-tolerant wild tomato species Solanum pennellii

(2014) Anthony Bolger et al.   NATURE GENETICS

Epigenetic Memory for Stress Response and Adaptation in Plants

(2014) Tetsu Kinoshita et al.   PLANT AND CELL PHYSIOLOGY

Sustainable harvest: managing plasticity for resilient crops

(2014) Justin A. Bloomfield et al.   PLANT BIOTECHNOLOGY JOURNAL

Salinity tolerance in soybean is modulated by natural variation inGmSALT3

(2014) Rongxia Guan et al.   PLANT JOURNAL

HelitronScanner uncovers a large overlooked cache of Helitron transposons in many plant genomes

(2014) W. Xiong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Development of IRAP- and REMAP-derived SCAR markers for marker-assisted selection of the stripe rust resistance gene Yr15 derived from wild emmer wheat

(2014) Babak Abdollahi Mandoulakani et al.   THEORETICAL AND APPLIED GENETICS

Stress-induced transcriptional activation of retrotransposon-like sequences in the Scots pine (Pinus sylvestris L.) genome

(2014) Angelika Voronova et al.   Tree Genetics & Genomes

How a Retrotransposon Exploits the Plant's Heat Stress Response for Its Activation

(2014) Vladimir V. Cavrak et al.   PLoS Genetics

Construction of a foxtail millet linkage map and mapping of spikelet-tipped bristles 1(stb1) by using transposon display markers and simple sequence repeat markers with genome sequence information

(2013) Kei Sato et al.   MOLECULAR BREEDING

Transposable elements and microevolutionary changes in natural populations

(2013) Georgi Bonchev et al.   Molecular Ecology Resources

WRKY6 Transcription Factor Restricts Arsenate Uptake and Transposon Activation in Arabidopsis

(2013) G. Castrillo et al.   PLANT CELL

Genome-wide analysis of short interspersed nuclear elements SINES revealed high sequence conservation, gene association and retrotranspositional activity in wheat

(2013) Smadar Ben-David et al.   PLANT JOURNAL

Low Temperature-Responsive Changes in the Anther Transcriptome's Repeat Sequences Are Indicative of Stress Sensitivity and Pollen Sterility in Rice Strains,

(2013) S. Ishiguro et al.   PLANT PHYSIOLOGY

Transcriptional Activity, Chromosomal Distribution and Expression Effects of Transposable Elements in Coffea Genomes

(2013) Fabrício R. Lopes et al.   PLoS One

Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense

(2013) A. Yu 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

A Gaijin-like miniature inverted repeat transposable element is mobilized in rice during cell differentiation

(2012) Hai-Tao Dong et al.   BMC GENOMICS

Global transcriptome analysis of two wild relatives of peanut under drought and fungi infection

(2012) Patricia M Guimarães et al.   BMC GENOMICS

Ecological stress memory and cross stress tolerance in plants in the face of climate extremes

(2012) Julia Walter et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

Molecular dissection of atrazine-responsive transcriptome and gene networks in rice by high-throughput sequencing

(2012) Jia Jun Zhang et al.   JOURNAL OF HAZARDOUS MATERIALS

Diversification of hAT transposase paralogues in the sugarcane genome

(2012) Erika M. de Jesus et al.   MOLECULAR GENETICS AND GENOMICS

A physical, genetic and functional sequence assembly of the barley genome

(2012)   NATURE

The tomato genome sequence provides insights into fleshy fruit evolution

(2012)   NATURE

How important are transposons for plant evolution?

(2012) Damon Lisch   NATURE REVIEWS GENETICS

Transposon integration enhances expression of stress response genes

(2012) Gang Feng et al.   NUCLEIC ACIDS RESEARCH

Retrotransposons Control Fruit-Specific, Cold-Dependent Accumulation of Anthocyanins in Blood Oranges

(2012) E. Butelli et al.   PLANT CELL

Genome-Wide Analysis of Stowaway-Like MITEs in Wheat Reveals High Sequence Conservation, Gene Association, and Genomic Diversification

(2012) B. Yaakov et al.   PLANT PHYSIOLOGY

Ion-beam irradiation, gene identification, and marker-assisted breeding in the development of low-cadmium rice

(2012) S. Ishikawa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transposable Elements, Epigenetics, and Genome Evolution

(2012) N. V. Fedoroff   SCIENCE

A Gene Family Derived from Transposable Elements during Early Angiosperm Evolution Has Reproductive Fitness Benefits in Arabidopsis thaliana

(2012) Zoé Joly-Lopez et al.   PLoS Genetics

TCUP: A Novel hAT Transposon Active in Maize Tissue Culture

(2012) Alan M. Smith et al.   Frontiers in Plant Science

Structural characterization of helitrons and their stepwise capturing of gene fragments in the maize genome

(2011) Yongbin Dong et al.   BMC GENOMICS

Epigenetic contribution to stress adaptation in plants

(2011) Marie Mirouze et al.   CURRENT OPINION IN PLANT BIOLOGY

Genome Rearrangements in Maize Induced by Alternative Transposition of ReversedAc/DsTermini

(2011) Chuanhe Yu et al.   GENETICS

Gene Capture by Helitron Transposons Reshuffles the Transcriptome of Maize

(2011) A. M. Barbaglia et al.   GENETICS

Miniature Inverted-Repeat Transposable Elements (MITEs) Have Been Accumulated through Amplification Bursts and Play Important Roles in Gene Expression and Species Diversity in Oryza sativa

(2011) C. Lu et al.   MOLECULAR BIOLOGY AND EVOLUTION

Durable broad-spectrum powdery mildew resistance in pea er1 plants is conferred by natural loss-of-function mutations in PsMLO1

(2011) MATT HUMPHRY et al.   MOLECULAR PLANT PATHOLOGY

An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress

(2011) Hidetaka Ito et al.   NATURE

Identification of a functional transposon insertion in the maize domestication gene tb1

(2011) Anthony Studer et al.   NATURE GENETICS

The effects of heat induction and the siRNA biogenesis pathway on the transgenerational transposition of ONSEN, a copia-like retrotransposon in Arabidopsis thaliana

(2011) W. Matsunaga et al.   PLANT AND CELL PHYSIOLOGY

Major-Effect Alleles at Relatively Few Loci Underlie Distinct Vernalization and Flowering Variation in Arabidopsis Accessions

(2011) Amy Strange et al.   PLoS One

The panorama of physiological responses and gene expression of whole plant of maize inbred line YQ7-96 at the three-leaf stage under water deficit and re-watering

(2011) Hai-Feng Lu et al.   THEORETICAL AND APPLIED GENETICS

Transcriptional activity of transposable elements in maize

(2010) Carlos M Vicient   BMC GENOMICS

Analysis of plant diversity with retrotransposon-based molecular markers

(2010) R Kalendar et al.   HEREDITY

Mobilization of retrotransposons in synthetic allotetraploid tobacco

(2010) M. Petit et al.   NEW PHYTOLOGIST

Genome-Wide Distribution of TransposedDissociationElements in Maize

(2010) Erik Vollbrecht et al.   PLANT CELL

Epigenetic Regulation of Repetitive Elements Is Attenuated by Prolonged Heat Stress inArabidopsis

(2010) Ales Pecinka et al.   PLANT CELL

Isolation and characterization of a rice glutathione S-transferase gene promoter regulated by herbicides and hormones

(2010) Tingzhang Hu et al.   PLANT CELL REPORTS

Research on plant abiotic stress responses in the post-genome era: past, present and future

(2010) Takashi Hirayama et al.   PLANT JOURNAL

Small RNAs from MITE-derived stem-loop precursors regulate abscisic acid signaling and abiotic stress responses in rice

(2010) Yongsheng Yan et al.   PLANT JOURNAL

Disruption of Signaling in a Fungal-Grass Symbiosis Leads to Pathogenesis

(2010) C. J. Eaton et al.   PLANT PHYSIOLOGY

Polymorphism of a new Ty1-copia retrotransposon in durum wheat under salt and light stresses

(2010) Pasqualina Woodrow et al.   THEORETICAL AND APPLIED GENETICS

Derepression of the Plant Chromovirus LORE1 Induces Germline Transposition in Regenerated Plants

(2010) Eigo Fukai et al.   PLoS Genetics

Stress-Induced Activation of Heterochromatic Transcription

(2010) Mireille Tittel-Elmer et al.   PLoS Genetics

Tissue culture-induced transpositional activity of mPing is correlated with cytosine methylation in rice

(2009) Frédéric Ngezahayo et al.   BMC PLANT BIOLOGY

Molecular characterization of a rice mutator-phenotype derived from an incompatible cross-pollination reveals transgenerational mobilization of multiple transposable elements and extensive epigenetic instability

(2009) Hongyan Wang et al.   BMC PLANT BIOLOGY

Molecular domestication of transposable elements: From detrimental parasites to useful host genes

(2009) L. Sinzelle et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

The spaceflight environment can induce transpositional activation of multiple endogenous transposable elements in a genotype-dependent manner in rice

(2009) Likun Long et al.   JOURNAL OF PLANT PHYSIOLOGY

FaRE1: a transcriptionally active Ty1-copia retrotransposon in strawberry

(2009) Ping He et al.   JOURNAL OF PLANT RESEARCH

Geminivirus AL2 and L2 Proteins Suppress Transcriptional Gene Silencing and Cause Genome-Wide Reductions in Cytosine Methylation

(2009) R. C. Buchmann et al.   JOURNAL OF VIROLOGY

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

Unexpected consequences of a sudden and massive transposon amplification on rice gene expression

(2009) Ken Naito et al.   NATURE

Stress-induced changes in theArabidopsis thalianatranscriptome analyzed using whole-genome tiling arrays

(2009) Georg Zeller et al.   PLANT JOURNAL

MERE1, a Low-Copy-Number Copia-Type Retroelement in Medicago truncatula Active during Tissue Culture

(2009) A. Rakocevic et al.   PLANT PHYSIOLOGY

Uncovering Small RNA-Mediated Responses to Phosphate Deficiency in Arabidopsis by Deep Sequencing

(2009) L.-C. Hsieh et al.   PLANT PHYSIOLOGY

Haplotype structure strongly affects recombination in a maize genetic interval polymorphic for Helitron and retrotransposon insertions

(2009) L. He et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The polychromatic Helitron landscape of the maize genome

(2009) C. Du et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

Molecular analysis of post-harvest withering in grape by AFLP transcriptional profiling

(2008) Anita Zamboni et al.   JOURNAL OF EXPERIMENTAL BOTANY

Transposable elements and the evolution of regulatory networks

(2008) Cédric Feschotte   NATURE REVIEWS GENETICS

Retrotransposons and siRNA have a role in the evolution of desiccation tolerance leading to resurrection of the plantCraterostigma plantagineum

(2008) Tobias Hilbricht et al.   NEW PHYTOLOGIST

Multiple regulatory mechanisms influence the activity of the transposon,Tam3, ofAntirrhinum

(2008) Takako Uchiyama et al.   NEW PHYTOLOGIST

Identification and characterization of novel senescence-associated genes from barley (Hordeum vulgare) primary leaves

(2008) N. Ay et al.   PLANT BIOLOGY

AtCopeg1, the unique gene originated from AtCopia95 retrotransposon family, is sensitive to external hormones and abiotic stresses

(2008) Ke Duan et al.   PLANT CELL REPORTS

Refunctionalization of the ancient rice blast disease resistance genePitby the recruitment of a retrotransposon as a promoter

(2008) Keiko Hayashi et al.   PLANT JOURNAL

Transposition of a 600 thousand-year-old LTR retrotransposon in the model legume Lotus japonicus

(2008) Eigo Fukai et al.   PLANT MOLECULAR BIOLOGY

Stress-induced mobility of OPHIO1 and OPHIO2, DNA transposons of the Dutch elm disease fungi

(2007) Guillaume F. Bouvet et al.   FUNGAL GENETICS AND BIOLOGY