Transposable element landscapes in aging Drosophila

A Family of Argonaute-Interacting Proteins Gates Nuclear RNAi

(2020) Alexandra Lewis et al.   MOLECULAR CELL

The Y chromosome may contribute to sex-specific ageing in Drosophila

(2020) Emily J. Brown et al.   Nature Ecology & Evolution

SPOCD1 is an essential executor of piRNA-directed de novo DNA methylation

(2020) Ansgar Zoch et al.   NATURE

Piwi reduction in the aged niche eliminates germline stem cells via Toll-GSK3 signaling

(2020) Kun-Yang Lin et al.   Nature Communications

TEX15 is an essential executor of MIWI2-directed transposon DNA methylation and silencing

(2020) Theresa Schöpp et al.   Nature Communications

Polyploidy in the adult Drosophila brain

(2020) Shyama Nandakumar et al.   eLife

L1 drives IFN in senescent cells and promotes age-associated inflammation

(2019) Marco De Cecco et al.   NATURE

A chromosome-scale assembly of the axolotl genome

(2019) Jeramiah J. Smith et al.   GENOME RESEARCH

LINE1 Derepression in Aged Wild-Type and SIRT6-Deficient Mice Drives Inflammation

(2019) Matthew Simon et al.   Cell Metabolism

Cellular labeling of endogenous retrovirus replication (CLEVR) reveals de novo insertions of the gypsy retrotransposable element in cell culture and in both neurons and glial cells of aging fruit flies

(2019) Yung-Heng Chang et al.   PLOS BIOLOGY

Skeletal muscle LINE-1 retrotransposon activity is upregulated in older versus younger rats

(2019) Petey W. Mumford et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Five months of voluntary wheel running downregulates skeletal muscle LINE-1 gene expression in rats

(2019) Matthew A. Romero et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

The Gypsy Endogenous Retrovirus Drives Non-Cell-Autonomous Propagation in a Drosophila TDP-43 Model of Neurodegeneration

(2019) Yung-Heng Chang et al.   CURRENT BIOLOGY

Su(var)2-10 and the SUMO Pathway Link piRNA-Guided Target Recognition to Chromatin Silencing

(2019) Maria Ninova et al.   MOLECULAR CELL

Har-P, a short P-element variant, weaponizes P-transposase to severely impair Drosophila development

(2019) Satyam P Srivastav et al.   eLife

The HUSH complex cooperates with TRIM28 to repress young retrotransposons and new genes

(2018) Luisa Robbez-Masson et al.   GENOME RESEARCH

Pathogenic tau-induced piRNA depletion promotes neuronal death through transposable element dysregulation in neurodegenerative tauopathies

(2018) Wenyan Sun et al.   NATURE NEUROSCIENCE

Temperature-dependent small RNA expression in Drosophila melanogaster

(2018) Isabel Fast et al.   RNA Biology

Early life experience drives structural variation of neural genomes in mice

(2018) Tracy A. Bedrosian et al.   SCIENCE

A somatic role for the histone methyltransferase Setdb1 in endogenous retrovirus silencing

(2018) Masaki Kato et al.   Nature Communications

Circular DNA elements of chromosomal origin are common in healthy human somatic tissue

(2018) Henrik Devitt Møller et al.   Nature Communications

Mutations in Cytosine-5 tRNA Methyltransferases Impact Mobile Element Expression and Genome Stability at Specific DNA Repeats

(2018) Bianca Genenncher et al.   Cell Reports

Tau Activates Transposable Elements in Alzheimer’s Disease

(2018) Caiwei Guo et al.   Cell Reports

Argonaute2 and LaminB modulate gene expression by controlling chromatin topology

(2018) Ezequiel Nazer et al.   PLoS Genetics

Hijacking Oogenesis Enables Massive Propagation of LINE and Retroviral Transposons

(2018) Lu Wang et al.   CELL

The axolotl genome and the evolution of key tissue formation regulators

(2018) Sergej Nowoshilow et al.   NATURE

A Robust Transposon-Endogenizing Response from Germline Stem Cells

(2018) Sungjin Moon et al.   DEVELOPMENTAL CELL

Topoisomerase 3β interacts with RNAi machinery to promote heterochromatin formation and transcriptional silencing in Drosophila

(2018) Seung Kyu Lee et al.   Nature Communications

QTL mapping of natural variation reveals that the developmental regulator bruno reduces tolerance to P-element transposition in the Drosophila female germline

(2018) Erin S. Kelleher et al.   PLOS BIOLOGY

Heritable L1 retrotransposition in the mouse primordial germline and early embryo

(2017) Sandra R. Richardson et al.   GENOME RESEARCH

Selective silencing of euchromatic L1s revealed by genome-wide screens for L1 regulators

(2017) Nian Liu et al.   NATURE

Extrachromosomal oncogene amplification drives tumour evolution and genetic heterogeneity

(2017) Kristen M. Turner et al.   NATURE

Piwi Is Required to Limit Exhaustion of Aging Somatic Stem Cells

(2017) Pedro Sousa-Victor et al.   Cell Reports

Retrotransposon activation contributes to neurodegeneration in a Drosophila TDP-43 model of ALS

(2017) Lisa Krug et al.   PLoS Genetics

Sequencing the extrachromosomal circular mobilome reveals retrotransposon activity in plants

(2017) Sophie Lanciano et al.   PLoS Genetics

Resolving the prevalence of somatic transposition in Drosophila

(2017) Christoph D Treiber et al.   eLife

Age-associated de-repression of retrotransposons in theDrosophilafat body, its potential cause and consequence

(2016) Haiyang Chen et al.   AGING CELL

Transposable Elements and Their KRAB-ZFP Controllers Regulate Gene Expression in Adult Tissues

(2016) Gabriela Ecco et al.   DEVELOPMENTAL CELL

Direct interrogation of the role of H3K9 in metazoan heterochromatin function

(2016) Taylor J.R. Penke et al.   GENES & DEVELOPMENT

Whole-Genome Analysis of Individual Meiotic Events in Drosophila melanogaster Reveals That Noncrossover Gene Conversions Are Insensitive to Interference and the Centromere Effect

(2016) Danny E. Miller et al.   GENETICS

L1-associated genomic regions are deleted in somatic cells of the healthy human brain

(2016) Jennifer A Erwin et al.   NATURE NEUROSCIENCE

Regulatory activities of transposable elements: from conflicts to benefits

(2016) Edward B. Chuong et al.   NATURE REVIEWS GENETICS

Chromatin-modifying genetic interventions suppress age-associated transposable element activation and extend life span inDrosophila

(2016) Jason G. Wood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Age-Related Reduction of Recovery Sleep and Arousal Threshold in Drosophila

(2016) Julie Vienne et al.   SLEEP

A somatic piRNA pathway in the Drosophila fat body ensures metabolic homeostasis and normal lifespan

(2016) Brian C. Jones et al.   Nature Communications

OASIS 2: online application for survival analysis 2 with features for the analysis of maximal lifespan and healthspan in aging research

(2016) Seong Kyu Han et al.   Oncotarget

Resolving rates of mutation in the brain using single-neuron genomics

(2016) Gilad D Evrony et al.   eLife

Whole-Genome Analysis of Individual Meiotic Events in Drosophila melanogaster Reveals That Noncrossover Gene Conversions Are Insensitive to Interference and the Centromere Effect

(2016) Danny E. Miller et al.   GENETICS

Age-Related Reduction of Recovery Sleep and Arousal Threshold in Drosophila

(2016) Julie Vienne et al.   SLEEP

Transposable elements become active and mobile in the genomes of aging mammalian somatic tissues

(2016) Marco De Cecco et al.   Aging-US

DNA methylation restrains transposons from adopting a chromatin signature permissive for meiotic recombination

(2015) Natasha Zamudio et al.   GENES & DEVELOPMENT

piRNA-guided slicing of transposon transcripts enforces their transcriptional silencing via specifying the nuclear piRNA repertoire

(2015) Kirsten-André Senti et al.   GENES & DEVELOPMENT

The Paf1 complex represses small-RNA-mediated epigenetic gene silencing

(2015) Katarzyna Maria Kowalik et al.   NATURE

Cell Lineage Analysis in Human Brain Using Endogenous Retroelements

(2015) Gilad D. Evrony et al.   NEURON

Unique transposon landscapes are pervasive acrossDrosophila melanogastergenomes

(2015) Reazur Rahman et al.   NUCLEIC ACIDS RESEARCH

Epigenetic silencing by the HUSH complex mediates position-effect variegation in human cells

(2015) I. A. Tchasovnikarova et al.   SCIENCE

Production of Extrachromosomal MicroDNAs Is Linked to Mismatch Repair Pathways and Transcriptional Activity

(2015) Laura W. Dillon et al.   Cell Reports

Conserved piRNA Expression from a Distinct Set of piRNA Cluster Loci in Eutherian Mammals

(2015) Gung-wei Chirn et al.   PLoS Genetics

Long Interspersed Element-1 Protein Expression Is a Hallmark of Many Human Cancers

(2014) Nemanja Rodić et al.   AMERICAN JOURNAL OF PATHOLOGY

Evolutionally dynamic L1 regulation in embryonic stem cells

(2014) N. Castro-Diaz et al.   GENES & DEVELOPMENT

Incomplete replication generates somatic DNA alterations withinDrosophilapolytene salivary gland cells

(2014) Will Yarosh et al.   GENES & DEVELOPMENT

Transposable element dynamics and PIWI regulation impacts lncRNA and gene expression diversity inDrosophilaovarian cell cultures

(2014) Yuliya A. Sytnikova et al.   GENOME RESEARCH

Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells

(2014) Aydan Bulut-Karslioglu et al.   MOLECULAR CELL

Regulation of L1 expression and retrotransposition by melatonin and its receptor: implications for cancer risk associated with light exposure at night

(2014) Dawn deHaro et al.   NUCLEIC ACIDS RESEARCH

TEMP: a computational method for analyzing transposable element polymorphism in populations

(2014) Jiali Zhuang et al.   NUCLEIC ACIDS RESEARCH

Transposon Defense by Endo-siRNAs, piRNAs and Somatic pilRNAs in Drosophila: Contributions of Loqs-PD and R2D2

(2014) Milijana Mirkovic-Hösle et al.   PLoS One

Sleeping dogs of the genome

(2014) Vera Gorbunova et al.   SCIENCE

MORC1 represses transposable elements in the mouse male germline

(2014) William A. Pastor et al.   Nature Communications

SIRT6 represses LINE1 retrotransposons by ribosylating KAP1 but this repression fails with stress and age

(2014) Michael Van Meter et al.   Nature Communications

Performance of the Cas9 Nickase System in Drosophila melanogaster

(2014) Xingjie Ren et al.   G3-Genes Genomes Genetics

Genomes of replicatively senescent cells undergo global epigenetic changes leading to gene silencing and activation of transposable elements

(2013) Marco De Cecco et al.   AGING CELL

Differential L1 regulation in pluripotent stem cells of humans and apes

(2013) Maria C. N. Marchetto et al.   NATURE

Activation of transposable elements during aging and neuronal decline in Drosophila

(2013) Wanhe Li et al.   NATURE NEUROSCIENCE

Transposition-Driven Genomic Heterogeneity in the Drosophila Brain

(2013) P. N. Perrat et al.   SCIENCE

Somatic Mutation, Genomic Variation, and Neurological Disease

(2013) A. Poduri et al.   SCIENCE

RNAi triggered by specialized machinery silences developmental genes and retrotransposons

(2012) Soichiro Yamanaka et al.   NATURE

Transposable Elements in TDP-43-Mediated Neurodegenerative Disorders

(2012) Wanhe Li et al.   PLoS One

Extrachromosomal MicroDNAs and Chromosomal Microdeletions in Normal Tissues

(2012) Y. Shibata et al.   SCIENCE

Adaptation to P Element Transposon Invasion in Drosophila melanogaster

(2011) Jaspreet S. Khurana et al.   CELL

Vreteno, a gonad-specific protein, is essential for germline development and primary piRNA biogenesis in Drosophila

(2011) A. L. Zamparini et al.   DEVELOPMENT

Somatic retrotransposition alters the genetic landscape of the human brain

(2011) J. Kenneth Baillie et al.   NATURE

Lysine methyltransferase G9a is required for de novo DNA methylation and the establishment, but not the maintenance, of proviral silencing

(2011) D. C. Leung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chromatin remodeling in the aging genome of Drosophila

(2010) Jason G. Wood et al.   AGING CELL

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Mobile Interspersed Repeats Are Major Structural Variants in the Human Genome

(2010) Cheng Ran Lisa Huang et al.   CELL

Refinement of Tools for Targeted Gene Expression in Drosophila

(2010) B. D. Pfeiffer et al.   GENETICS

Genetic variation of copia suppression in Drosophila melanogaster

(2010) W Vu et al.   HEREDITY

KAP1 controls endogenous retroviruses in embryonic stem cells

(2010) Helen M. Rowe et al.   NATURE

Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET

(2010) Toshiyuki Matsui et al.   NATURE

Somatic expression of LINE-1 elements in human tissues

(2010) Victoria P. Belancio et al.   NUCLEIC ACIDS RESEARCH

Natural Variation of the Amino-Terminal Glutamine-Rich Domain in Drosophila Argonaute2 Is Not Associated with Developmental Defects

(2010) Daniel Hain et al.   PLoS One

Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE

(2010) et al.   SCIENCE

The TDRD9-MIWI2 Complex Is Essential for piRNA-Mediated Retrotransposon Silencing in the Mouse Male Germline

(2009) Masanobu Shoji et al.   DEVELOPMENTAL CELL

Dissecting differential gene expression within the circadian neuronal circuit of Drosophila

(2009) Emi Nagoshi et al.   NATURE NEUROSCIENCE

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

DNA methylation of retrotransposon genes is regulated by Piwi family members MILI and MIWI2 in murine fetal testes

(2008) S. Kuramochi-Miyagawa et al.   GENES & DEVELOPMENT

Drosophila endogenous small RNAs bind to Argonaute 2 in somatic cells

(2008) Yoshinori Kawamura et al.   NATURE

An endogenous small interfering RNA pathway in Drosophila

(2008) Benjamin Czech et al.   NATURE

Erratum: Two distinct mechanisms generate endogenous siRNAs from bidirectional transcription in Drosophila melanogaster

(2008) Katsutomo Okamura et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Light-arousal and circadian photoreception circuits intersect at the large PDF cells of the Drosophila brain

(2008) Y. Shang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Endogenous siRNAs Derived from Transposons and mRNAs in Drosophila Somatic Cells

(2008) M. Ghildiyal et al.   SCIENCE