DNA Methylation and Demethylation Are Regulated by Functional DNA Methyltransferases and DnTET Enzymes in Diuraphis noxia

Sex‐specific changes in the aphid DNA methylation landscape

(2019) Thomas C. Mathers et al.   MOLECULAR ECOLOGY

New Insights into the Methylation Status of Virulent Diuraphis noxia (Hemiptera: Aphididae) Biotypes

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Profiling Diuraphis noxia (Hemiptera: Aphididae) Transcript Expression of the Biotypes SA1 and SAM Feeding on Various Triticum aestivum Varieties

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Genome of Russian wheat aphid an economically important cereal aphid

(2017) Nicolaas Francois Visser Burger et al.   Standards in Genomic Sciences

Changes in the Russian Wheat Aphid (Hemiptera: Aphididae) Biotype Complex in South Africa

(2016) Astrid Jankielsohn   JOURNAL OF ECONOMIC ENTOMOLOGY

Transcriptome-wide distribution and function of RNA hydroxymethylcytosine

(2016) B. Delatte et al.   SCIENCE

DNA Methylation in Social Insects: How Epigenetics Can Control Behavior and Longevity

(2015) Hua Yan et al.   Annual Review of Entomology

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Transcriptional regulation of insect steroid hormone biosynthesis and its role in controlling timing of molting and metamorphosis

(2015) Yuko S. Niwa et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

DNA methylation changes induced by long and short photoperiods in Nasonia

(2015) Mirko Pegoraro et al.   GENOME RESEARCH

Presence of DNA methyltransferase activity and CpC methylation in Drosophila melanogaster

(2015) Chitra S. Panikar et al.   MOLECULAR BIOLOGY REPORTS

Detection of differentially methylated regions from whole-genome bisulfite sequencing data without replicates

(2015) Hao Wu et al.   NUCLEIC ACIDS RESEARCH

Irinotecan, a key chemotherapeutic drug for metastatic colorectal cancer

(2015) Ken-ichi Fujita   WORLD JOURNAL OF GASTROENTEROLOGY

Cytosine DNA Methylation Is Found in Drosophila melanogaster but Absent in Saccharomyces cerevisiae, Schizosaccharomyces pombe, and Other Yeast Species

(2014) Floriana Capuano et al.   ANALYTICAL CHEMISTRY

Mechanism and Function of Oxidative Reversal of DNA and RNA Methylation

(2014) Li Shen et al.   Annual Review of Biochemistry

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

HypervirulentDiuraphis noxia(Hemiptera: Aphididae) Biotype Sam Avoids Triggering Defenses in Its Host (Triticum aestivum) (Poales: Poaceae) During Feeding

(2014) Anna-Maria Botha et al.   ENVIRONMENTAL ENTOMOLOGY

A Bayesian hierarchical model to detect differentially methylated loci from single nucleotide resolution sequencing data

(2014) Hao Feng et al.   NUCLEIC ACIDS RESEARCH

Selection of Reference Genes for Expression Analysis in Diuraphis noxia (Hemiptera: Aphididae) Fed on Resistant and Susceptible Wheat Plants

(2014) Deepak K. Sinha et al.   Scientific Reports

Whole-Genome DNA Methylation Profile of the Jewel Wasp ( Nasonia vitripennis )

(2014) Suzannah M. Beeler et al.   G3-Genes Genomes Genetics

Insights into DNA hydroxymethylation in the honeybee from in-depth analyses of TET dioxygenase

(2014) M. Wojciechowski et al.   Open Biology

Near-isogenic lines of Triticum aestivum with distinct modes of resistance exhibit dissimilar transcriptional regulation during Diuraphis noxia feeding

(2014) A.-M. Botha et al.   Biology Open

Evolutionary insights into DNA methylation in insects

(2014) Karl M Glastad et al.   Current Opinion in Insect Science

A coevolutionary conundrum: the arms race between Diuraphis noxia (Kurdjumov) a specialist pest and its host Triticum aestivum (L.)

(2013) A.-M. Botha   Arthropod-Plant Interactions

Intronic Non-CG DNA hydroxymethylation and alternative mRNA splicing in honey bees

(2013) Pablo Cingolani et al.   BMC GENOMICS

The mysterious presence of a 5-methylcytosine oxidase in theDrosophilagenome

(2013) Thomas L Dunwell et al.   CELL CYCLE

Intragenic DNA methylation modulates alternative splicing by recruiting MeCP2 to promote exon recognition

(2013) Alika K Maunakea et al.   CELL RESEARCH

First evidence of DNA methylation in insectTribolium castaneum

(2013) Isidoro Feliciello et al.   Epigenetics

Patterning and Regulatory Associations of DNA Methylation Are Mirrored by Histone Modifications in Insects

(2013) Brendan G. Hunt et al.   Genome Biology and Evolution

The Function of Intragenic DNA Methylation: Insights from Insect Epigenomes

(2013) B. G. Hunt et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

DNA 5-Methylcytosine Demethylation Activities of the Mammalian DNA Methyltransferases

(2013) Chun-Chang Chen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

TET enzymes, TDG and the dynamics of DNA demethylation

(2013) Rahul M. Kohli et al.   NATURE

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

TETonic shift: biological roles of TET proteins in DNA demethylation and transcription

(2013) William A. Pastor et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Dnmt2-dependent methylomes lack defined DNA methylation patterns

(2013) G. Raddatz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide and Caste-Specific DNA Methylomes of the Ants Camponotus floridanus and Harpegnathos saltator

(2012) Roberto Bonasio et al.   CURRENT BIOLOGY

Epigenetic variation: origin and transgenerational inheritance

(2012) Claude Becker et al.   CURRENT OPINION IN PLANT BIOLOGY

Bleach gel: A simple agarose gel for analyzing RNA quality

(2012) Patrick S. Aranda et al.   ELECTROPHORESIS

The Mammaliande NovoDNA Methyltransferases DNMT3A and DNMT3B Are Also DNA 5-Hydroxymethylcytosine Dehydroxymethylases

(2012) Chun-Chang Chen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Polymorphism and Methylation of Four Genes Expressed in Salivary Glands of Russian Wheat Aphid (Homoptera: Aphididae)

(2012) Lu Gong et al.   JOURNAL OF ECONOMIC ENTOMOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Molecular Bases of Plant Resistance to Arthropods

(2011) C. Michael Smith et al.   Annual Review of Entomology

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

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

(2011) Bo Li et al.   BMC BIOINFORMATICS

Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids

(2011) Lakshminarayan M. Iyer et al.   CELL CYCLE

DNA methylation in insects: on the brink of the epigenomic era

(2011) K. M. Glastad et al.   INSECT MOLECULAR BIOLOGY

Distribution and Diversity of Russian Wheat Aphid (Hemiptera: Aphididae) Biotypes in South Africa and Lesotho

(2011) Astrid Jankielsohn   JOURNAL OF ECONOMIC ENTOMOLOGY

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

CTCF-promoted RNA polymerase II pausing links DNA methylation to splicing

(2011) Sanjeev Shukla et al.   NATURE

Uncovering the role of 5-hydroxymethylcytosine in the epigenome

(2011) Miguel R. Branco et al.   NATURE REVIEWS GENETICS

On the Evolutionary Origin of Eukaryotic DNA Methyltransferases and Dnmt2

(2011) Tomasz P. Jurkowski et al.   PLoS One

Insects as innovative models for functional studies of DNA methylation

(2011) Frank Lyko et al.   TRENDS IN GENETICS

Transcript Profiling of Wheat Genes Expressed During Feeding by Two Different Biotypes of Diuraphis noxia

(2010) Anna-Maria Botha et al.   ENVIRONMENTAL ENTOMOLOGY

Functional Conservation of DNA Methylation in the Pea Aphid and the Honeybee

(2010) Brendan G. Hunt et al.   Genome Biology and Evolution

A functional DNA methylation system in the pea aphid, Acyrthosiphon pisum

(2010) T. K. Walsh et al.   INSECT MOLECULAR BIOLOGY

Limited Endosymbiont Variation in Diuraphis noxia (Hemiptera: Aphididae) Biotypes From the United States and South Africa

(2010) Z. H. Swanevelder et al.   JOURNAL OF ECONOMIC ENTOMOLOGY

Conserved role of intragenic DNA methylation in regulating alternative promoters

(2010) Alika K. Maunakea et al.   NATURE

Single base–resolution methylome of the silkworm reveals a sparse epigenomic map

(2010) Hui Xiang et al.   NATURE BIOTECHNOLOGY

Conservation and divergence of methylation patterning in plants and animals

(2010) S. Feng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dnmt3a-Dependent Nonpromoter DNA Methylation Facilitates Transcription of Neurogenic Genes

(2010) H. Wu et al.   SCIENCE

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

The Honey Bee Epigenomes: Differential Methylation of Brain DNA in Queens and Workers

(2010) Frank Lyko et al.   PLOS BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Plant Responses to Seven Russian Wheat Aphid (Hemiptera: Aphididae) Biotypes Found in the United States

(2009) Terri L. Randolph et al.   JOURNAL OF ECONOMIC ENTOMOLOGY

Limited Genetic Variation Within and Between Russian Wheat Aphid (Hemiptera: Aphididae) Biotypes in the United States

(2009) Kevin A. Shufran et al.   JOURNAL OF ECONOMIC ENTOMOLOGY

Rethinking how DNA methylation patterns are maintained

(2009) Peter A. Jones et al.   NATURE REVIEWS GENETICS

Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1

(2009) M. Tahiliani et al.   SCIENCE

A water-specific aquaporin involved in aphid osmoregulation

(2008) A.J. Shakesby et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Crystal Structure of the Escherichia coli 23S rRNA:m5C Methyltransferase RlmI (YccW) Reveals Evolutionary Links between RNA Modification Enzymes

(2008) S. Sunita et al.   JOURNAL OF MOLECULAR BIOLOGY

Early Progress in Aphid Genomics and Consequences for Plant–Aphid Interactions Studies

(2008) Denis Tagu et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH