De novo transcriptome assembly of the grapevine phylloxera allows identification of genes differentially expressed between leaf- and root-feeding forms

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Accelerated Evolution of Morph-Biased Genes in Pea Aphids

(2014) Swapna R. Purandare et al.   MOLECULAR BIOLOGY AND EVOLUTION

Interkingdom Transfer of the Acne-Causing Agent, Propionibacterium acnes, from Human to Grapevine

(2014) Andrea Campisano et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Comparison of Next Generation Sequencing Technologies for Transcriptome Assembly and Utility for RNA-Seq in a Non-Model Bird

(2014) Findley R. Finseth et al.   PLoS One

Evolution of the Eye Transcriptome under Constant Darkness in Sinocyclocheilus Cavefish

(2013) Fanwei Meng et al.   MOLECULAR BIOLOGY AND EVOLUTION

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

The plover neurotranscriptome assembly: transcriptomic analysis in an ecological model species without a reference genome

(2013) Hooman K. Moghadam et al.   Molecular Ecology Resources

Characterization of Epiphytic Bacterial Communities from Grapes, Leaves, Bark and Soil of Grapevine Plants Grown, and Their Relations

(2013) Guilherme Martins et al.   PLoS One

Masculinization of the X Chromosome in the Pea Aphid

(2013) Julie Jaquiéry et al.   PLoS Genetics

Masculinization of Gene Expression Is Associated with Exaggeration of Male Sexual Dimorphism

(2013) Marie A. Pointer et al.   PLoS Genetics

Grape phylloxera (Daktulosphaira vitifoliae) - a review of potential detection and alternative management options

(2012) D. Benheim et al.   ANNALS OF APPLIED BIOLOGY

Cyclical Parthenogenesis and Viviparity in Aphids as Evolutionary Novelties

(2012) GREGORY K. DAVIS   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Gene duplication as a mechanism of genomic adaptation to a changing environment

(2012) F. A. Kondrashov   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Taxonomically restricted genes are associated with the evolution of sociality in the honey bee

(2011) Brian R Johnson et al.   BMC GENOMICS

Polyphenism in Insects

(2011) Stephen J. Simpson et al.   CURRENT BIOLOGY

Differences in bacterial diversity of host-associated populations of Phylloxera notabilis Pergande (Hemiptera: Phylloxeridae) in pecan and water hickory

(2011) R. F. MEDINA et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

The Ecoresponsive Genome of Daphnia pulex

(2011) J. K. Colbourne et al.   SCIENCE

DEVELOPMENTAL DECOUPLING OF ALTERNATIVE PHENOTYPES: INSIGHTS FROM THE TRANSCRIPTOMES OF HORN-POLYPHENIC BEETLES

(2010) Emilie C. Snell-Rood et al.   EVOLUTION

De Novo Analysis of Transcriptome Dynamics in the Migratory Locust during the Development of Phase Traits

(2010) Shuang Chen et al.   PLoS One

Genome Sequence of the Pea Aphid Acyrthosiphon pisum

(2010)   PLOS BIOLOGY

Immunity and other defenses in pea aphids, Acyrthosiphon pisum

(2010) Nicole M Gerardo et al.   GENOME BIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The Genetic Signature of Conditional Expression

(2009) J. D. Van Dyken et al.   GENETICS