Mechanisms and Dynamics of Orphan Gene Emergence in Insect Genomes

Newly evolved genes: Moving from comparative genomics to functional studies in model systems

(2012) José M. Ranz et al.   BIOESSAYS

Adaptive Evolution of C4 Photosynthesis through Recurrent Lateral Gene Transfer

(2012) Pascal-Antoine Christin et al.   CURRENT BIOLOGY

Proto-genes and de novo gene birth

(2012) Anne-Ruxandra Carvunis et al.   NATURE

A beginner's guide to eukaryotic genome annotation

(2012) Mark Yandell et al.   NATURE REVIEWS GENETICS

Adaptive horizontal transfer of a bacterial gene to an invasive insect pest of coffee

(2012) R. Acuna et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Systematic Survey of Loss-of-Function Variants in Human Protein-Coding Genes

(2012) D. G. MacArthur et al.   SCIENCE

Characterization of taxonomically restricted genes in a phylum-restricted cell type

(2012) Sabine Milde et al.   GENOME BIOLOGY

Comparative Genetics and Genomics of Nematodes: Genome Structure, Development, and Lifestyle

(2011) Ralf J. Sommer et al.   Annual Review of Genetics

Exonization of transposed elements: A challenge and opportunity for evolution

(2011) Jürgen Schmitz et al.   BIOCHIMIE

Evolutionary origins of Brassicaceae specific genes in Arabidopsis thaliana

(2011) Mark TA Donoghue et al.   BMC EVOLUTIONARY BIOLOGY

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

(2011) Brian R Johnson et al.   BMC GENOMICS

Horizontal gene transfer in silkworm, Bombyx mori

(2011) Bo Zhu et al.   BMC GENOMICS

Putatively Noncoding Transcripts Show Extensive Association with Ribosomes

(2011) Benjamin A. Wilson et al.   Genome Biology and Evolution

Effects of Inversions on Within- and Between-Species Recombination and Divergence

(2011) Laurie S. Stevison et al.   Genome Biology and Evolution

The genome of the leaf-cutting antAcromyrmex echinatiorsuggests key adaptations to advanced social life and fungus farming

(2011) Sanne Nygaard et al.   GENOME RESEARCH

The genome of Tetranychus urticae reveals herbivorous pest adaptations

(2011) Miodrag Grbić et al.   NATURE

The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

(2011) Tina T Hu et al.   NATURE GENETICS

The evolutionary origin of orphan genes

(2011) Diethard Tautz et al.   NATURE REVIEWS GENETICS

FlyBase 101 - the basics of navigating FlyBase

(2011) P. McQuilton et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Rapid Evolution of Coral Proteins Responsible for Interaction with the Environment

(2011) Christian R. Voolstra et al.   PLoS One

Draft genome of the globally widespread and invasive Argentine ant (Linepithema humile)

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

The genome of the fire ant Solenopsis invicta

(2011) Y. Wurm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Draft genome of the red harvester ant Pogonomyrmex barbatus

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

The Ecoresponsive Genome of Daphnia pulex

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

Creating a Buzz About Insect Genomes

(2011) G. E. Robinson et al.   SCIENCE

Horizontal gene transfer between bacteria and animals

(2011) Julie C. Dunning Hotopp   TRENDS IN GENETICS

The genomic impact of 100 million years of social evolution in seven ant species

(2011) Jürgen Gadau et al.   TRENDS IN GENETICS

Accelerated Recruitment of New Brain Development Genes into the Human Genome

(2011) Yong E. Zhang et al.   PLOS BIOLOGY

De Novo Origins of Human Genes

(2011) Daniele Guerzoni et al.   PLoS Genetics

The Genome Sequence of the Leaf-Cutter Ant Atta cephalotes Reveals Insights into Its Obligate Symbiotic Lifestyle

(2011) Garret Suen et al.   PLoS Genetics

De Novo Origin of Human Protein-Coding Genes

(2011) Dong-Dong Wu et al.   PLoS Genetics

Structural Variation in the Human Genome and its Role in Disease

(2010) Paweł Stankiewicz et al.   Annual Review of Medicine

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Gene Duplication and Environmental Adaptation within Yeast Populations

(2010) Ryan M. Ames et al.   Genome Biology and Evolution

Origins, evolution, and phenotypic impact of new genes

(2010) H. Kaessmann   GENOME RESEARCH

AphidBase: a centralized bioinformatic resource for annotation of the pea aphid genome

(2010) F. Legeai et al.   INSECT MOLECULAR BIOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Hymenoptera Genome Database: integrated community resources for insect species of the order Hymenoptera

(2010) M. C. Munoz-Torres et al.   NUCLEIC ACIDS RESEARCH

Genomic Comparison of the Ants Camponotus floridanus and Harpegnathos saltator

(2010) R. Bonasio et al.   SCIENCE

New Genes in Drosophila Quickly Become Essential

(2010) S. Chen et al.   SCIENCE

Functional and Evolutionary Insights from the Genomes of Three Parasitoid Nasonia Species

(2010) J. H. Werren et al.   SCIENCE

Lateral Transfer of Genes from Fungi Underlies Carotenoid Production in Aphids

(2010) N. A. Moran et al.   SCIENCE

New tricks with old genes: the genetic bases of novel cnidarian traits

(2010) Sylvain Forêt et al.   TRENDS IN GENETICS

Horizontal gene transfer between Wolbachia and the mosquito Aedes aegypti

(2009) Lisa Klasson et al.   BMC GENOMICS

Retroelements and their impact on genome evolution and functioning

(2009) Elena Gogvadze et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Duplication hotspots, rare genomic disorders, and common disease

(2009) Heather C Mefford et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

The adaptive role of transposable elements in the Drosophila genome

(2009) Josefa González et al.   GENE

The Contribution of Transposable Elements to Expressed Coding Sequence in Arabidopsis thaliana

(2009) Steven Lockton et al.   JOURNAL OF MOLECULAR EVOLUTION

BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum

(2009) Hee Shin Kim et al.   NUCLEIC ACIDS RESEARCH

SilkDB v2.0: a platform for silkworm (Bombyx mori) genome biology

(2009) Jun Duan et al.   NUCLEIC ACIDS RESEARCH

More than just orphans: are taxonomically-restricted genes important in evolution?

(2009) Konstantin Khalturin et al.   TRENDS IN GENETICS

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

The Impact of Natural Selection on the Genome: Emerging Patterns in Drosophila and Arabidopsis

(2008) Stephen I. Wright et al.   Annual Review of Ecology Evolution and Systematics

Alternative translation start sites and hidden coding potential of eukaryotic mRNAs

(2008) Alex V. Kochetov   BIOESSAYS

Non-random retention of protein-coding overlapping genes in Metazoa

(2008) Giulia Soldà et al.   BMC GENOMICS

Overlapping genes in the human and mouse genomes

(2008) Chaitanya R Sanna et al.   BMC GENOMICS

Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution

(2008) Sean B. Carroll   CELL

De Novo Origination of a New Protein-Coding Gene in Saccharomyces cerevisiae

(2008) J. Cai et al.   GENETICS

On the origin of new genes in Drosophila

(2008) Q. Zhou et al.   GENOME RESEARCH

Origin of Primate Orphan Genes: A Comparative Genomics Approach

(2008) M. Toll-Riera et al.   MOLECULAR BIOLOGY AND EVOLUTION

Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes

(2008) Dacheng Tian et al.   NATURE

Alternative splicing of Alu exons—two arms are better than one

(2008) Nurit Gal-Mark et al.   NUCLEIC ACIDS RESEARCH

VectorBase: a data resource for invertebrate vector genomics

(2008) D. Lawson et al.   NUCLEIC ACIDS RESEARCH

Massive Horizontal Gene Transfer in Bdelloid Rotifers

(2008) E. A. Gladyshev et al.   SCIENCE

A Novel Gene Family Controls Species-Specific Morphological Traits in Hydra

(2008) Konstantin Khalturin et al.   PLOS BIOLOGY

Wolbachia genome integrated in an insect chromosome: Evolution and fate of laterally transferred endosymbiont genes

(2007) N. Nikoh et al.   GENOME RESEARCH

Wolbachia in leafcutter ants: a widespread symbiont that may induce male killing or incompatible matings

(2003) S. Van Borm et al.   JOURNAL OF EVOLUTIONARY BIOLOGY