Building a model: developing genomic resources for common milkweed (Asclepias syriaca) with low coverage genome sequencing

Identification of errors introduced during high throughput sequencing of the T cell receptor repertoire

(2011) Phuong Nguyen et al.   BMC GENOMICS

Assembling the Tree of the Monocotyledons: Plastome Sequence Phylogeny and Evolution of Poales1

(2010) Thomas J. Givnish et al.   ANNALS OF THE MISSOURI BOTANICAL GARDEN

Repetitive part of the banana (Musa acuminata) genome investigated by low-depth 454 sequencing

(2010) Eva Hřibová et al.   BMC PLANT BIOLOGY

Next-generation sequencing of the Trichinella murrelli mitochondrial genome allows comprehensive comparison of its divergence from the principal agent of human trichinellosis, Trichinella spiralis

(2010) Kristen M. Webb et al.   INFECTION GENETICS AND EVOLUTION

Implications of the Plastid Genome Sequence of Typha (Typhaceae, Poales) for Understanding Genome Evolution in Poaceae

(2010) Mary M. Guisinger et al.   JOURNAL OF MOLECULAR EVOLUTION

Extreme Reconfiguration of Plastid Genomes in the Angiosperm Family Geraniaceae: Rearrangements, Repeats, and Codon Usage

(2010) M. M. Guisinger et al.   MOLECULAR BIOLOGY AND EVOLUTION

Insights into the Evolution of Mitochondrial Genome Size from Complete Sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae)

(2010) A. J. Alverson et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome-enabled development of DNA markers for ecology, evolution and conservation

(2010) ROBERT C. THOMSON et al.   MOLECULAR ECOLOGY

Chloroplast DNA-based studies in molecular ecology may be compromised by nuclear-encoded plastid sequence

(2010) WOLFGANG ARTHOFER et al.   MOLECULAR ECOLOGY

Establishing genomic tools and resources for Guizotia abyssinica (L.f.) Cass.-the development of a library of expressed sequence tags, microsatellite loci, and the sequencing of its chloroplast genome

(2010) HANNES DEMPEWOLF et al.   Molecular Ecology Resources

Chloroplast genome sequences from total DNA for plant identification

(2010) Catherine J. Nock et al.   PLANT BIOTECHNOLOGY JOURNAL

Combining Next-Generation Sequencing Strategies for Rapid Molecular Resource Development from an Invasive Aphid Species, Aphis glycines

(2010) Xiaodong Bai et al.   PLoS One

Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots

(2010) M. J. Moore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic and small RNA sequencing of Miscanthus × giganteus shows the utility of sorghum as a reference genome sequence for Andropogoneae grasses

(2010) Kankshita Swaminathan et al.   GENOME BIOLOGY

Tablet--next generation sequence assembly visualization

(2009) I. Milne et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Fast, cost-effective development of species-specific microsatellite markers by genomic sequencing

(2009) Jawad Abdelkrim et al.   BIOTECHNIQUES

Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes

(2009) Matthew Parks et al.   BMC BIOLOGY

Analysis of complete mitochondrial genomes from extinct and extant rhinoceroses reveals lack of phylogenetic resolution

(2009) Eske Willerslev et al.   BMC EVOLUTIONARY BIOLOGY

What can you do with 0.1× genome coverage? A case study based on a genome survey of the scuttle fly Megaselia scalaris (Phoridae)

(2009) David A Rasmussen et al.   BMC GENOMICS

Cardenolides, induced responses, and interactions between above- and belowground herbivores of milkweed (Asclepiasspp.)

(2009) Sergio Rasmann et al.   ECOLOGY

Rapid identification of thousands of copperhead snake (Agkistrodon contortrix) microsatellite loci from modest amounts of 454 shotgun genome sequence

(2009) TODD A. CASTOE et al.   Molecular Ecology Resources

Molecular evolution of 5S rDNA region in Vigna subgenus Ceratotropis and its phylogenetic implications

(2009) Ajay Saini et al.   PLANT SYSTEMATICS AND EVOLUTION

Harnessing genomics for evolutionary insights

(2009) Antonis Rokas et al.   TRENDS IN ECOLOGY & EVOLUTION

Sampling the Waterhemp (Amaranthus tuberculatus) Genome Using Pyrosequencing Technology

(2009) Ryan M. Lee et al.   WEED SCIENCE

GenomeVx: simple web-based creation of editable circular chromosome maps

(2008) G. C. Conant et al.   BIOINFORMATICS

BatchPrimer3: A high throughput web application for PCR and sequencing primer design

(2008) Frank M You et al.   BMC BIOINFORMATICS

Comparative BAC end sequence analysis of tomato and potato reveals overrepresentation of specific gene families in potato

(2008) Erwin Datema et al.   BMC PLANT BIOLOGY

Molecular organization of 5S rDNA in bitterlings (Cyprinidae)

(2008) Mika Fujiwara et al.   GENETICA

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Extensive Rearrangements in the Chloroplast Genome of Trachelium caeruleum Are Associated with Repeats and tRNA Genes

(2008) Rosemarie C. Haberle et al.   JOURNAL OF MOLECULAR EVOLUTION

Extensive Reorganization of the Plastid Genome of Trifolium subterraneum (Fabaceae) Is Associated with Numerous Repeated Sequences and Novel DNA Insertions

(2008) Zhengqiu Cai et al.   JOURNAL OF MOLECULAR EVOLUTION

Frequent, Phylogenetically Local Horizontal Transfer of the cox1 Group I Intron in Flowering Plant Mitochondria

(2008) M. V. Sanchez-Puerta et al.   MOLECULAR BIOLOGY AND EVOLUTION

Characterization of a deep-coverage carrot (Daucus carota L.) BAC library and initial analysis of BAC-end sequences

(2008) Pablo F. Cavagnaro et al.   MOLECULAR GENETICS AND GENOMICS

Complete plastid genome sequence of the chickpea (Cicer arietinum) and the phylogenetic distribution of rps12 and clpP intron losses among legumes (Leguminosae)

(2008) Robert K. Jansen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The complete nucleotide sequences of the five genetically distinct plastid genomes of Oenothera , subsection Oenothera : I. Sequence evaluation and plastome evolution †

(2008) Stephan Greiner et al.   NUCLEIC ACIDS RESEARCH

The Leaf Epidermome of Catharanthus roseus Reveals Its Biochemical Specialization

(2008) J. Murata et al.   PLANT CELL

Phylogenetic utility of ycf1 in orchids: a plastid gene more variable than matK

(2008) Kurt M. Neubig et al.   PLANT SYSTEMATICS AND EVOLUTION

Phylogenetic escalation and decline of plant defense strategies

(2008) A. A. Agrawal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Are we there yet? Tracking the development of new model systems

(2008) Arhat Abzhanov et al.   TRENDS IN GENETICS

Reevaluation of the cox1 Group I Intron in Araceae and Angiosperms Indicates a History Dominated by Loss rather than Horizontal Transfer

(2007) N. Cusimano et al.   MOLECULAR BIOLOGY AND EVOLUTION

Sequencing breakthroughs for genomic ecology and evolutionary biology

(2007) MATTHEW E. HUDSON   Molecular Ecology Resources