Global high-throughput genotyping of organellar genomes reveals insights into the origin and spread of invasive starry stonewort (Nitellopsis obtusa)

Biology, ecology, and management of starry stonewort ( Nitellopsis obtusa ; Characeae): A Red-listed Eurasian green alga invasive in North America

(2018) Daniel J. Larkin et al.   AQUATIC BOTANY

The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization

(2018) Tomoaki Nishiyama et al.   CELL

Genome skimming herbarium specimens for DNA barcoding and phylogenomics

(2018) Chun-Xia Zeng et al.   Plant Methods

Untangling climate and water chemistry to predict changes in freshwater macrophyte distributions

(2018) Robin S. Sleith et al.   Ecology and Evolution

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

Discovery of the oldest record of Nitellopsis obtusa (Charophyceae, Charophyta) in North America

(2017) Kenneth G. Karol et al.   JOURNAL OF PHYCOLOGY

Impacts of the cryptic macroalgal invader, Nitellopsis obtusa, on macrophyte communities

(2017) Andrew S. Brainard et al.   Freshwater Science

Impacts of the cryptic macroalgal invader, Nitellopsis obtusa, on macrophyte communities

(2017) Andrew S. Brainard et al.   Freshwater Science

Rice Chloroplast Genome Variation Architecture and Phylogenetic Dissection in Diverse Oryza Species Assessed by Whole-Genome Resequencing

(2016) Wei Tong et al.   Rice

Global threats from invasive alien species in the twenty-first century and national response capacities

(2016) Regan Early et al.   Nature Communications

Realized niche shift associated with the Eurasian charophyte Nitellopsis obtusa becoming invasive in North America

(2016) Luis E. Escobar et al.   Scientific Reports

Low genetic diversity despite multiple introductions of the invasive plant species Impatiens glandulifera in Europe

(2015) Jenny Hagenblad et al.   BMC GENETICS

Distribution of Nitellopsis obtusa (Characeae) in New York, U.S.A.

(2015) Robin S. Sleith et al.   BRITTONIA

Genetic reconstructions of invasion history

(2015) Melania E. Cristescu   MOLECULAR ECOLOGY

Intra-individual polymorphism in chloroplasts from NGS data: where does it come from and how to handle it?

(2015) N. Scarcelli et al.   Molecular Ecology Resources

Novel R tools for analysis of genome-wide population genetic data with emphasis on clonality

(2015) Zhian N. Kamvar et al.   Frontiers in Genetics

Origin of the invasive Arundo donax (Poaceae): a trans-Asian expedition in herbaria

(2014) Laurent Hardion et al.   ANNALS OF BOTANY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Phylogeny of North AmericanTolypella(Charophyceae, Charophyta) based on plastid DNA sequences with a description ofTolypella ramosissimasp. nov.

(2014) William Pérez et al.   JOURNAL OF PHYCOLOGY

Rapid genetic adaptation precedes the spread of an exotic plant species

(2014) Katrien Vandepitte et al.   MOLECULAR ECOLOGY

Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and/or sexual reproduction

(2014) Zhian N. Kamvar et al.   PeerJ

Ecological genomics of local adaptation

(2013) Outi Savolainen et al.   NATURE REVIEWS GENETICS

OrganellarGenomeDRAW—a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets

(2013) Marc Lohse et al.   NUCLEIC ACIDS RESEARCH

Genomic Treasure Troves: Complete Genome Sequencing of Herbarium and Insect Museum Specimens

(2013) Martijn Staats et al.   PLoS One

Ultra-barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA

(2012) Nolan Kane et al.   AMERICAN JOURNAL OF BOTANY

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory

(2012) Mark J Chaisson et al.   BMC BIOINFORMATICS

VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing

(2012) D. C. Koboldt et al.   GENOME RESEARCH

Complete Chloroplast Genome Sequence of a Major Invasive Species, Crofton Weed (Ageratina adenophora)

(2012) Xiaojun Nie et al.   PLoS One

Navigating the tip of the genomic iceberg: Next-generation sequencing for plant systematics

(2011) Shannon C. K. Straub et al.   AMERICAN JOURNAL OF BOTANY

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Applications of next-generation sequencing to phylogeography and phylogenetics

(2011) John E. McCormack et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Invasion strategies in clonal aquatic plants: are phenotypic differences caused by phenotypic plasticity or local adaptation?

(2010) Tenna Riis et al.   ANNALS OF BOTANY

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

Molecular Poltergeists: Mitochondrial DNA Copies (numts) in Sequenced Nuclear Genomes

(2010) Einat Hazkani-Covo et al.   PLoS Genetics

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS

Ecological Genetics of Plant Invasion: What Do We Know?

(2008) Sarah M. Ward et al.   Invasive Plant Science and Management