Plant DNA barcoding: from gene to genome
ABSTRACT DNA barcoding is currently a widely used and effective tool that enables rapid
and accurate identification of plant species; however, none of the available loci work across …
and accurate identification of plant species; however, none of the available loci work across …
Whole‐genome sequencing approaches for conservation biology: Advantages, limitations and practical recommendations
AP Fuentes‐Pardo, DE Ruzzante - Molecular ecology, 2017 - Wiley Online Library
Whole‐genome resequencing (WGR) is a powerful method for addressing fundamental
evolutionary biology questions that have not been fully resolved using traditional methods …
evolutionary biology questions that have not been fully resolved using traditional methods …
HybPiper: Extracting coding sequence and introns for phylogenetics from high‐throughput sequencing reads using target enrichment
Premise of the study: Using sequence data generated via target enrichment for
phylogenetics requires reassembly of high‐throughput sequence reads into loci, presenting …
phylogenetics requires reassembly of high‐throughput sequence reads into loci, presenting …
Hyb‐Seq: Combining target enrichment and genome skimming for plant phylogenomics
• Premise of the study: Hyb‐Seq, the combination of target enrichment and genome
skimming, allows simultaneous data collection for low‐copy nuclear genes and high‐copy …
skimming, allows simultaneous data collection for low‐copy nuclear genes and high‐copy …
Navigating the tip of the genomic iceberg: Next‐generation sequencing for plant systematics
• Premise of the study: Just as Sanger sequencing did more than 20 years ago, next‐
generation sequencing (NGS) is poised to revolutionize plant systematics. By combining …
generation sequencing (NGS) is poised to revolutionize plant systematics. By combining …
Resolving the backbone of the Brassicaceae phylogeny for investigating trait diversity
The Brassicaceae family comprises c. 4000 species including economically important crops
and the model plant Arabidopsis thaliana. Despite their importance, the relationships among …
and the model plant Arabidopsis thaliana. Despite their importance, the relationships among …
Complete chloroplast and ribosomal sequences for 30 accessions elucidate evolution of Oryza AA genome species
Cytoplasmic chloroplast (cp) genomes and nuclear ribosomal DNA (nR) are the primary
sequences used to understand plant diversity and evolution. We introduce a high …
sequences used to understand plant diversity and evolution. We introduce a high …
Ultra‐barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA
• Premise of study: To reliably identify lineages below the species level such as subspecies
or varieties, we propose an extension to DNA‐barcoding using next‐generation sequencing …
or varieties, we propose an extension to DNA‐barcoding using next‐generation sequencing …
Targeted enrichment strategies for next‐generation plant biology
• Premise of the study: The dramatic advances offered by modern DNA sequencers continue
to redefine the limits of what can be accomplished in comparative plant biology. Even with …
to redefine the limits of what can be accomplished in comparative plant biology. Even with …
Phylogenomic analyses reveal a deep history of hybridization and polyploidy in the Neotropical genus Lachemilla (Rosaceae)
Hybridization, incomplete lineage sorting, and phylogenetic error produce similar
incongruence patterns, representing a great challenge for phylogenetic reconstruction …
incongruence patterns, representing a great challenge for phylogenetic reconstruction …