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Designing a transcriptome next‐generation sequencing project for a nonmodel plant species1
SR Strickler, A Bombarely… - American journal of …, 2012 - Wiley Online Library
The application of next‐generation sequencing (NGS) to transcriptomics, commonly called
RNA‐seq, allows the nearly complete characterization of transcriptomic events occurring in …
RNA‐seq, allows the nearly complete characterization of transcriptomic events occurring in …
Catalyzing plant science research with RNA-seq
Next generation DNA sequencing technologies are driving increasingly rapid, affordable
and high resolution analyses of plant transcriptomes through sequencing of their associated …
and high resolution analyses of plant transcriptomes through sequencing of their associated …
Evolution of the PEBP gene family in plants: functional diversification in seed plant evolution
The phosphatidyl ethanolamine-binding protein (PEBP) gene family is present in all
eukaryote kingdoms, with three subfamilies identified in angiosperms (FLOWERING LOCUS …
eukaryote kingdoms, with three subfamilies identified in angiosperms (FLOWERING LOCUS …
The evolutionary history of ferns inferred from 25 low‐copy nuclear genes
• Premise of the study: Understanding fern (monilophyte) phylogeny and its evolutionary
timescale is critical for broad investigations of the evolution of land plants, and for providing …
timescale is critical for broad investigations of the evolution of land plants, and for providing …
Transcriptome Analysis and SSR/SNP Markers Information of the Blunt Snout Bream (Megalobrama amblycephala)
Background Blunt snout bream (Megalobrama amblycephala) is an herbivorous freshwater
fish species native to China and has been recognized as a main aquaculture species in the …
fish species native to China and has been recognized as a main aquaculture species in the …
Simultaneous diversification of Polypodiales and angiosperms in the Mesozoic
Comprising about 82% of the extant fern species diversity, Polypodiales are generally
believed to have diversified in the Late Cretaceous. We estimated the divergence times of …
believed to have diversified in the Late Cretaceous. We estimated the divergence times of …
Comparative transcriptome analyses reveal core parasitism genes and suggest gene duplication and repurposing as sources of structural novelty
The origin of novel traits is recognized as an important process underlying many major
evolutionary radiations. We studied the genetic basis for the evolution of haustoria, the novel …
evolutionary radiations. We studied the genetic basis for the evolution of haustoria, the novel …
Strategies for transcriptome analysis in nonmodel plants
Even with recent reductions in sequencing costs, most plants lack the genomic resources
required for successful short‐read transcriptome analyses as performed routinely in model …
required for successful short‐read transcriptome analyses as performed routinely in model …
Reprint of: using nuclear gene data for plant phylogenetics: progress and prospects
The paper reviews the current state of low and single copy nuclear markers that have been
applied successfully in plant phylogenetics to date, and discusses case studies highlighting …
applied successfully in plant phylogenetics to date, and discusses case studies highlighting …
Selecting Superior De Novo Transcriptome Assemblies: Lessons Learned by Leveraging the Best Plant Genome
Whereas de novo assemblies of RNA-Seq data are being published for a growing number of
species across the tree of life, there are currently no broadly accepted methods for …
species across the tree of life, there are currently no broadly accepted methods for …