ArticleApplications in plant sciences2017
An efficient field and laboratory workflow for plant phylotranscriptomic projects.
Article in Applications in plant sciences, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 27 citations in OpenAlex.
- Evolution in arid environments: the role of betalains, succulence, and medullary bundles.The New phytologist · 2026Article
- Origin of subgenomes in the circumboreal, allopolyploid, carnivorous plant Drosera anglica.American journal of botany · 2026Article
- Transcriptome data from silica-preserved leaf tissue reveal gene flow patterns in a Caribbean bromeliad.Annals of botany · 2024Article
- Review
- Can functional genomic diversity provide novel insights into mechanisms of community assembly? A pilot study from an invaded alpine streambed.Ecology and evolution · 2021Article
- Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l.Systematic biology · 2021Article
- Pilot RNA-seq data from 24 species of vascular plants at Harvard Forest.Applications in plant sciences · 2021Article
- The first bioactivity studies ofSaudi journal of biological sciences · 2020Article
- Practical considerations for plant phylogenomics.Applications in plant sciences · 2018Review
- A protocol for high-throughput, untargeted forest community metabolomics using mass spectrometry molecular networks.Applications in plant sciences · 2018Article
- Genome-Guided Phylo-Transcriptomic Methods and the Nuclear Phylogentic Tree of the Paniceae Grasses.Scientific reports · 2017Article
Corrections and comments
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Authors and funding
8 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
premise of the studyWe describe a field and laboratory workflow developed for plant phylotranscriptomic projects that involves cryogenic tissue collection in the field, RNA extraction and quality control, and library preparation. We also make recommendations for sample curation. METHODS AND
resultsA total of 216 frozen tissue samples of Caryophyllales and other angiosperm taxa were collected from the field or botanical gardens. RNA was extracted, stranded mRNA libraries were prepared, and libraries were sequenced on Illumina HiSeq platforms. These included difficult mucilaginous tissues such as those of Cactaceae and Droseraceae.
conclusionsOur workflow is not only cost effective (ca. $270 per sample, as of August 2016, from tissue to reads) and time efficient (less than 50 h for 10-12 samples including all laboratory work and sample curation), but also has proven robust for extraction of difficult samples such as tissues containing high levels of secondary compounds.
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