Transcriptomics of the Rooibos (Aspalathus linearis) Species Complex

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dc.contributor.authorStander, Emily Amor
dc.contributor.authorWilliams, Wesley
dc.contributor.authorMgwatu, Yamkela
dc.contributor.authorHesse, Uljana
dc.contributor.authorvan Heusden, Peter
dc.date.accessioned2021-09-27T07:01:52Z
dc.date.available2021-09-27T07:01:52Z
dc.date.issued2020
dc.description.abstractRooibos (Aspalathus linearis), widely known as a herbal tea, is endemic to the Cape Floristic Region of South Africa (SA). It produces a wide range of phenolic compounds that have been associated with diverse health-promoting properties of the plant. The species comprises several growth forms that differ in their morphology and biochemical composition, only one of which is cultivated and used commercially. Here, we established methodologies for non-invasive transcriptome research of wild-growing South African plant species, including (1) harvesting and transport of plant material suitable for RNA sequencing; (2) inexpensive, high-throughput biochemical sample screening; (3) extraction of high-quality RNA from recalcitrant, polysaccharide- and polyphenol-rich plant material; and (4) biocomputational analysis of Illumina sequencing data, together with the evaluation of programs for transcriptome assembly (Trinity, IDBA-Trans, SOAPdenovo-Trans, CLC), protein prediction, as well as functional and taxonomic transcript annotation. In the process, we established a biochemically characterized sample pool from 44 distinct rooibos ecotypes (1–5 harvests) and generated four in-depth annotated transcriptomes (each comprising on average ≈86,000 transcripts) from rooibos plants that represent distinct growth forms and differ in their biochemical profiles. These resources will serve future rooibos research and plant breeding endeavors.en_US
dc.identifier.citationStander EA, Williams W, Mgwatyu Y, Heusden Pv, Rautenbach F, Marnewick J, Roes-Hill ML, Hesse U. Transcriptomics of the Rooibos (Aspalathus linearis) Species Complex. BioTech. 2020; 9(4):19. https://doi.org/10.3390/biotech9040019en_US
dc.identifier.uri10.3390/biotech9040019
dc.identifier.urihttp://hdl.handle.net/10566/6810
dc.language.isoenen_US
dc.publisherMDPIen_US
dc.subjectRooibosen_US
dc.subjectAspalathus linearisen_US
dc.subjectMedicinal plantsen_US
dc.subjectNon-model organismen_US
dc.subjectTranscriptomicsen_US
dc.subjectMethodsen_US
dc.subjectEvaluationen_US
dc.subjectNGSen_US
dc.subjectRNA-seqen_US
dc.subjectBiochemical screeningen_US
dc.subjectBioinformaticsen_US
dc.titleTranscriptomics of the Rooibos (Aspalathus linearis) Species Complexen_US
dc.typeArticleen_US

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