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dc.contributor.authorMcDonnell, Angela J.
dc.contributor.authorBaker, William J.
dc.contributor.authorDodsworth, Steven
dc.contributor.authorForest, Felix
dc.contributor.authorGraham, Sean W.
dc.contributor.authorJohnson, Matthew G.
dc.contributor.authorPokorny, Lisa
dc.contributor.authorTate, Jennifer
dc.contributor.authorWickett, Norman J.
dc.contributor.authorWicke, Susann
dc.date.accessioned2021-08-03T09:25:15Z
dc.date.available2021-07-26T00:00:00Z
dc.date.available2021-08-03T09:25:15Z
dc.date.issued2021-07-26
dc.identifier.citationMcDonnell AJ, Baker WJ, Dodsworth S, Forest F, Graham SW, Johnson MG, Pokorny L, Tate J, Wicke S, Wickett NJ (2021) 'Exploring Angiosperms353: developing and applying a universal toolkit for flowering plant phylogenomics', Applications in Plant Sciences, 9 (7) e11443.en_US
dc.identifier.issn2168-0450
dc.identifier.pmid34336400
dc.identifier.doi10.1002/aps3.11443
dc.identifier.urihttp://hdl.handle.net/10547/625063
dc.description.abstractSpecial Issue Introduction. Target enrichment represents a useful, cost-effective method for researchers working on the phylogenomics of non-model organisms (e.g., Cronn et al., 2012; Hale et al., 2020). The ability to sequence a customizable predefined genomic subset for several dozens or even hundreds of taxa allows in-depth analyses and the testing of phylogenetic hypotheses in ways that were not previously possible (reviewed in McKain et al., 2018). The most popular methods for targeted sequencing of genomic loci in phylogenomics include (long-)amplicon sequencing (Rothfels et al., 2017) and hybridization capture (Mandel et al., 2014; Weitemier et al., 2014). Targeted amplicon sequencing is based on single-fragment PCR amplification or by using multiplexing methods such as a microfluidic PCR-based amplification of multiple pre-selected genomic regions (e.g., Zhang and Ozdemir, 2009; Ho et al., 2014), which can then be pooled and sequenced. Massively parallel amplicon sequencing was first used in medical diagnostics (Turner et al., 2009) and was later applied to metazoan phylogenetics (Bybee et al., 2011; O’Neill et al., 2013). Microfluidic PCR and long-amplicon sequencing were subsequently applied in plant systematics (Uribe-Convers et al., 2014, 2016; Gostel et al., 2015). Amplicon-based methods can be time consuming as they require careful optimization and validation of primers. These methods are also susceptible to many of the common problems in PCR (such as nonspecific products, inability to amplify large loci in their entirety, or simply no products). Recently, amplicon approaches have been largely supplanted by hybridization-based targeted enrichment, which allows for relatively rapid probe design with reference to a few related transcriptomes or genomes, and allows simultaneous and efficient recovery of many hundreds of genes.en_US
dc.language.isoenen_US
dc.publisherWileyen_US
dc.relation.urlhttps://bsapubs.onlinelibrary.wiley.com/doi/10.1002/aps3.11443en_US
dc.rightsGreen - can archive pre-print and post-print or publisher's version/PDF
dc.rightsAttribution-NonCommercial-NoDerivatives 4.0 International*
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/*
dc.subjectAngiosperms353en_US
dc.subjectphylogenomicsen_US
dc.subjectSubject Categories::C200 Botanyen_US
dc.titleExploring Angiosperms353: developing and applying a universal toolkit for flowering plant phylogenomicsen_US
dc.typeArticleen_US
dc.contributor.departmentChicago Botanic Gardenen_US
dc.contributor.departmentRoyal Botanic Gardens, Kewen_US
dc.contributor.departmentUniversity of Bedfordshireen_US
dc.contributor.departmentUniversity of British Columbiaen_US
dc.contributor.departmentTexas Tech Universityen_US
dc.contributor.departmentCentre for Plant Biotechnology and Genomics (CBGP) UPM-INIA- CSICen_US
dc.contributor.departmentMassey Universityen_US
dc.contributor.departmentUniversity of Münsteren_US
dc.contributor.departmentHumboldt-Universität zu Berlinen_US
dc.identifier.journalApplications in Plant Sciencesen_US
dc.identifier.pmcidPMC8312743
dc.date.updated2021-08-03T09:18:02Z
dc.description.notegold open access


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