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dc.contributor.authorPark, Sang-Hyuck
dc.contributor.authorSteichen, Seth Alan
dc.contributor.authorBrown, Judith K.
dc.date.accessioned2021-03-26T20:38:33Z
dc.date.available2021-03-26T20:38:33Z
dc.date.issued2021-02-24
dc.identifier.citationPark, SH., Steichen, S.A. & Brown, J.K. Single nucleotide polymorphism-mismatch primer development for rapid molecular identification of selected microalgal species. J Appl Phycol (2021).en_US
dc.identifier.issn0921-8971
dc.identifier.doi10.1007/s10811-021-02409-z
dc.identifier.urihttp://hdl.handle.net/10150/657226
dc.description.abstractMicroalgae have been a great source for food, cosmetic, pharmacological, and biofuel production. The adoption of effective diagnostic assays for monitoring all stages of algal cultivation has become essential. In addition to microscopy identification, molecular assays can aid greatly in the identification and monitoring of algal species of interest. In this study the 18S ribosomal RNA (rRNA) sequences of 12 microalgal species and/or strains were used to design algal identification primers. Sequence alignment revealed five highly variable regions and multiple unique single nucleotide polymorphisms (SNPs). To design target algae specific primers, a SNP identified as unique to each microalgal species was incorporated into the 3’-terminus of forward and reverse primer pairs, respectively. To further enhance primer specificity, transverse mutation was introduced into each primer at the third base upstream of the respective SNP. The SNP-mismatch primer pairs yield size-specific amplicons, enabling the rapid molecular detection of 12 microalgae by circumventing cloning and sequencing. To verify the primer specificity, two SNP-mismatch primer pairs designed for Chlorella sorokiniana DOE1412 and wildtype species of Scenedesmus were tested in the outdoor reactor run inoculated with C. sorokiniana DOE1412. The primer pairs were able to identify C. sorokiniana DOE1412 as well as the environmental invader Scenedesmus sp. Furthermore, the “relative concentration” of two microalgae was accessed throughout the entire cultivation run. The use of SNPs primers designed in this study offers a cost-effective, easy to use alternative for routine monitoring of microalgal cultures in laboratories, in scale-ups, and in cultivation reactors, independent of the production platform. © 2021, The Author(s), under exclusive licence to Springer Nature B.V. part of Springer Nature.en_US
dc.description.sponsorshipUS Department of Energyen_US
dc.language.isoenen_US
dc.publisherSpringer Science and Business Media LLCen_US
dc.rights© The Author(s), under exclusive licence to Springer Nature B.V. part of Springer Nature 2021.en_US
dc.rights.urihttp://rightsstatements.org/vocab/InC/1.0/en_US
dc.subjectMicroalgaeen_US
dc.subjectMolecular diagnosticsen_US
dc.subjectQuality controlen_US
dc.subjectSingle nucleotide polymorphismen_US
dc.titleSingle nucleotide polymorphism-mismatch primer development for rapid molecular identification of selected microalgal speciesen_US
dc.typeArticleen_US
dc.identifier.eissn1573-5176
dc.contributor.departmentSchool of Plant Sciences, The University of Arizonaen_US
dc.identifier.journalJournal of Applied Phycologyen_US
dc.description.note12 month embargo; published 24 February 2021en_US
dc.description.collectioninformationThis item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at repository@u.library.arizona.edu.en_US
dc.eprint.versionFinal accepted manuscripten_US
dc.identifier.pii2409
dc.source.journaltitleJournal of Applied Phycology


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