Refinements for the amplification and sequencing of red algal DNA barcode and RedToL phylogenetic markers: a summary of current primers, profiles and strategies

• Published in: Algae (Korean Phycological Society) Vol. 28; no. 1; pp. 31 - 43
• Main Authors: Saunders, Gary W, Moore, Tanya E
• Format: Journal Article
• Language: English
• Published: Seoul Korean Society of Phycology (Han'gug Joryu Haghoe) 01.03.2013; 한국조류학회I
• Subjects: Bangiales; Bangiophyceae; 생물학
• ISSN: 1226-2617; 2093-0860
• DOI: 10.4490/algae.2013.28.1.031

This review provides a comprehensive summary of the PCR primers and profiles currently in use in our laboratory for red algal DNA barcoding and phylogenetic research. While work focuses on florideophyte taxa, many of the markers have been applied successfully to the Bangiales, as well as other lineages previously assigned to the Bangiophyceae sensu lato. All of the primers currently in use with their respective amplification profiles and strategies are provided, which can include full fragment, overlapping fragments and what might best be called "informed overlapping fragments", i.e., a fragment for a marker is amplified and sequenced for a taxon and those sequence data are then used to identify the best primers to amplify the remaining fragment(s) for that marker. We extend this strategy for the more variable markers with sequence from the external PCR primers used to "inform" the selection of internal sequencing primers. This summary will hopefully serve as a useful resource to systematists in the red algal community. [PUBLICATION ABSTRACT]