Monitoring of phytoplankton community structure using terminal restriction fragment length polymorphism (T-RFLP)

A combined sequence-based and fragment-based characterization of microbial eukaryote assemblages provides taxonomic context for the Terminal Restriction Fragment Length Polymorphism (T-RFLP) method

“…2A and B;5A and B). Fragment-based approaches have been used to characterize natural assemblages of microbial eukaryotes including pico-eukaryotes from different oceanic regimes (Diez et al, 2001a), identify distinct sea-ice and water assemblages of protistan taxa from the Ross Sea in Antarctica (Gast et al, 2004), establish rapid changes in a protistan assemblage during a bottle incubation experiment (Countway et al, 2005), characterize ciliate communities in stream biofilms (Dopheide et al, 2008), document rapid shifts in dominant taxa in an estuary system (Vigil et al, 2009), and monitor the dynamics of potentially harmful algal bloom causing species (Joo et al, 2010). A primary advantage of the T-RFLP method in these studies has been the ability to analyze the large numbers of samples that are often required for ecological studies.…”

“…T-RFLP has been commonly used to characterize microbial eukaryote assemblages (Countway et al, 2005;Dopheide et al, 2008;Euringer and Lueders, 2008;Vigil et al, 2009;Joo et al, 2010;Steele et al, 2011;Balzano et al, 2012). OTU calling for the T-RFLP method is predicated on the assumption that different species will yield DNA fragments of unique length.…”

Authentication of the Thai medicinal plants sharing the same common name Rang Chuet: Thunbergia laurifolia, Crotalaria spectabilis, and Curcuma aff. amada by combined techniques of TLC, PCR-RFLP fingerprints, and antioxidant activities

“…RFLP patterns were analysed with the CLC Sequence Viewer software 27 . According to the preliminary computerized analysis, DdeI and HaeIII were selected as suitable candidate enzymes to identify the three species.…”

Protist Communities in Moored Long-Term Sediment Traps (Fram Strait, Arctic)–Preservation with Mercury Chloride Allows for PCR-Based Molecular Genetic Analyses

“…Among many others, these approaches include molecular fingerprints, such as terminal restriction lengths polymorphism (T-RFLP). Molecular fingerprinting approaches are well-established molecular genetic tools for quick comparative analyses targeting the rRNA-coding genes of microbial communities (Dunbar et al, 2000;Danovaro et al, 2006;Joo et al, 2010). Ribosomal genes, being universally present in all cellular organisms are well-suited for molecular surveillance of marine biodiversity (Woese, 1987).…”