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Advisor(s)
Abstract(s)
Compared with culture-independent approaches,
traditionally used culture-dependent methods
have a limited capacity to characterizewatermicrobiota.
Nevertheless, for almost a century the latter have been
optimized to detect and quantify relevant bacteria. A
pertinent question is if culture-independent diversity
surveys give merely an extended perspective of the
bacterial diversity or if, even with a higher coverage,
focus on a different set of organisms. We compared the
diversity and phylogeny of bacteria in a freshwater
sample recovered by currently used culture-dependent
and culture-independent methods (DGGE and 454
pyrosequencing). The culture-dependent diversity
survey presented lower coverage than the other methods.
However, it allowed bacterial identifications to the
species level, in contrast with the other procedures that
rarely produced identifications below the order.
Although the predominant bacterial phyla detected
by both approaches were the same (Proteobacteria,
Actinobacteria, Bacteroidetes), sequence similarity
analysis showed that, in general, different operational
taxonomical units were targeted by each method. The
observation that culture-dependent and independent
approaches target different organisms has implications
for the use of the latter for studies in which taxonomic
identification has a predictive value. In comparison to
DGGE, 454 pyrosequencing method had a higher
capacity to explore the bacterial richness and to detect
cultured organisms, being also less laborious.
Description
Keywords
Culture-dependent Culture-independent DGGE 454 Pyrosequencing Freshwater Bacterial diversity
Citation
VAZ-MOREIRA, Ivone...[et al] - Culture-dependent and culture-independent diversity surveys target different bacteria: a case study in a freshwater sample. Antonie van Leeuwenhoek. ISSN 1572-9699. Vol. 100, n.º 2 (2011), p. 245-257
Publisher
Springer