Cultivation of the ubiquitous SAR11 marine bacterioplankton clade

By M. Rappé, S. Connon, K. Vergin, S. Giovannoni. Nature, 2002

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View Paper: https://www.semanticscholar.org/paper/e70f407b161dd08da5045614d802b36fc197d247

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Growing Unculturable Bacteria (2012, background): “By diluting the samples “to extinction” (a process whereby a dilution sequence is carried out until only one or a few bacteria are present in a given culture volume), they were able to separate the bacteria of this clade into the wells of microtiter plates and grow them in pure culture (62).”
Cleaning up with genomics: applying molecular biology to bioremediation (2003, background): “For example, supplementing seawater with low levels of nutrients enabled the cultivation of members of the SAR11 clade — microorganisms that typically comprise about one-fourth of the marine microbial community, but the presence of which had only previously been detected from 16S rRNA sequence”
An introduction to the biogeography of aquatic microbes (2005, background): “Although later clearly identified as a clade rather than a single ‘species’ (e.g. Rappé et al. 2002), it has entered the popular imagination as a ubiquitous organism.”
Phytoplankton species‐specific release of dissolved free amino acids and their selective consumption by bacteria (2013, background): “It is well-known that these phylotypes are well-adapted to oligotrophic conditions and are hardly encountered in enriched conditions (Eilers et al. 2000; Rappé et al. 2002).”
Seasonal changes in bacterioplankton nutrient limitation and their effects on bacterial community composition in the NW Mediterranean Sea (2006, background): “This was probably due to the slow growth rates of SAR11 bacteria (approximately 0.4 to 0.6 d–1; Rappé et al. 2002) compared to the bacteria that thrived in the cultures (approximately 1.0 to 7.0 d–1).”
Physiological Structure and Single‐Cell Activity in Marine Bacterioplankton (2008, background): “1997) and Pelagibacter (Rappé et al. 2002), are unable to grow in rich media, most likely due to an inability to deal with high respiration rates and the associated oxidative stress.”
Towards a better understanding of microbial carbon flux in the sea (2008, background): “SAR11 is known to be the most common prokaryotic group in the surface ocean (Morris et al. 2002, Rappé et al. 2002), dominating clone libraries (Giovannoni & Rappé 2000) and also as detected by fluorescence in situ hybridization (FISH).”
Use of Ichip for High-Throughput In Situ Cultivation of “Uncultivable” Microbial Species (2010, background): “In recent years, technical advances in cultivation methodologies have recovered a diverse set of ecologically relevant species (1, 3, 5, 7, 15, 20, 24, 28, 33, 42).”
The Rebirth of Culture in Microbiology through the Example of Culturomics To Study Human Gut Microbiota (2015, methodology): “Because of an empirical approach using sterile Oregon seawater with a mixture of defined organic and inorganic components, one of the most common bacteria was cultured and named “Candidatus Pelagibacter ubique” (135).”
Diversity and Distribution of Methanotrophic Archaea at Cold Seeps (2005, background): “Other globally abundant groups of microbes, such as Alphaproteobacteria belonging to the SAR11 clade (36, 47) or the Roseobacter cladeaffiliated cluster (54), do not have a biogeography based on oceanic regions or latitudes.”
Targeted genomic detection of biosynthetic pathways: anaerobic production of hopanoid biomarkers by a common sedimentary microbe (2005, background): “There also have been significant advances in the ability to cultivate difficult species (e.g. Kaberlein et al., 2002; Rappé et al., 2002).”
Divergence and Redundancy of 16S rRNA Sequences in Genomes with Multiple rrn Operons (2004, background): “In this context, it may be predicted that newly isolated representatives of the SAR11 clade, which dominates the open ocean environment (33), also contain few rRNA operons.”