Distribution of <i>Roseobacter</i> RCA and SAR11 lineages in the North Sea and characteristics of an abundant RCA isolate

Giebel, Helge-Ansgar; Kalhoefer, Daniela; Lemke, Andreas; Thole, S; Gahl-Janßen, Renate; Simon, Meinhard; Brinkhoff, Thorsten

doi:10.1038/ismej.2010.87

Cited by 121 publications

(143 citation statements)

References 55 publications

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“…Selje et al (2004) found that a particular phylotype of the Roseobacter clade affiliated cluster was widely distributed in temperate and polar waters, but was not detected in the tropical and sub-tropical areas. The abundance of the Roseobacter clade affiliated cluster correlates positively with phaeopigments and chlorophyll (Giebel et al, 2011) indicating an algal association. We recently reported that Roseobacter-clade strains identified as Ruegeria spp.…”

Section: Introductionmentioning

confidence: 98%

“…Many of the Roseobacter-clade strains are associated with algae and can metabolize dimethylsulfoniopropionate produced by algae (González et al, 2000;Alavi et al, 2001;Miller and Belas, 2004;Buchan and Moran, 2005;Todd et al, 2009). Cosmopolitan distribution has been demonstrated for the SAR11 clade also belonging to the alphaproteobacteria (Wietz et al, 2010;Giebel et al, 2011;Ghiglione et al, 2012). The clade constitutes the dominant prokaryotic population in surface waters (Morris et al, 2002).…”

Section: Introductionmentioning

confidence: 99%

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Global occurrence and heterogeneity of the Roseobacter-clade species Ruegeria mobilis

et al. 2016

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Tropodithietic acid (TDA)-producing Ruegeria mobilis strains of the Roseobacter clade have primarily been isolated from marine aquaculture and have probiotic potential due to inhibition of fish pathogens. We hypothesized that TDA producers with additional novel features are present in the oceanic environment. We isolated 42 TDA-producing R. mobilis strains during a global marine research cruise. While highly similar on the 16S ribosomal RNA gene level (99-100% identity), the strains separated into four sub-clusters in a multilocus sequence analysis. They were further differentiated to the strain level by average nucleotide identity using pairwise genome comparison. The four sub-clusters could not be associated with a specific environmental niche, however, correlated with the pattern of sub-typing using co-isolated phages, the number of prophages in the genomes and the distribution in ocean provinces. Major genomic differences within the sub-clusters include prophages and toxin-antitoxin systems. In general, the genome of R. mobilis revealed adaptation to a particle-associated life style and querying TARA ocean data confirmed that R. mobilis is more abundant in the particle-associated fraction than in the free-living fraction occurring in 40% and 6% of the samples, respectively. Our data and the TARA data, although lacking sufficient data from the polar regions, demonstrate that R. mobilis is a globally distributed marine bacterial species found primarily in the upper open oceans. It has preserved key phenotypic behaviors such as the production of TDA, but contains diverse sub-clusters, which could provide new capabilities for utilization in aquaculture.

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Section: Introductionmentioning

confidence: 98%

Section: Introductionmentioning

confidence: 99%

Global occurrence and heterogeneity of the Roseobacter-clade species Ruegeria mobilis

et al. 2016

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“…Members of the SAR11 clade are often dominant in marine bacterial communities and can contribute up to 50% of the total bacterioplankton (Morris et al 2002, Carlson et al 2009, Eiler et al 2009, Giebel et al 2011. Accordingly, members of the SAR11 clade have been intensively investigated with regards to their distribution patterns, physiology, and genomic characteristics (Malmstrom et al 2004, Giovannoni et al 2005a,b, Alonso & Pernthaler 2006, Wilhelm et al 2007, Tripp et al 2009, Schwalbach et al 2010, Grote et al 2012.…”

Section: Discussionmentioning

confidence: 99%

Seasonality and environmental control of freshwater SAR11 (LD12) in a temperate lake (Lake Erken, Sweden)

Heinrich¹,

Eiler²,

Bertilsson³

2013

Aquat. Microb. Ecol.

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THE SAR11 clade is ubiquitous and abundant in planktonic environments. In freshwater lakes, the clade is represented by tribe LD12 which is phylogenetically distinct from the marine SAR11. We studied the ecology of LD12 in a temperate dimictic lake (Lake Erken, Sweden), by analyzing its seasonal dynamics with quantitative PCR, CARD-FISH and 454 pyrosequencing of the 16S rRNA gene. Results showed that LD12 can be as numerous in freshwater bacterioplankton as their marine SAR11 siblings. They exhibited strong seasonality and made up from 1.8 to 40% of the total bacterial 16S rRNA pool (mean 14%) with pronounced peaks in summer and late fall. Except in spring, LD12 was the dominant Alphaproteobacteria, contributing on average 72% of the 16S rRNA within this class. The LD12 population was dominated by a single persistent ribotype, suggesting low local divergence, at least at the phylogenetic resolution accessed with rRNA genes. The relative abundance of LD12 was positively correlated to nutrient concentrations (phosphate, ammonia, nitrate, and silica) and water transparency whereas the relative abundance was lower during periods characterized by high phytoplankton biomass. Based on these observations we propose that LD12 are poor competitors during periods of high phytoplankton productivity and associated release of labile organic compounds, but thrive when availability of inorganic nutrients is high. Similar to the marine SAR11 sibling group, local LD12 populations appear to respond in contrasting ways to nutrient availability in different lakes, pointing to either ecological divergence within the tribe or variations in the interplay between environmental driver variables.

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“…shibae is a representative of the Roseobacter clade, a large, diverse and ecologically important phylogenetic cluster of Alphaproteobacteria (Wagner-Döbler and Biebl, 2006;Brinkhoff et al, 2008), abundant in temperate and polar marine habitats (Selje et al, 2004;Giebel et al, 2011). It was isolated from the dinoflagellate Prorocentrum lima (Biebl et al, 2005) and lives in symbiosis with marine algae (Wagner-Döbler et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

You are what you talk: quorum sensing induces individual morphologies and cell division modes in Dinoroseobacter shibae

Patzelt

Wang

Buchholz³

et al. 2013

The ISME Journal

115

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Dinoroseobacter shibae, a member of the Roseobacter clade abundant in marine environments, is characterized by a pronounced pleomorphism. Cell shapes range from variable-sized ovoid rods to long filaments with a high copy number of chromosomes. Time-lapse microscopy shows cells dividing either by binary fission or by budding from the cell poles. Here we demonstrate that this morphological heterogeneity is induced by quorum sensing (QS). D. shibae utilizes three acylated homoserine lactone (AHL) synthases (luxI 1-3 ) to produce AHLs with unsaturated C18 side chains. A DluxI 1 -knockout strain completely lacking AHL biosynthesis was uniform in morphology and divided by binary fission only. Transcriptome analysis revealed that expression of genes responsible for control of cell division was reduced in this strain, providing the link between QS and the observed phenotype. In addition, flagellar biosynthesis and type IV secretion system (T4SS) were downregulated. The wild-type phenotype and gene expression could be restored through addition of synthetic C18-AHLs. Their effectiveness was dependent on the number of double bonds in the acyl side chain and the regulated trait. The wild-type expression level of T4SS genes was fully restored even by an AHL with a saturated C18 side chain that has not been detected in D. shibae. QS induces phenotypic individualization of D. shibae cells rather than coordinating the population. This strategy might be beneficial in unpredictably changing environments, for example, during algal blooms when resource competition and grazing exert fluctuating selective pressures. A specific response towards non-native AHLs might provide D. shibae with the capacity for complex interspecies communication.

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Distribution of Roseobacter RCA and SAR11 lineages in the North Sea and characteristics of an abundant RCA isolate

Cited by 121 publications

References 55 publications

Global occurrence and heterogeneity of the Roseobacter-clade species Ruegeria mobilis

Global occurrence and heterogeneity of the Roseobacter-clade species Ruegeria mobilis

Seasonality and environmental control of freshwater SAR11 (LD12) in a temperate lake (Lake Erken, Sweden)

You are what you talk: quorum sensing induces individual morphologies and cell division modes in Dinoroseobacter shibae

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