A newly discovered Roseobacter cluster in temperate and polar oceans

Selje, Natascha; Simon, Meinhard; Brinkhoff, Thorsten

doi:10.1038/nature02272

Cited by 235 publications

(272 citation statements)

References 23 publications

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“…While the Roseobacter clade as such is also widespread, very little is known about its distribution at the species level. 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.…”

Section: Introductionmentioning

confidence: 99%

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: 99%

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

et al. 2016

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“…Taken together, these data suggest that the unique winter clones in clusters J, H and K may represent roseobacters adapted to the winter cold environment in a temperate estuary. Several distinct Roseobacter clusters have been identified in temperate and polar regions based on the 16S rRNA gene marker (Selje et al, 2004;Prabagaran et al, 2007).…”

Section: Resultsmentioning

confidence: 99%

“…Isolation and molecular ecology studies have revealed that the Roseobacter clade occupies diverse marine environments but is most predominant in coastal waters (Buchan et al, 2005). Furthermore, many roseobacters have been found in association with algal blooms (González et al, 2000;Alavi et al, 2001;West et al, 2008), and some roseobacters have been isolated from, and found to be dominant in polar environments (Brown and Bowman, 2001;Brinkmeyer et al, 2003;Selje et al, 2004;Prabagaran et al, 2007). The first complete genome sequence of a marine roseobacter, Silicibacter pomeroyi, was reported by Moran et al (2004), and there are now complete or draft genome sequences for ca.…”

Section: Introductionmentioning

confidence: 99%

Gene transfer agent (GTA) genes reveal diverse and dynamic Roseobacter and Rhodobacter populations in the Chesapeake Bay

et al. 2008

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Within the bacterial class Alphaproteobacteria, the order Rhodobacterales contains the Roseobacter and Rhodobacter clades. Roseobacters are abundant and play important biogeochemical roles in marine environments. Roseobacter and Rhodobacter genomes contain a conserved gene transfer agent (GTA) gene cluster, and GTA-mediated gene transfer has been observed in these groups of bacteria. In this study, we investigated the genetic diversity of these two groups in Chesapeake Bay surface waters using a specific PCR primer set targeting the conserved Rhodobacterales GTA major capsid protein gene (g5). The g5 gene was successfully amplified from 26 Rhodobacterales isolates and the bay microbial communities using this primer set. Four g5 clone libraries were constructed from microbial assemblages representing different regions and seasons of the bay and yielded diverse sequences. In total, 12 distinct g5 clusters could be identified among 158 Chesapeake Bay clones, 11 fall within the Roseobacter clade, and one falls in the Rhodobacter clade. The vast majority of the clusters (10 out of 12) lack cultivated representatives. The composition of g5 sequences varied dramatically along the bay during the wintertime, and a distinct Roseobacter population composition between winter and summer was observed. The congruence between g5 and 16S rRNA gene phylogenies indicates that g5 may serve as a useful genetic marker to investigate diversity and abundance of Roseobacter and Rhodobacter in natural environments. The presence of the g5 gene in the natural populations of Roseobacter and Rhodobacter implies that genetic exchange through GTA transduction could be an important mechanism for maintaining the metabolic flexibility of these groups of bacteria.

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“…Ely et al 2005;Goetze 2005 and 15 references therein) and this aspect of ocean evolution thus represents a 'serious challenge' to the idea of allopatric speciation (Palumbi 1994;see also Goetze 2005), which is often considered the predominant mode of speciation in terrestrial organisms (Mayr 1954(Mayr , 1963Winston 1999, p. 48;see Schilthuizen 2001, p. 186). However, advances in our understanding of oceanography and marine molecular ecology are increasingly revealing that the ocean is more physically heterogeneous than we thought, with shorter dispersal, smaller geographical ranges, smaller population sizes and lower gene flow (Rosenblatt 1963;Field et al 1997;Longhurst 1998;Jones et al 1999;Darling et al 2000;Carr et al 2003;Selje et al 2004;Goetze 2005). It is now clear that geographical speciation-including allopatric, parapatric and/or peripatric speciation-is common also in marine taxa (e.g.…”

Section: Introductionmentioning

confidence: 99%

A biophysical perspective on dispersal and the geography of evolution in marine and terrestrial systems

Dawson

Hamner

2007

J. R. Soc. Interface.

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The fluid mechanics of marine and terrestrial systems are surprisingly similar at many spatial and temporal scales. Not surprisingly, the dispersal of organisms that float, swim or fly is influenced by the fluid environments of air and seawater. Nonetheless, it has been argued repeatedly that the geography of evolution differs fundamentally between marine and terrestrial taxa. Might this view emanate from qualitative contrasts between the pelagic ocean and terrestrial land conflated by anthropocentric perception of within-and betweenrealm variation? We draw on recent advances in biogeography to identify two pairs of biophysically similar marine and terrestrial settings-(i) aerial and marine microplankton and (ii) true islands and brackish seawater lakes-which have similar geographies of evolution. Commonalities at these scales, the largest and smallest biogeographic scales, delimit the geographical extents that can possibly characterize evolution in the remaining majority of species. The geographies of evolution therefore differ statistically, not fundamentally, between marine and terrestrial systems. Comparing the geography of evolution in diverse non-microplanktonic and non-island species from a biophysical perspective is an essential next step for quantifying precisely how marine and terrestrial systems differ and is an important yet under-explored avenue of macroecology.

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A newly discovered Roseobacter cluster in temperate and polar oceans

Cited by 235 publications

References 23 publications

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

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

Gene transfer agent (GTA) genes reveal diverse and dynamic Roseobacter and Rhodobacter populations in the Chesapeake Bay

A biophysical perspective on dispersal and the geography of evolution in marine and terrestrial systems

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