Planktomarina temperata gen. nov., sp. nov., belonging to the globally distributed RCA cluster of the marine Roseobacter clade, isolated from the German Wadden Sea

Giebel, Helge-Ansgar; Kalhoefer, Daniela; Gahl-Janßen, Renate; Choo, Yoe-Jin; Lee, Ki-Young; Cho, Jang-Cheon; Tindall, Brian J.; Rhiel, Erhard; Beardsley, Christine; Aydogmus, Ömer O.; Voget, Sonja; Daniel, Rolf; Simon, Meinhard; Brinkhoff, Thorsten

doi:10.1099/ijs.0.053249-0

Cited by 60 publications

(70 citation statements)

References 51 publications

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“…This bacterium encodes genes for chemotaxis, possesses a monotrichous flagellum and is motile (Table 1; Giebel et al, 2013). Phylogenetic analysis of the flagella synthesis cluster present in GI 3 shows that the flagellar gene sets of the Roseobacter clade are divided into two distinct groups (Supplementary Figure S2).…”

Section: Resultsmentioning

confidence: 99%

“…Origin and growth of P. temperata RCA23 P. temperata RCA23 was originally isolated from a water sample collected in the southern North Sea (Giebel et al, 2011(Giebel et al, , 2013. It was grown in liquid culture of autoclaved sea water amended with marine broth (40% of peptone and yeast extract; Giebel et al, 2013) to an optical density of 0.2.…”

Section: Methodsmentioning

confidence: 99%

“…It was grown in liquid culture of autoclaved sea water amended with marine broth (40% of peptone and yeast extract; Giebel et al, 2013) to an optical density of 0.2. Biomass was harvested by 20 min centrifugation (Beckman JA10, Krefeld, Germany) at 7500 r.p.m.…”

Section: Methodsmentioning

confidence: 99%

“…An isolate of this cluster, retrieved from the southern North Sea, became recently available and was characterized as type species of the first described species of the genus Planktomarina, Planktomarina temperata RCA23 (Giebel et al, 2013). In the North Sea, P. temperata RCA23 represents the most abundant ribotype of the RCA cluster that comprises persistently between 2% and 20% of total bacterioplankton (Selje et al, 2004;Giebel et al, 2011;Teeling et al, 2012) and is a major representative of the Roseobacter clade in the active bacterioplankton (Wemheuer et al, 2014).…”

Section: Introductionmentioning

confidence: 99%

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Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses

et al. 2014

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The RCA (Roseobacter clade affiliated) cluster, with an internal 16S rRNA gene sequence similarity of 498%, is the largest cluster of the marine Roseobacter clade and most abundant in temperate to (sub)polar oceans, constituting up to 35% of total bacterioplankton. The genome analysis of the first described species of the RCA cluster, Planktomarina temperata RCA23, revealed that this phylogenetic lineage is deeply branching within the Roseobacter clade. It shares not 465.7% of homologous genes with any other organism of this clade. The genome is the smallest of all closed genomes of the Roseobacter clade, exhibits various features of genome streamlining and encompasses genes for aerobic anoxygenic photosynthesis (AAP) and CO oxidation. In order to assess the biogeochemical significance of the RCA cluster we investigated a phytoplankton spring bloom in the North Sea. This cluster constituted 5.1% of the total, but 10-31% (mean 18.5%) of the active bacterioplankton. A metatranscriptomic analysis showed that the genome of P. temperata RCA23 was transcribed to 94% in the bloom with some variations during day and night. The genome of P. temperata RCA23 was also retrieved to 84% from metagenomic data sets from a Norwegian fjord and to 82% from stations of the Global Ocean Sampling expedition in the northwestern Atlantic. In this region, up to 6.5% of the total reads mapped on the genome of P. temperata RCA23. This abundant taxon appears to be a major player in ocean biogeochemistry.

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Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses

et al. 2014

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“…Indeed, the only cultured strain, HTCC2255 of the lineage NAC11-7, was lost soon after isolation, and no other closely related strains have been isolated since (15). Likewise, members of the lineage DC5-80-3 are rarely cultured, and the cultures resist to being transferred through the traditional streak-plating method (19).…”

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confidence: 99%

Ecological Genomics of the Uncultivated Marine Roseobacter Lineage CHAB-I-5

Zhang

Sun

Jiao

et al. 2016

Appl Environ Microbiol

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Homoserine Lactones, Methyl Oligohydroxybutyrates, and Other Extracellular Metabolites of Macroalgae‐Associated Bacteria of the Roseobacter Clade: Identification and Functions

et al. 2015

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Twenty-four strains of marine Roseobacter clade bacteria were isolated from macroalgae and investigated for the production of quorum-sensing autoinducers, N-acylhomoserine lactones (AHLs). GC/MS analysis of the extracellular metabolites allowed us to evaluate the release of other small molecules as well. Nineteen strains produced AHLs, ranging from 3-OH-C10:0-HSL (homoserine lactone) to (2E,11Z)-C18:2-HSL, but no specific phylogenetic or ecological pattern of individual AHL occurrence was observed when cluster analysis was performed. Other identified compounds included indole, tropone, methyl esters of oligomers of 3-hydroxybutyric acid, and various amides, such as N-9-hexadecenoylalanine methyl ester (9-C16:1-NAME), a structural analogue of AHLs. Several compounds were tested for their antibacterial and antialgal activity on marine isolates likely to occur in the habitat of the macroalgae. Both AHLs and 9-C16:1-NAME showed high antialgal activity against Skeletonema costatum, whereas their antibacterial activity was low.

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Planktomarina temperata gen. nov., sp. nov., belonging to the globally distributed RCA cluster of the marine Roseobacter clade, isolated from the German Wadden Sea

Abstract: Planktomarina temperata gen. nov., sp. nov., belonging to the globally distributed RCA cluster of the marine Roseobacter clade, isolated from the German Wadden Sea

Cited by 60 publications

References 51 publications

Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses

Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses

Ecological Genomics of the Uncultivated Marine Roseobacter Lineage CHAB-I-5

Homoserine Lactones, Methyl Oligohydroxybutyrates, and Other Extracellular Metabolites of Macroalgae‐Associated Bacteria of the Roseobacter Clade: Identification and Functions

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