Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches

Wemheuer, Bernd; Güllert, Simon; Billerbeck, Sara; Giebel, Helge-Ansgar; Voget, Sonja; Simon, Meinhard; Daniel, Rolf

doi:10.1111/1574-6941.12230

Cited by 105 publications

(105 citation statements)

References 48 publications

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“…It is a known fact that bacterioplankton community composition is strongly influenced by enhanced substrate supply during and on decline of phytoplankton blooms and many studies assessed the response of bacterial communities to phytoplankton blooms with regard to different aspects [30,34,35,37,45,47,50]. Although our data also imply an influence of phytoplankton on the community structure, this influence is only of minor importance since the main contribution of Chl a is to the third PCA axis (Fig.…”

Section: Free-living and Particle-attached Bacterial Communities Are mentioning

confidence: 59%

Spatiotemporal variation of the bacterioplankton community in the German Bight: from estuarine to offshore regions

2016

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Marine microbial biogeography has been studied intensively; however few studies address community variation across temporal and spatial scales simultaneously so far. Here we present a yearlong study investigating the dynamics of the free-living and particle-attached bacterioplankton community across a 100 km transect in the German Bight reaching from the Elbe estuary towards the open North Sea. Community composition was assessed using automated ribosomal intergenic spacer analysis and linked to environmental parameters applying multivariate statistical techniques. Results suggest that the spatial variation of the bacterioplankton community is defined by hydrographic current conditions, which separate the inner German Bight from the open North Sea and lead to pronounced differences in the coastal and offshore bacterioplankton community. However this spatial variation is overwhelmed by a strong temporal variation which is triggered by temperature as the main driving force throughout the whole transect. Variation in the free-living community was predominantly driven by temperature, whereas the particle-attached community exhibited stronger spatial variation patterns.

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Section: Free-living and Particle-attached Bacterial Communities Are mentioning

confidence: 59%

Spatiotemporal variation of the bacterioplankton community in the German Bight: from estuarine to offshore regions

2016

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“…The RCA cluster dominated the Roseobacter clade by 490% (Wemheuer et al, 2014), constituted 3.0-6.5% (mean ¼ 5.1±1.2%) of total bacterioplankton and the active bacterioplankton community to even higher proportions, to 10-31.3% (mean ¼ 18.5±7.7%), as determined by the cDNA derived from the 16S rRNA (Figure 3c; Wemheuer et al, 2014). Between 11.9% and 49.6% (mean ¼ 34.0±10.7%) of the RCA cells were actively dividing as determined by incorporation of bromodeoxyuridine (BrdU; Figure 3c).…”

Section: Resultsmentioning

confidence: 99%

“…16S rRNA gene amplicons, metagenomics and transcriptomics Environmental DNA and RNA were coextracted and the composition of the active bacterial community was assessed by 16S rRNA PCRs as described before Wemheuer et al (2014). For metagenomic and metatranscriptomic analyses DNA and cDNA were sequenced on an Illumina/Solexa GAIIx system (San Diego, CA, USA).…”

Section: Study Area Sample Collection and Chlorophyllmentioning

confidence: 99%

“…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). Based on these observations we hypothesized that the genome of this organism exhibits distinct features of its adaptation to life in the nutrient-poor pelagic environment with respect to genome organization and metabolic potential.…”

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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“…Remaining reverse primer sequences and chimeras were removed (Wemheuer et al, 2015). Processed sequences of all samples were joined and clustered in operational taxonomic units (OTUs) at 1%, 3% and 20% genetic distance (Wemheuer et al, 2014). Taxonomy for each OTU at 1% genetic distance was determined by BLAST alignment against a modified version of the Silva database as outlined in Wemheuer et al (2015).…”

Section: Bc Compositionmentioning

confidence: 99%

Deciphering associations between dissolved organic molecules and bacterial communities in a pelagic marine system

et al. 2016

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Dissolved organic matter (DOM) is the main substrate and energy source for heterotrophic bacterioplankton. To understand the interactions between DOM and the bacterial community (BC), it is important to identify the key factors on both sides in detail, chemically distinct moieties in DOM and the various bacterial taxa. Next-generation sequencing facilitates the classification of millions of reads of environmental DNA and RNA amplicons and ultrahigh-resolution mass spectrometry yields up to 10 000 DOM molecular formulae in a marine water sample. Linking this detailed biological and chemical information is a crucial first step toward a mechanistic understanding of the role of microorganisms in the marine carbon cycle. In this study, we interpreted the complex microbiological and molecular information via a novel combination of multivariate statistics. We were able to reveal distinct relationships between the key factors of organic matter cycling along a latitudinal transect across the North Sea. Total BC and DOM composition were mainly driven by mixing of distinct water masses and presumably retain their respective terrigenous imprint on similar timescales on their way through the North Sea. The active microbial community, however, was rather influenced by local events and correlated with specific DOM molecular formulae indicative of compounds that are easily degradable. These trends were most pronounced on the highest resolved level, that is, operationally defined 'species', reflecting the functional diversity of microorganisms at high taxonomic resolution.

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Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches

Cited by 105 publications

References 48 publications

Spatiotemporal variation of the bacterioplankton community in the German Bight: from estuarine to offshore regions

Spatiotemporal variation of the bacterioplankton community in the German Bight: from estuarine to offshore regions

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

Deciphering associations between dissolved organic molecules and bacterial communities in a pelagic marine system

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