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Dimethyl sulfide (DMS) is an important and dominant trace gas that is transferred from the ocean to the atmosphere; however, the production of DMS from marine algae is still rudimentary, with the enzymatic cleavage of dimethylsulfoniopropionate (DMSP) to DMS and acrylic acid (AA), one of the main considered pathways. Dissolved DMSP (DMSPd) was supplied to batch cultures of Prorocentrum minimum at different algal growth stages and the kinetics of overall DMSPd consumption and DMS (AA) production were investigated. The kinetics of overall DMSPd consumption and DMS (AA) production from DMSPd were different during the growth cycle. The cultures displayed Michaelis–Menten-type kinetics for DMS production during the entire growth period, which yielded an apparent half-saturation constant (Km(app)) value of 37.8 ± 12.8 μM and a maximum rate (Vmax) value of 75.6 ± 12.2 nmol min−1 (1010 cells)−1. The production rates of AA had a nearly linear fit over the concentration range of the added DMSPd except during mid-exponential growth phase. A Km(app) value of 1.73 ± 0.75 μM and a Vmax value of 2.36 ± 0.12 μmol min−1 (1010 cells)−1 were observed. The ratio of DMS/AA increased with the concentration of the added DMSPd, which was less than 12% during the entire growth period. The low ratios of DMS/(DMSP + AA), which ranged from 0.01 to 1.83%, demonstrate that degradation of DMSP tends to take a non-DMS-production pathway. The ratios of AA/(DMSP + AA) varied from 9 to 95% during the stationary phase and from 6 to 69% during the senescent phase and declined with substrate concentration when different concentrations of DMSPd were added. The degradation ratios of DMSPd were related to the initial concentrations of DMSPd.

Environmental context Blooms of Ulva prolifera have recurred annually in the Yellow Sea since 2007, causing economic losses and severe ecological problems. We conducted laboratory incubation experiments to examine the effects of temperature and nutrients on its biogenic sulfur emissions during its decline period. Increasing temperature and nutrients affected the decay of U. prolifera, resulting in respective decreased and increased emission of biogenic sulfur compounds. Abstract The Ulva prolifera blooms have recurred annually in the Yellow Sea (YS) since 2007, causing huge economic losses and severe ecological problems. So far, few studies have investigated the release of volatile biogenic sulfur compounds by the U. prolifera blooms. In this study, laboratory incubation experiments were conducted to examine the effects of temperature and nutrient concentrations on the emissions of biogenic sulfur compounds during the green tide decline period. Under simulated conditions, higher incubation temperatures and nutrient concentrations promoted the decay of U. prolifera. When the incubation temperature was increased from 20 °C to 25 °C, the mean concentrations of dimethylsulfide (DMS), dissolved dimethylsulfoniopropionate (DMSPd) and particulate dimethylsulfoniopropionate (DMSPp) in the culture medium decreased by ~20 %, 55 % and 20 % respectively; in addition, these values increased by ~40 %, 70 % and 240 % respectively when exogenous nutrients were added to the culture medium. Moreover, a high concentration of nitrate (NO3–) (>50 μM) could promote the release of biogenic sulfur by U. prolifera in the absence of other nutrients. The findings of this study provide insight into the roles of macroalgae on changes to the environment and shed light on the potential impact of DMSP and other degradation products of DMS produced by the green tide on the environment and ecosystem.

Cleavage of dimethylsulfoniopropionate (DMSP) can deter herbivores in DMSP-producing eukaryotic algae; however, it is unclear whether a parallel defence mechanism operates in marine bacteria. Here we demonstrate that the marine bacterium Puniceibacterium antarcticum SM1211, which does not use DMSP as a carbon source, has a membrane-associated DMSP lyase, DddL. At high concentrations of DMSP, DddL causes an accumulation of acrylate around cells through the degradation of DMSP, which protects against predation by the marine ciliate Uronema marinum. The presence of acrylate can alter the grazing preference of U. marinum to other bacteria in the community, thereby influencing community structure. The marine bacterium Puniceibacterium antarcticum SM1211 can produce acrylate from dimethylsulfoniopropionate (DMSP) cleavage by the DMSP lyase, DddL, which protects against grazing by a ciliate predator.

To understand bacterial biogeography in response to the hydrographic impact of climate change derived from the Arctic glacier melting, we surveyed bacterial diversity and community composition using bacterial 16S rRNA gene metabarcoding in the seawaters of Kongsfjorden, Svalbard, during summer 2016. In the present study, bacterial biogeography in the Kongsfjorden seawaters showed distinct habitat patterns according to water mass classification and habitat transition between Atlantic and fjord surface waters. Moreover, we estimated phylogenetic diversity of bacterial communities using the net relatedness, nearest taxon, and beta nearest taxon indices. We found the influence of freshwater input from glacier melting in shaping bacterial assemblage composition through the stochastic model. We further evaluated bacterial contributions to phytoplankton-derived dimethylsulfoniopropionate (DMSP) using a quantitative PCR (qPCR) measurement with demethylation (dmdA) and cleavage (dddP) genes of two fundamentally different processes. Our qPCR results imply that bacterial DMSP degradation follows the Atlantic inflow during summer in Kongsfjorden. These findings suggest that the Atlantic inflow and glacial melting influence bacterial community composition and assembly processes and thus affect the degradation of phytoplankton-derived organic matter in an Arctic fjord.

Optimal defense theory (ODT) predicts that antiherbivore defenses should be constitutive when plants are frequently attacked and inducible when the probability of attack is low. Like antiherbivore defenses, antioxidant defenses can be inducible or constitutive. We hypothesized the ODT predictions should apply to antioxidant defenses; thus, species inhabiting environments where oxidative stresses occur frequently should produce constitutive antioxidant defenses, whereas species in environments where stresses occur less frequently should produce inducible defenses. We tested this hypothesis by attempting to induce production of the antioxidant precursor dimethylsulfoniopropionate (DMSP) in 4 ulvoid algae species that experience different levels of environmental stress because they are zoned along a tidal gradient. The 2 lower intertidal speciesUlvaria obscuraandUlva fenestrata, which experience oxidative stresses less frequently, induced DMSP production in response to applications of the chemical oxidant hydrogen peroxide within 7 d, whereas the higher intertidal speciesUlva linzaandUlva intestinalis, which regularly experience oxidative stress, did not have increased DMSP concentrations. This study demonstrates a novel waterborne signaling mechanism for DMSP induction in marine macroalgae and provides evidence of selection for inducible antioxidant defenses in organisms experiencing less frequent environmental stresses.

Phaeocystis antarctica is an important primary producer in the Southern Ocean and plays roles in sulfur cycles through intracellular production of dimethylsulfoniopropionate (DMSP ), a principal precursor of dimethyl sulfide (DMS ). Haptophytes, including P. antarctica, are known to produce more DMSP than other phytoplankton groups such as diatoms and green algae, suggesting their important contribution to DMS concentrations in the Southern Ocean. We assessed how sea ice formation and melting affect photosynthesis and DMSP accumulation in P. antarctica both in seawater and in sea ice. Incubations were undertaken in an ice tank, which simulated sea ice formation and melting dynamics. The maximum quantum yield of photochemistry (F v/F m) in photosystem II , as estimated from pulse‐amplitude‐modulated (PAM ) fluorometry, was generally higher under low‐light conditions than high‐light conditions. Values of F v/F m, the relative maximum electron rate (rETR max), and photosynthetic efficiency (α) were lower in sea ice than in seawater, implying reduced photosynthetic function inside the sea ice. The reduction in photosynthetic function was probably due to the hypersaline environment in the brine channels. Total DMSP (DMSP t) concentration normalized by chlorophyll‐a concentration was significantly higher in the sea ice than in the other environments, suggesting high accumulation of DMSP , probably due to its osmotic properties. F v/F m, specific growth rate, and DMSP t concentrations decreased with decreasing salinity with the lowest values found at a salinity of 22, that is, the lowest salinity tested. These results suggest that sea ice melting is responsible for a reduction in growth rate and DMSP production of P. antarctica .

Sea ice is an extreme environment known to host microbial communities which produce high concentrations of the metabolites dimethylsulfoniopropionate (DMSP) and dimethylsulfoxide (DMSO). These two compounds are involved in the cycling of the climate-cooling gas dimethylsulfide. Despite decades of research, the drivers of these large concentrations in sea ice remain largely unknown. In this study, we use a cell culture approach to quantify for the first time the DMSP and DMSO cell quotas for the diatom Fragilariopsis cylindrus under combined shifts of temperature and salinity typically encountered in the sea-ice brine habitat. In doing so, we investigate two suggested potential metabolic functions for DMSP and DMSO: osmoregulation and cryoprotection. We observed an increase of both DMSP:Chl-a and DMSO:Chl-a in multiple experiments with salinities of 75 and 100 at constant temperature, which suggest osmoregulation for both compounds in the diatom cell. Stronger salinity shifts to 150 induced lethal osmotic shock resulting in massive cell death. Interestingly, combining salinity shifts with temperature shifts (as low as − 7.4 °C) did not modify drastically the DMSP and DMSO cell quotas, which may indicate that the cryoprotectant function of DMSP and DMSO in our diatom cultures was not-relevant. Also, decreasing the salinity to 20 at constant temperature suggested no cellular adaptation in terms of DMSP and DMSO cell quotas., info:eu-repo/semantics/published

Ocean acidification and global warming might affect the production of dimethylsulfoniopropionate (DMSP), dimethylsulfide (DMS), and dissolved acrylic acid (AAd) by marine phytoplankton. Monoculture incubation experiments were conducted with the dinoflagellate Amphidinium carterae to investigate the effects of elevated CO2 concentration and temperature on growth and productions of DMSP, DMS, and AAd. Two pCO2 levels were set as 400 and 1000 μatm, and two temperatures were set as 20 and 23 °C. The growth of A. carterae remained unaffected by an increase of CO2 to 1000 μatm and a rise of temperature of 3 °C. Moreover, the elevated CO2 concentration and temperature had no significant effects on the concentrations and cell-normalized concentrations of DMSP, DMS, and AAd. No additive or synergistic effects of elevated CO2 concentration and temperature on A. carterae were observed, indicating that A. carterae was insensitive to elevated CO2 and temperature in short time incubation.

Dimethylsulfoniopropionate (DMSP) is one of the most abundant organic sulfur compounds in the oceans, which is mainly degraded by bacteria through two pathways, a cleavage pathway and a demethylation pathway. Its volatile catabolites dimethyl sulfide (DMS) and methanethiol (MT) in these pathways play important roles in the global sulfur cycle and have potential influences on the global climate. Intense DMS/DMSP cycling occurs in the Arctic. However, little is known about the diversity of cultivable DMSP-catabolizing bacteria in the Arctic and how they catabolize DMSP. Here, we screened DMSP-catabolizing bacteria from Arctic samples and found that bacteria of four genera (Psychrobacter, Pseudoalteromonas, Alteromonas, and Vibrio) could grow with DMSP as the sole carbon source, among which Psychrobacter and Pseudoalteromonas are predominant. Four representative strains (Psychrobacter sp. K31L, Pseudoalteromonas sp. K222D, Alteromonas sp. K632G, and Vibrio sp. G41H) from different genera were selected to probe their DMSP catabolic pathways. All these strains produce DMS and MT simultaneously during their growth on DMSP, indicating that all strains likely possess the two DMSP catabolic pathways. On the basis of genomic and biochemical analyses, the DMSP catabolic pathways in these strains were proposed. Bioinformatic analysis indicated that most Psychrobacter and Vibrio bacteria have the potential to catabolize DMSP via the demethylation pathway and that only a small portion of Psychrobacter strains may catabolize DMSP via the cleavage pathway. This study provides novel insights into DMSP catabolism in marine bacteria. IMPORTANCE Dimethylsulfoniopropionate (DMSP) is abundant in the oceans. The catabolism of DMSP is an important step of the global sulfur cycle. Although Gammaproteobacteria are widespread in the oceans, the contribution of Gammaproteobacteria in global DMSP catabolism is not fully understood. Here, we found that bacteria of four genera belonging to Gammaproteobacteria (Psychrobacter, Pseudoalteromonas, Alteromonas and Vibrio), which were isolated from Arctic samples, were able to grow on DMSP. The DMSP catabolic pathways of representative strains were proposed. Bioinformatic analysis indicates that most Psychrobacter and Vibrio bacteria have the potential to catabolize DMSP via the demethylation pathway and that only a small portion of Psychrobacter strains may catabolize DMSP via the cleavage pathway. Our results suggest that novel DMSP dethiomethylases/demethylases may exist in Pseudoalteromonas, Alteromonas, and Vibrio and that Gammaproteobacteria may be important participants in the marine environment, especially in polar DMSP cycling.

Dimethyl sulfide (DMS) is the dominant volatile organic sulfur in global oceans. The predominant source of oceanic DMS is the cleavage of dimethylsulfoniopropionate (DMSP), which can be produced by marine bacteria and phytoplankton. Polar oceans, which represent about one fifth of Earth's surface, contribute significantly to the global oceanic DMS sea-air flux. However, a global overview of DMS and DMSP cycling in polar oceans is still lacking and the key genes and the microbial assemblages involved in DMSP/DMS transformation remain to be fully unveiled.Here, we systematically investigated the biogeographic traits of 16 key microbial enzymes involved in DMS/DMSP cycling in 60 metagenomic samples from polar waters, together with 174 metagenome and 151 metatranscriptomes from non-polar Tara Ocean dataset. Our analyses suggest that intense DMS/DMSP cycling occurs in the polar oceans. DMSP demethylase (DmdA), DMSP lyases (DddD, DddP, and DddK), and trimethylamine monooxygenase (Tmm, which oxidizes DMS to dimethylsulfoxide) were the most prevalent bacterial genes involved in global DMS/DMSP cycling. Alphaproteobacteria (Pelagibacterales) and Gammaproteobacteria appear to play prominent roles in DMS/DMSP cycling in polar oceans. The phenomenon that multiple DMS/DMSP cycling genes co-occurred in the same bacterial genome was also observed in metagenome assembled genomes (MAGs) from polar oceans. The microbial assemblages from the polar oceans were significantly correlated with water depth rather than geographic distance, suggesting the differences of habitats between surface and deep waters rather than dispersal limitation are the key factors shaping microbial assemblages involved in DMS/DMSP cycling in polar oceans.Overall, this study provides a global overview of the biogeographic traits of known bacterial genes involved in DMS/DMSP cycling from the Arctic and Antarctic oceans, laying a solid foundation for further studies of DMS/DMSP cycling in polar ocean microbiome at the enzymatic, metabolic, and processual levels. Video Abstract.

Background Dimethyl sulfide (DMS) is the dominant volatile organic sulfur in global oceans. The predominant source of oceanic DMS is the cleavage of dimethylsulfoniopropionate (DMSP), which can be produced by marine bacteria and phytoplankton. Polar oceans, which represent about one fifth of Earth’s surface, contribute significantly to the global oceanic DMS sea-air flux. However, a global overview of DMS and DMSP cycling in polar oceans is still lacking and the key genes and the microbial assemblages involved in DMSP/DMS transformation remain to be fully unveiled. Results Here, we systematically investigated the biogeographic traits of 16 key microbial enzymes involved in DMS/DMSP cycling in 60 metagenomic samples from polar waters, together with 174 metagenome and 151 metatranscriptomes from non-polar Tara Ocean dataset. Our analyses suggest that intense DMS/DMSP cycling occurs in the polar oceans. DMSP demethylase (DmdA), DMSP lyases (DddD, DddP, and DddK), and trimethylamine monooxygenase (Tmm, which oxidizes DMS to dimethylsulfoxide) were the most prevalent bacterial genes involved in global DMS/DMSP cycling. Alphaproteobacteria (Pelagibacterales) and Gammaproteobacteria appear to play prominent roles in DMS/DMSP cycling in polar oceans. The phenomenon that multiple DMS/DMSP cycling genes co-occurred in the same bacterial genome was also observed in metagenome assembled genomes (MAGs) from polar oceans. The microbial assemblages from the polar oceans were significantly correlated with water depth rather than geographic distance, suggesting the differences of habitats between surface and deep waters rather than dispersal limitation are the key factors shaping microbial assemblages involved in DMS/DMSP cycling in polar oceans. Conclusions Overall, this study provides a global overview of the biogeographic traits of known bacterial genes involved in DMS/DMSP cycling from the Arctic and Antarctic oceans, laying a solid foundation for further studies of DMS/DMSP cycling in polar ocean microbiome at the enzymatic, metabolic, and processual levels.

Dimethylsulfoniopropionate (DMSP) is one of Earth’s most abundant organosulfur molecules, and bacteria in marine sediments have been considered significant producers. However, the vertical profiles of DMSP content and DMSP-producing bacteria in subseafloor sediment have not been described. Here, we used culture-dependent and -independent methods to investigate microbial DMSP production and cycling potential in South China Sea (SCS) sediment. The DMSP content of SCS sediment decreased from 11.25 to 20.90 nmol g–1 in the surface to 0.56–2.08 nmol g–1 in the bottom layers of 8-m-deep subseafloor sediment cores (n = 10). Very few eukaryotic plastid sequences were detected in the sediment, supporting bacteria and not algae as important sediment DMSP producers. Known bacterial DMSP biosynthesis genes (dsyB and mmtN) were only predicted to be in 0.0007–0.0195% of sediment bacteria, but novel DMSP-producing isolates with potentially unknown DMSP synthesis genes and/or pathways were identified in these sediments, including Marinobacter (Gammaproteobacteria) and Erythrobacter (Alphaproteobacteria) sp. The abundance of bacteria with the potential to produce DMSP decreased with sediment depth and was extremely low at 690 cm. Furthermore, distinct DMSP-producing bacterial groups existed in surface and subseafloor sediment samples, and their abundance increased when samples were incubated under conditions known to enrich for DMSP-producing bacteria. Bacterial DMSP catabolic genes were also most abundant in the surface oxic sediments with high DMSP concentrations. This study extends the current knowledge of bacterial DMSP biosynthesis in marine sediments and implies that DMSP biosynthesis is not only confined to the surface oxic sediment zones. It highlights the importance of future work to uncover the DMSP biosynthesis genes/pathways in novel DMSP-producing bacteria.

The osmolyte dimethylsulfoniopropionate (DMSP) is produced in petagram amounts by marine microorganisms. Estuaries provide natural gradients in salinity and nutrients, factors known to regulate DMSP production; yet there have been no molecular studies of DMSP production and cycling across these gradients. Here, we study the abundance, distribution and transcription of key DMSP synthesis (e.g. dsyB and mmtN) and catabolic (e.g. dddP and dmdA) genes along the salinity gradient of the Changjiang Estuary. DMSP levels did not correlate with Chl a across the salinity gradient. In contrast, DMSP concentration, abundance of bacterial DMSP producers and their dsyB and mmtN transcripts were lowest in the freshwater samples and increased abruptly with salinity in the transitional and seawater samples. Metagenomics analysis suggests bacterial DMSP-producers were more abundant than their algal equivalents and were more prominent in summer than winter samples. Bacterial DMSP catabolic genes and their transcripts followed the same trend of being greatly enhanced in transitional and seawater samples with higher DMSP levels than freshwater samples. DMSP cleavage was likely the dominant catabolic pathway, with DMSP lyase genes being ~4.3-fold more abundant than the demethylase gene dmdA. This is an exemplar study for future research on microbial DMSP cycling in estuary environments.

International audience; In the context of global warming, this study aimed to assess the effect of temperature and irradiance on the macroalgal Taonia atomaria holobiont dynamics. We developed an experimental set-up using aquaria supplied by natural seawater with three temperatures combined with three irradiances. The holobiont response was monitored over 14 days using a multi-omics approach coupling algal surface metabolomics and metabarcoding. Both temperature and irradiance appeared to shape the microbiota and the surface metabolome, but with a distinct temporality. Epibacterial community first changed according to temperature, and later in relation to irradiance, while the opposite occurred for the surface metabolome. An increased temperature revealed a decreasing richness of the epiphytic community together with an increase of several bacterial taxa. Irradiance changes appeared to quickly impact surface metabolites production linked with the algal host photosynthesis (e.g. mannitol, fucoxanthin, dimethylsulfoniopropionate), which was hypothesized to explain modifications of the structure of the epiphytic community. Algal host may also directly adapt its surface metabolome to changing temperature with time (e.g. lipids content) and also in response to changing microbiota (e.g. chemical defences). Finally, this study brought new insights highlighting complex direct and indirect responses of seaweeds and their associated microbiota under changing environments.

Microbial communities inhabit algae cell surfaces and produce a variety of compounds that can impact the fitness of the host. These interactions have been studied via culturing, single‐gene diversity and metagenomic read survey methods that are limited by culturing biases and fragmented genetic characterizations. Higher‐resolution frameworks are needed to resolve the physiological interactions within these algal–bacterial communities. Here, we infer the encoded metabolic capabilities of four uncultured bacterial genomes (reconstructed using metagenomic assembly and binning) associated with the marine dinoflagellates Gambierdiscus carolinianus and G. caribaeus. Phylogenetic analyses revealed that two of the genomes belong to the commonly algae‐associated families Rhodobacteraceae and Flavobacteriaceae. The other two genomes belong to the Phycisphaeraceae and include the first algae‐associated representative within the uncultured SM1A02 group. Analyses of all four genomes suggest these bacteria are facultative aerobes, with some capable of metabolizing phytoplanktonic organosulfur compounds including dimethylsulfoniopropionate and sulfated polysaccharides. These communities may biosynthesize compounds beneficial to both the algal host and other bacteria, including iron chelators, B vitamins, methionine, lycopene, squalene and polyketides. These findings have implications for marine carbon and nutrient cycling and provide a greater depth of understanding regarding the genetic potential for complex physiological interactions between microalgae and their associated bacteria.

Dimethylsulfoniopropionate (DMSP) is a ubiquitous organic sulfur compound that underpins sulfur cycling in the marine environment and is the precursor to the climatically active gas dimethylsulfide (DMS). Modelling studies have identified the Southern Ocean as a DMS hot spot during summer, yet except for the bloom forming haptophyte Phaeocystis, little is known about sulfur production by other important members of the marine microbial community. Here, we measured DMSP concentrations and DMSP lyase activity (DLA), with corresponding carbon, nitrogen and Chl a content, in 15 species of Antarctic phototrophic phytoplankton (14 microalgae species and one cyanobacterium) and one phagotrophic flagellate. We found that 11 of the 16 species were able to produce DMSP and eight possess DLA. DMSP content ranged from 0.06 to 73 fmol cell−1 and estimated DMSP production rates ranged from 0.008 to 12.42 fmol cell−1 day−1. As expected, Phaeocystis was amongst the highest producers, however, contrary to expectation DMSP concentrations were high in several pennate diatom species, with intracellular concentrations between 1.85 and 46.6 mM. Here we present the first evidence that the cyanobacterium Synechococcus may be a DMSP producer, with the potential to contribute significantly to the DMSP pool. This study has provided the first analysis of DMSP production and DLA in a suite of phototrophic and phagotrophic species isolated from Antarctica, revealing the variability in DMSP concentrations across multiple strains and within genera and delivered new evidence for potential DLA in diatoms.

Dimethylsulfoniopropionate (DMSP) is mainly produced by marine phytoplankton as an osmolyte, antioxidant, predator deterrent, or cryoprotectant. DMSP is also an important carbon and sulfur source for marine bacteria. Bacteria may metabolize DMSP via the demethylation pathway involving the DMSP demethylase gene (dmdA) or the cleavage pathway involving several different DMSP lyase genes. Most DMSP released into seawater is degraded by bacteria via demethylation. To test a hypothesis that the high gene frequency of dmdA among major marine taxa results in part from horizontal gene transfer (HGT) events, a total of thirty-one bacterial strains were isolated from Arctic Kongsfjorden seawater in this study. Analysis of 16S rRNA gene sequences showed that, except for strains BSw22118, BSw22131 and BSw22132 belonging to the genera Colwellia, Pseudomonas and Glaciecola, respectively, all bacteria fell into the genus Pseudoalteromonas. DmdA genes were detected in five distantly related bacterial strains, including four Arctic strains (Pseudoalteromonas sp. BSw22112, Colwellia sp. BSw22118, Pseudomonas sp. BSw22131 and Glaciecola sp. BSw22132) and one Antarctic strain (Roseicitreum antarcticum ZS2-28). Their dmdA genes showed significant similarities (97.7%–98.3%) to that of Ruegeria pomeroyi DSS-3, which was originally isolated from temperate coastal seawater. In addition, the sequence of the gene transfer agent (GTA) capsid protein gene (g5) detected in Antarctic strain ZS2-28 exhibited a genetically closely related to that of Ruegeria pomeroyi DSS-3. Among the five tested strains, only Pseudomonas sp. BSw22131 could grow using DMSP as the sole carbon source. The results of this study support the hypothesis of HGT for dmdA among taxonomically heterogeneous bacterioplankton, and suggest a wide distribution of functional gene (i.e., dmdA) in global marine environments.

Unlike biologically available nitrogen and phosphorus, which are often at limiting concentrations in surface seawater, sulfur in the form of sulfate is plentiful and not considered to constrain marine microbial activity. Nonetheless, in a model system in which a marine bacterium obtains all of its carbon from co-cultured phytoplankton, bacterial gene expression suggests that at least seven dissolved organic sulfur (DOS) metabolites support bacterial heterotrophy. These labile exometabolites of marine dinoflagellates and diatoms include taurine, N-acetyltaurine, isethionate, choline-O-sulfate, cysteate, 2,3-dihydroxypropane-1-sulfonate (DHPS), and dimethylsulfoniopropionate (DMSP). Leveraging from the compounds identified in this model system, we assessed the role of sulfur metabolites in the ocean carbon cycle by mining the Tara Oceans dataset for diagnostic genes. In the 1.4 million bacterial genome equivalents surveyed, estimates of the frequency of genomes harboring the capability for DOS metabolite utilization ranged broadly, from only 1 out of every 190 genomes (for the C2 sulfonate isethionate) to 1 out of every 5 (for the sulfonium compound DMSP). Bacteria able to participate in DOS transformations are dominated by Alphaproteobacteria in the surface ocean, but by SAR324, Acidimicrobiia, and Gammaproteobacteria at mesopelagic depths, where the capability for utilization occurs in higher frequency than in surface bacteria for more than half the sulfur metabolites. The discovery of an abundant and diverse suite of marine bacteria with the genetic capacity for DOS transformation argues for an important role for sulfur metabolites in the pelagic ocean carbon cycle.

The coastal zone has distinguishable but tightly connected ecosystems from rivers to the ocean and globally contributes to nutrient cycling including phytoplankton-derived organic matter. Particularly, bacterial contributions to phytoplankton-derived dimethylsulfoniopropionate (DMSP) degradation have been recently evaluated by using advanced sequencing technologies to understand their role in the marine microbial food web. Here, we surveyed the bacterial diversity and community composition under seasonal water mixing in the bay of Gwangyang (GW), a semi-enclosed estuary at the southern tip of the Korea Peninsula. We detected phylogenetic dissimilarities among season-specific habitats in GW and their specific bacterial taxa. Additionally, bacterial contribution to degradation of phytoplankton-derived DMSP from estuarine to coastal waters at euphotic depths in GW was investigated as the presence or absence of DMSP demethylation gene, encoded by dmdA. Among the operational taxonomic units (OTUs) in GW bacterial communities, the most dominant and ubiquitous OTU1 was affiliated with the SAR11 clade (SAR11-OTU). The population dynamics of SAR11-OTU in dmdA-detected GW waters suggest that water mass mixing plays a major role in shaping bacterial communities involved in phytoplankton-derived DMSP demethylation.

Dimethylsulfoniopropionate (DMSP) is an organic sulfur compound that occurs in large amounts in oceans around the world, and it plays an important role in the global sulfur cycle. DMSP released into seawater can be rapidly catabolized by bacteria via two pathways, namely, demethylation or cleavage pathway. Members of the Roseobacter clade frequently possess enzymes involved in the DMSP demethylation or cleavage pathway. We tried to measure the diversity of genes encoding DMSP demethylase (dmdA) and DMSP lyases (dddD, dddL, and dddP) in bacteria in the surface seawater of Ardley Cove and Great Wall Cove in Antarctic Maxwell Bay using DMSP degradation gene clone library analysis. Although we did not detect sequences related to the dddD or dddL gene, both bacterial dmdA and dddP genes found in the two coves were completely confined to the Roseobacter clade, which indicated that this clade plays a significant role in DMSP catabolism in the coastal seawaters of Maxwell Bay. In addition, compared with bacterial DMSP degradation genes in Arctic coastal seawater, our results suggest that both bipolar and endemic bacterial DMSP degradation genes exist in polar marine environments. The findings of this study improve our knowledge of the distribution of DMSP degradation genes in polar marine ecosystems.

Euzebya sp. DY32-46 was isolated from seawater collected at the depth of 150 m in the eastern Pacific Ocean. The genome was sequenced and consisted of one chromosome and one plasmid pEDY32-46I with sizes of 5,799,875 and 571,580 bp as well as DNA G + C contents of 70.7 and 69.6%, respectively. Genomic annotation showed that fifty biosynthetic gene clusters of secondary metabolites were located in the chromosome of Euzebya sp. DY32-46, indicating that a wide variety of its natural products need to be explored. Besides, dozens of biogeochemically relevant genes found in the genome of Euzebya sp. DY32-46 revealed its ecological roles in marine carbon, nitrogen, phosphorus and sulfur cycles including transporting ammonium, phosphate and methylammonium, cleaving dimethylsulfoniopropionate and phosphate, reducing nitrite, etc. Based on genomic similarity analysis, Euzebya sp. DY32-46 represents a novel genospecies of the genus Euzebya, with average nucleotide identity and digital DNA-DNA hybridization values of 73.1-87.1% and 20.2-32.4% compared with the closely related type strains Euzebya rosea DSW09T and E. tangerina F10T. Comparative genomic analysis revealed that 97.1% of coding sequences were exclusively present in the plasmid pEDY32-46I contributing the speciation of Euzebya sp. DY32-46. This study widens our knowledge about industrial potential as well as ecological roles of the genus Euzebya and provides a great candidate for investigating nascent speciation of marine Actinobacteria.

Dimethylsulfoniopropionate (DMSP) is an abundant organic sulfur metabolite produced by many phytoplankton species and degraded by bacteria via two distinct pathways with climate-relevant implications. We assessed the diversity and abundance of bacteria possessing these pathways in the context of phytoplankton community composition over a 3-week time period spanning September-October, 2014 in Monterey Bay, CA. The dmdA gene from the DMSP demethylation pathway dominated the DMSP gene pool and was harboured mostly by members of the alphaproteobacterial SAR11 clade and secondarily by the Roseobacter group, particularly during the second half of the study. Novel members of the DMSP-degrading community emerged from dmdA sequences recovered from metagenome assemblies and single-cell sequencing, including largely uncharacterized gammaproteobacteria and alphaproteobacteria taxa. In the DMSP cleavage pathway, the SAR11 gene dddK was the most abundant early in the study, but was supplanted by dddP over time. SAR11 members, especially those harbouring genes for both DMSP degradation pathways, had a strong positive relationship with the abundance of dinoflagellates, and DMSP-degrading gammaproteobacteria co-occurred with haptophytes. This in situ study of the drivers of DMSP fate in a coastal ecosystem demonstrates for the first time correlations between specific groups of bacterial DMSP degraders and phytoplankton taxa.

Summary The vast majority of oceanic dimethylsulfoniopropionate (DMSP) is thought to be catabolized by bacteria via the DMSP demethylation pathway. This pathway contains four enzymes termed DmdA, DmdB, DmdC and DmdD/AcuH, which together catabolize DMSP to acetylaldehyde and methanethiol as carbon and sulfur sources respectively. While molecular mechanisms for DmdA and DmdD have been proposed, little is known of the catalytic mechanisms of DmdB and DmdC, which are central to this pathway. Here, we undertake physiological, structural and biochemical analyses to elucidate the catalytic mechanisms of DmdB and DmdC. DmdB, a 3‐methylmercaptopropionate (MMPA)‐coenzyme A (CoA) ligase, undergoes two sequential conformational changes to catalyze the ligation of MMPA and CoA. DmdC, a MMPA‐CoA dehydrogenase, catalyzes the dehydrogenation of MMPA‐CoA to generate MTA‐CoA with Glu435 as the catalytic base. Sequence alignment suggests that the proposed catalytic mechanisms of DmdB and DmdC are likely widely adopted by bacteria using the DMSP demethylation pathway. Analysis of the substrate affinities of involved enzymes indicates that Roseobacters kinetically regulate the DMSP demethylation pathway to ensure DMSP functioning and catabolism in their cells. Altogether, this study sheds novel lights on the catalytic and regulative mechanisms of bacterial DMSP demethylation, leading to a better understanding of bacterial DMSP catabolism., The catabolism of dimethylsulfoniopropionate (DMSP), an important sulfur and carbon source for marine bacteria, is mainly through the demethylation pathway. Here we undertake physiological, structural and biochemical analyses to elucidate the catalytic mechanisms of two central enzymes, DmdB and DmdC. We also propose a kinetic model for the regulation of DMSP catabolism after analyzing the substrate affinities of involved enzymes.

Haptophytes and Dinoflagellates are two cosmopolitan algae associated with dimethylsulfoniopropionate (DMSP) synthesis, which regulates the marine biogenic flux of dimethylsulfide (DMS) to the atmo...

Dimethylsulfoniopropionate (DMSP) is an abundant and ubiquitous organosulfur molecule in marine environments with important roles in global sulfur and nutrient cycling. Diverse DMSP lyases in some algae, bacteria, and fungi cleave DMSP to yield gaseous dimethyl sulfide (DMS), an infochemical with important roles in atmospheric chemistry. Here, we identified a novel ATP-dependent DMSP lyase, DddX. DddX belongs to the acyl-CoA synthetase superfamily and is distinct from the eight other known DMSP lyases. DddX catalyses the conversion of DMSP to DMS via a two-step reaction: the ligation of DMSP with CoA to form the intermediate DMSP-CoA, which is then cleaved to DMS and acryloyl-CoA. The novel catalytic mechanism was elucidated by structural and biochemical analyses. DddX is found in several Alphaproteobacteria, Gammaproteobacteria, and Firmicutes, suggesting that this new DMSP lyase may play an overlooked role in DMSP/DMS cycles., eLife digest The global sulfur cycle is a collection of geological and biological processes that circulate sulfur-containing compounds through the oceans, rocks and atmosphere. Sulfur itself is essential for life and important for plant growth, hence its widespread use in fertilizers. Marine organisms such as bacteria, algae and phytoplankton produce one particular sulfur compound, called dimethylsulfoniopropionate, or DMSP, in massive amounts. DMSP made in the oceans gets readily converted into a gas called dimethyl sulfide (DMS), which is the largest natural source of sulfur entering the atmosphere. In the air, DMS is converted to sulfate and other by-products that can act as cloud condensation nuclei, which, as the name suggests, are involved in cloud formation. In this way, DMS can influence weather and climate, so it is often referred to as ‘climate-active’ gas. At least eight enzymes are known to cleave DMSP into DMS gas with a few by-products. These enzymes are found in algae, bacteria and fungi, and are referred to as lyases, for the way they breakdown their target compounds (DMSP, in this case). Recently, researchers have identified some bacteria that produce DMS from DMSP without using known DMSP lyases. This suggests there are other, unidentified enzymes that act on DMSP in nature, and likely contribute to global sulfur cycling. Li, Wang et al. set out to uncover new enzymes responsible for converting the DMSP that marine bacteria produce into gaseous DMS. One new enzyme called DddX was identified and found to belong to a superfamily of enzymes quite separate to other known DMSP lyases. Li, Wang et al. also showed how DddX drives the conversion of DMSP to DMS in a two-step reaction, and that the enzyme is found across several classes of bacteria. Further experiments to characterise the protein structure of DddX also revealed the molecular mechanism for its catalytic action. This study offers important insights into how marine bacteria generate the climatically important gas DMS from DMSP, leading to a better understanding of the global sulfur cycle. It gives microbial ecologists a more comprehensive perspective of these environmental processes, and provides biochemists with data on a family of enzymes not previously known to act on sulfur-containing compounds.

Dimethylsulfoniopropionate (DMSP) is one of Earth’s most abundant organosulfur molecules. Recently, many marine heterotrophic bacteria were shown to produce DMSP, but few studies have combined culture-dependent and independent techniques to study their abundance, distribution, diversity and activity in seawater or sediment environments. Here we investigate bacterial DMSP production potential in East China Sea (ECS) samples. Total DMSP (DMSPt) concentration in ECS seawater was highest in surface waters (SW) where phytoplankton were most abundant, and it decreased with depth to near bottom waters. However, the percentage of DMSPt mainly apportioned to bacteria increased from the surface to the near bottom water. The highest DMSP concentration was detected in ECS oxic surface sediment (OSS) where phytoplankton were not abundant. Bacteria with the genetic potential to produce DMSP and relevant biosynthesis gene transcripts were prominent in all ECS seawater and sediment samples. Their abundance also increased with depth and was highest in the OSS samples. Microbial enrichments for DMSP-producing bacteria from sediment and seawater identified many novel taxonomic groups of DMSP-producing bacteria. Different profiles of DMSP-producing bacteria existed between seawater and sediment samples and there are still novel DMSP-producing bacterial groups to be discovered in these environments. This study shows that heterotrophic bacteria significantly contribute to the marine DMSP pool and that their contribution increases with water depth and is highest in seabed surface sediment where DMSP catabolic potential is lowest. Furthermore, distinct bacterial groups likely produce DMSP in seawater and sediment samples, and many novel producing taxa exist, especially in the sediment.

Dimethylsulfoniopropionate (DMSP) is a key component of the global geochemical sulfur cycle that is a secondary metabolite produced in large quantities by marine phytoplankton and utilized as an osmoprotectant. Bacterial DMSP lyases convert DMSP to the climate active gas dimethylsulfide (DMS). Whether marine bacteria can also accumulate DMSP as an osmoprotectant to maintain the turgor pressure of the cell in response to changes in external osmolarity remains unknown. The marine halophile Vibrio parahaemolyticus, contains at least six osmolyte transporters, four betaine carnitine choline transport (BCCT) carriers BccT1-BccT4 and two ABC-family ProU transporters. In this study, we showed that DMSP is used as an osmoprotectant by V. parahaemolyticus and several other Vibrio species including V. cholerae and V. vulnificus. Using a V. parahaemolyticus proU double mutant, we demonstrated that these ABC transporters are not required for DMSP uptake. However, a bccT null mutant lacking all four BCCTs had a growth defect compared to wild type in high salt media supplemented with DMSP. Using bccT triple mutants, possessing only one functional BCCT, in growth pattern assays, we identified two BCCT-family transporters, BccT1 and BccT2 are carriers of DMSP. Vibrio cholerae and V. vulnificus, only contain a homolog of BccT3 and functional complementation in Escherichia coli MKH13 showed only V. cholerae BccT3 could transport DMSP. In V. vulnificus strains, we identified and characterized an additional BCCT transporter that was also a carrier for DMSP. Phylogenetic analysis uncovered at least 11 distinct BCCT transporters among members of the Harveyi clade, with some species having up to 9 BCCTs as exemplified by V. jasicida.ImportanceDMSP is present in the marine environment, produced in large quantities by marine phytoplankton as an osmoprotectant, and is an important component of the global geosulfur cycle. The bacterial family Vibrionaceae is comprised of marine species, many of which are halophiles such as V. parahaemolyticus, which can utilize a wide range of osmolytes and possesses at least six transporters for the uptake of these compounds. Here, we demonstrated that V. parahaemolyticus and other Vibrio species can accumulate DMSP as an osmoprotectant and show that the BCCT family transporters were required. DMSP was transported by four different BCCT transporters; BccT1, BccT2, BccT3 and BccT5 depending on the species. Bioinformatics and phylogenetics demonstrated that Vibrio species contain a large number of BCCTs and that many of these are associated with different metabolic pathways.

Marine phycosphere harbors unique cross-kingdom associations with enormous ecological significance in aquatic ecosystems as well as relevance for algal biotechnology industry. During our investigating the microbial composition and bioactivity of marine phycosphere microbiota (PM), a novel lightly yellowish and versatile bacterium designated strain AM1-D1T was isolated from cultivable PM of marine dinoflagellate Alexandrium minutum amtk4 that produces high levels of paralytic shellfish poisoning toxins (PSTs). Strain AM1-D1T demonstrates notable bioflocculanting bioactivity with bacterial exopolysaccharides (EPS), and microalgae growth-promoting (MGP) potential toward its algal host. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain AM1-D1T was affiliated to the members of genus Sulfitobacter within the family Rhodobacteraceae, showing the highest sequence similarity of 97.9% with Sulfitobacter noctilucae NB-68T, and below 97.8% with other type strains. The complete genome of strain AM1-D1T consisted of a circular 3.84-Mb chromosome and five circular plasmids (185, 95, 15, 205 and 348 Kb, respectively) with the G+C content of 64.6%. Low values obtained by phylogenomic calculations on the average nucleotide identity (ANI, 77.2%), average amino acid identity (AAI, 74.7%) and digital DNA-DNA hybridization (dDDH, 18.6%) unequivocally separated strain AM1-D1T from its closest relative. The main polar lipids were identified as phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, diphosphatidylglycerol, one unidentified phospholipid and one unidentified lipid. The predominant fatty acids (> 10%) were C18:1 ω7c, C19:0 cyclo ω8c and C16:0. The respiratory quinone was Q-10. The genome of strain AM1-D1T was predicted to encode series of gene clusters responsible for sulfur oxidation (sox) and utilization of dissolved organic sulfur exometabolites from marine dinoflagellates, taurine (tau) and dimethylsulfoniopropionate (DMSP) (dmd), as well as supplementary vitamin B12 (cob), photosynthesis carotenoids (crt) which are pivotal components during algae-bacteria interactions. Based on the evidences by the polyphasic characterizations, strain AM1-D1T represents a novel species of the genus Sulfitobacter, for which the name Sulfitobacter alexandrii sp. nov. is proposed. The type strain is AM1-D1T (= CCTCC 2017277T = KCTC 62491T).

The present work aims at determining the natural variability of dimethylsulfoniopropionate (DMSP) and dimethylsulfoxide (DMSO) contents in the seagrass Posidonia oceanica, which is the largest producer of these molecules reported to data among coastal autotrophs. Samples were collected during a period of 3.5 years in the pristine Revellata Bay (Calvi, northwestern Corsica, France). The DMSP content ranged from 25 to 265 µmol.gfw−1; DMSO from 1.0 to 13.9 µmol.gfw−1. The dynamics of the two molecules were closely linked, the DMSO content being equivalent to 3.5 % of the DMSP content, all leaf samples considered (n = 423 samples and 414 DMSP(O) data pairs). The annual growth cycle of the seagrass diluted the initial stocks of the two molecules. Temperature indirectly affected molecule content dynamics through their direct effect on the seagrass productivity and biomass. Inter-annual variations in DMSP(O) content in relation to shallow water temperature might further indicate that DMSP(O) could have been involved in the physiological response of P. oceanica to heat-stress. Finally, middle-aged leaf tissues with an organosulfur molecule content similar to the average value calculated for the seagrass leaf bundle appeared to be the best choice of sample material to study DMSP and DMSO in that species. More research is needed to elucidate the biosynthetic pathways of these molecules in seagrasses, the evolutionary reasons for such a high production in P. oceanica and the physiological functions they play.

WOS:000614643900001; Dimethylsulfoniopropionate (DMSP) plays many important physiological and ecological roles in macroalgae. The most common method to measure DMSP is by gas chromatography analysis of the dimethylsulfide (DMS) produced after NaOH hydrolysis (pH \textgreater 12). Storage of DMS, however, is not recommended for more than a week. We investigated if acidification can be a suitable method to preserve DMSP in macroalgal samples over three months of storage, compared to widely used protocols such as drying and freezing at -20 degrees C. The DMSP content of green (Ulva sp. and Ulva compressa), red (Chondrus crispus), and brown (Bifurcaria bifurcata) macroalgae were analyzed: 24 h after NaOH addition (control values); and after acidification (0.2 mol center dot L HCl-1) for 24 h of fresh material, followed by NaOH addition for 24 h. These values were compared to measurements after 3-month storage of samples that had been either dried in a heater (60 degrees C for a night, and storage at room temperature), or frozen at -20 degrees C, or kept in 0.2 mol center dot L HCl-1. There was no significant difference between DMSP measurements on freshly collected material and after acidification of the samples, whether 24 h later or after 3 months of storage. This was in contrast to 3-month storage protocols involving overnight drying at 60 degrees C (75-98% DMSP loss), and to a lesser degree freezing at -20 degrees C (37-80% DMSP loss). We thus advise to acidify macroalgal samples for preservation over long periods of time rather than drying or freezing, when assaying DMSP content.

Organic carbon transfer between photoautotrophic and heterotrophic microbes in the surface ocean mediated through metabolites dissolved in seawater is a central but poorly understood process in the global carbon cycle. In a synthetic microbial community in which diatom extracellular release of organic molecules sustained growth of a co-cultured bacterium, metabolite transfer was assessed over two diel cycles based on per cell quantification of phytoplankton endometabolites and bacterial transcripts. Of 31 phytoplankton endometabolites identified and classified into temporal abundance patterns, eight could be matched to patterns of bacterial transcripts mediating their uptake and catabolism. A model simulating the coupled endometabolite-transcription relationships hypothesized that one category of outcomes required an increase in phytoplankton metabolite synthesis in response to the presence of the bacterium. An experimental test of this hypothesis confirmed higher endometabolome accumulation in the presence of bacteria for all five compounds assigned to this category – leucine, glycerol-3-phosphate, glucose, and the organic sulfur compounds dihydroxypropanesulfonate and dimethylsulfoniopropionate. Partitioning of photosynthate into rapidly-cycling dissolved organic molecules at the expense of phytoplankton biomass production has implications for carbon sequestration in the deep ocean. That heterotrophic bacteria can impact this partitioning suggests a previously unrecognized influence on the ocean’s carbon reservoirs.Significance StatementMicrobes living in the surface ocean are critical players in the global carbon cycle, carrying out a particularly key role in the flux of carbon between the ocean and atmosphere. The release of metabolites by marine phytoplankton and their uptake by heterotrophic bacteria is one of the major routes of microbial carbon turnover. Yet the identity of these metabolites, their concentration in seawater, and the factors that affect their synthesis and release are poorly known. Here we provide experimental evidence that marine heterotrophic bacteria can affect phytoplankton production and extracellular release of metabolites. This microbial interaction has relevance for the partitioning of photosynthate between dissolved and particulate carbon reservoirs in the ocean, an important factor in oceanic carbon sequestration.

Dimethylsulfoniopropionate (DMSP) is an abundant and ubiquitous organosulfur molecule and plays important roles in the global sulfur cycle. Cleavage of DMSP produces volatile dimethyl sulfide (DMS), which has impacts on the global climate. Multiple pathways for DMSP catabolism have been identified. Here we identified yet another novel pathway, the ATP DMSP lysis pathway. The key enzyme, AcoD, is an ATP-dependent DMSP lyase. AcoD belongs to the acyl-CoA synthetase superfamily, which is totally different from other DMSP lyases, showing a new evolution route. AcoD catalyses the conversion of DMSP to DMS by a two-step reaction: the ligation of DMSP with CoA to form the intermediate DMSP-CoA, which is then cleaved to DMS and acryloyl-CoA. The novel catalytic mechanism was elucidated by structural and biochemical analyses. AcoD is widely distributed in many bacterial lineages including Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria and Firmicutes, revealing this new pathway plays important roles in global DMSP/DMS cycles.

The underlying mechanisms that influence microplastic ingestion in marine zooplankton remain poorly understood. Here, we investigate how microplastics of a variety of shapes (bead, fiber, and fragment), in combination with the algal-derived infochemicals dimethyl sulfide (DMS) and dimethylsulfoniopropionate (DMSP), affect the ingestion rate of microplastics in three species of zooplankton, the copepods Calanus helgolandicus and Acartia tonsa and larvae of the European lobster Homarus gammarus. We show that shape affects microplastic bioavailability to different species of zooplankton, with each species ingesting significantly more of a certain shape: C. helgolandicus—fragments (P < 0.05); A. tonsa—fibers (P < 0.01); H. gammarus larvae—beads (P < 0.05). Thus, different feeding strategies between species may affect shape selectivity. Our results also showed significantly increased ingestion rates by C. helgolandicus on all microplastics that were infused with DMS (P < 0.01) and by H. gammarus larvae and A. tonsa on DMS-infused fibers and fragments (P < 0.05). By using a range of more environmentally relevant microplastics, our findings highlight how the feeding strategies of different zooplankton species may influence their susceptibility to microplastic ingestion. Furthermore, our novel study suggests that species reliant on chemosensory cues to locate their prey may be at an increased risk of ingesting aged microplastics in the marine environment.

Dimethyl sulphide (DMS) is an important component of the global sulphur cycle as it is the most abundant sulphur compound that is emitted via the ocean surface to the atmosphere. Dimethylsulfoniopropionate (DMSP), the precursor of DMS, is mainly produced by phytoplankton and is degraded by marine bacteria. To reveal the role of bacteria in the regulation of DMSP degradation and DMS production, mesocosm and field studies were performed in the Sanriku Coast on the Pacific Ocean in northeast Japan. The responsible bacteria for the transformation of DMSP to DMS and the assimilation of DMSP were monitored and the genes encoding DMSP lyase (dddD and dddP) and DMSP demethylase (dmdA) were analysed. The mesocosm study showed that the dmdA subclade D was the dominant DMSP degradation gene in the free-living (FL) and particle-associated (PA) fractions. The dddD gene was found in higher abundance than the dddP gene in all the tested samples. Most importantly, DMS concentration was positively correlated with the abundance of the dddD gene. These results indicated that bacteria possessing dmdA and dddD genes were the major contributors to the DMSP degradation and DMS production, respectively. The genes dmdA subclade D and dddP were abundant in the Tsugaru Warm (TW) Current, while the dmdA subclade C/2 and dddD genes were dominant in the Oyashio (OY) Current. Functional gene network analysis also showed that the DMSP degradation genes were divided into OY and TW Current-related modules and genes sharing similar functions were clustered in the same module. Our data suggest that environmental fluctuations resulted in habitat filtering and niche partitioning of bacteria possessing DMSP degradation genes. Overall, our findings provide novel insights into the distribution and abundance of DMSP degradation genes in a coastal region with different water current systems.

Sea-ice algae are an important source of primary production in polar regions, yet we have limited understanding of their responses to the seasonal cycling of temperature and salinity. Using a targeted liquid chromatography-mass spectrometry-based metabolomics approach, we found that axenic cultures of the Antarctic sea-ice diatom, Nitzschia lecointei, displayed large differences in their metabolomes when grown in a matrix of conditions that included temperatures of –1 and 4°C, and salinities of 32 and 41, despite relatively small changes in growth rate. Temperature exerted a greater effect than salinity on cellular metabolite pool sizes, though the N- or S-containing compatible solutes, 2, 3-dihydroxypropane-1-sulfonate (DHPS), glycine betaine (GBT), dimethylsulfoniopropionate (DMSP), and proline responded strongly to both temperature and salinity, suggesting complexity in their control. We saw the largest (> 4-fold) response to salinity for proline. DHPS, a rarely studied but potential compatible solute, had the highest intracellular concentrations among all compatible solutes of ~85 mM. When comparing the culture findings to natural Arctic sea-ice diatom communities, we found extensive overlap in metabolite profiles, highlighting the relevance of culture-based studies to probe environmental questions. Large changes in sea-ice diatom metabolomes and compatible solutes over a seasonal cycle could be significant components of biogeochemical cycling within sea ice.

Dimethylsulfoniopropionate (DMSP), an osmolyte produced by oceanic phytoplankton, is predominantly degraded by bacteria belonging to theRoseobacterlineage and other marineAlphaproteobacteriavia DMSP-dependent demethylase A protein (DmdA). To date, the evolutionary history of DmdA gene family is unclear. Some studies indicate a common ancestry between DmdA and GcvT gene families and a co-evolution betweenRoseobacterand the DMSP-producing-phytoplankton around 250 million years ago (Mya). In this work, we analyzed the evolution of DmdA under three possible evolutionary scenarios: 1) a recent common ancestor of DmdA and GcvT, 2) a coevolution betweenRoseobacterand the DMSP-producing-phytoplankton, and 3) pre-adapted enzymes to DMSP prior toRoseobacterorigin. Our analyses indicate that DmdA is a new gene family originated from GcvT genes by duplication and functional divergence driven by positive selection before a coevolution betweenRoseobacterand phytoplankton. Our data suggest thatRoseobacteracquireddmdAby horizontal gene transfer prior to exposition to an environment with higher DMSP. Here, we propose that the ancestor that carried the DMSP demethylation pathway genes evolved in the Archean, and was exposed to a higher concentration of DMSP in a sulfur rich atmosphere and anoxic ocean, compared to recentRoseobacterecoparalogs (copies performing the same function under different conditions), which should be adapted to lower concentrations of DMSP.

Dimethylsulfoniopropionate (DMSP) is abundant in marine environments and an important source of reduced carbon and sulfur for marine bacteria. While both Ruegeria pomeroyi and Ruegeria lacuscaerulensis possessed genes encoding the DMSP demethylation and cleavage pathways, their responses to DMSP differed. A glucose-fed, chemostat culture of R. pomeroyi consumed 99% of the DMSP even when fed a high concentration of 5 mM. At the same time, cultures released 19% and 7.1% of the DMSP as dimethylsulfide (DMS) and methanethiol, respectively. Under the same conditions, R. lacuscaerulensis consumed only 28% of the DMSP and formed one-third of the amount of gases. To examine the pathways of sulfur and methyl C assimilation, glucose-fed chemostats of both species were fed 100 μM mixtures of unlabeled and doubly labeled [dimethyl-13C, 34S]DMSP. Both species derived nearly all of their sulfur from DMSP despite high sulfate availability. In addition, only 33% and 50% of the methionine was biosynthesized from the direct capture of methanethiol in R. pomeroyi and R. lacuscaerulensis, respectively. The remaining methionine was biosynthesized by the random assembly of free sulfide and methyl-tetrahydrofolate derived from DMSP. Thus, although the two species possessed similar genes encoding DMSP metabolism, their growth responses were very different. IMPORTANCE Dimethylsulfoniopropionate (DMSP) is abundant in marine environments and an important source of reduced carbon and sulfur for marine bacteria. DMSP is the precursor for the majority of atmospheric dimethylsulfide (DMS), a climatically active gas that connects the marine and terrestrial sulfur cycles. Although research into the assimilation of DMSP has been conducted for over 20 years, the fate of DMSP in microbial biomass is not well understood. In particular, the biosynthesis of methionine from DMSP has been a focal point, and it has been widely believed that most methionine was synthesized via the direct capture of methanethiol. Using an isotopic labeling strategy, we have demonstrated that the direct capture of methanethiol is not the primary pathway used for methionine biosynthesis in two Ruegeria species, a genus comprised primarily of globally abundant marine bacteria. Furthermore, although the catabolism of DMSP by these species varied greatly, the anabolic pathways were highly conserved.

The microbial cycling of dimethylsulfoniopropionate (DMSP) and its gaseous catabolites dimethylsulfide (DMS) and methanethiol (MeSH) are important processes in the global sulfur cycle, marine microbial food webs, signaling pathways, atmospheric chemistry, and potentially climate regulation. Many functional genes have been identified and used to study the genetic potential of microbes to produce and catabolize these organosulfur compounds in different marine environments. Here, we sampled seawater, marine sediment and hydrothermal sediment, and polymetallic sulfide in the eastern Chinese marginal seas and analyzed their microbial communities for the genetic potential to cycle DMSP, DMS, and MeSH using metagenomics. DMSP was abundant in all sediment samples, but was fivefold less prominent in those from hydrothermal samples. Indeed, Yellow Sea (YS) sediment samples had DMSP concentrations two orders of magnitude higher than in surface water samples. Bacterial genetic potential to synthesize DMSP (mainly in Rhodobacteraceae bacteria) was far higher than for phytoplankton in all samples, but particularly in the sediment where no algal DMSP synthesis genes were detected. Thus, we propose bacteria as important DMSP producers in these marine sediments. DMSP catabolic pathways mediated by the DMSP lyase DddP (prominent in Pseudomonas and Mesorhizobium bacteria) and DMSP demethylase DmdA enzymes (prominent in Rhodobacteraceae bacteria) and MddA-mediated MeSH S-methylation were very abundant in Bohai Sea and Yellow Sea sediments (BYSS) samples. In contrast, the genetic potential for DMSP degradation was very low in the hydrothermal sediment samples—dddP was the only catabolic gene detected and in only one sample. However, the potential for DMS production from MeSH (mddA) and DMS oxidation (dmoA and ddhA) was relatively abundant. This metagenomics study does not provide conclusive evidence for DMSP cycling; however, it does highlight the potential importance of bacteria in the synthesis and catabolism of DMSP and related compounds in diverse sediment environments.

A mesocosm experiment was conducted in Wuyuan Bay (Xiamen), China, to investigate the effects of elevated p CO2 on the phytoplankton species Phaeodactylum tricornutum (P. tricornutum), Thalassiosira weissflogii (T. weissflogii) and Emiliania huxleyi (E. huxleyi) and their production ability of dimethylsulfide (DMS), dimethylsulfoniopropionate (DMSP), as well as four halocarbon compounds, bromodichloromethane ( CHBrCl2 ), methyl bromide ( CH3Br ), dibromomethane ( CH2Br2 ) and iodomethane ( CH3I ). Over a period of 5 weeks, P. tricornuntum outcompeted T. weissflogii and E. huxleyi, comprising more than 99 % of the final biomass. During the logarithmic growth phase (phase I), mean DMS concentration in high p CO2 mesocosms (1000 µ atm) was 28 % lower than that in low p CO2 mesocosms (400 µ atm). Elevated p CO2 led to a delay in DMSP-consuming bacteria concentrations attached to T. weissflogii and P. tricornutum and finally resulted in the delay of DMS concentration in the high p CO2 treatment. Unlike DMS, the elevated p CO2 did not affect DMSP production ability of T. weissflogii or P. tricornuntum throughout the 5-week culture. A positive relationship was detected between CH3I and T. weissflogii and P. tricornuntum during the experiment, and there was a 40 % reduction in mean CH3I concentration in the high p CO2 mesocosms. CHBrCl2 , CH3Br , and CH2Br2 concentrations did not increase with elevated chlorophyll a (Chl a) concentrations compared with DMS(P) and CH3I , and there were no major peaks both in the high p CO2 or low p CO2 mesocosms. In addition, no effect of elevated p CO2 was identified for any of the three bromocarbons.

Ulva lactuca and Ulvaria obscura are seaweeds that form green tides on Salish Sea shores. They have similar macroscopic morphologies but differ in their biochemistries and physiological responses. To understand how they are affected by changes in environmental conditions, a factorial experiment was conducted in which algae were grown in artificial seawater with either low (10 μM) or high (160 μM) nitrate (NO3−) concentrations at high (29 mol photons·m−2.day−1) and low (4 mol photons·m−2.day−1) light levels. Light and NO3− affected algal responses, but always independently. After two weeks, U. lactuca grown in high light were larger, had lower maximum quantum yields (MQYs), and lower nitrogen (N), carbon (C), pigment, and dimethylsulfoniopropionate (DMSP) concentrations, respectively, relative to algae in low light. In contrast, U. obscura growth was unaffected by light. Like U. lactuca, U. obscura grown in high light had lower MQYs, and N, pigment, and DMSP concentrations. In high light, U. obscura also had 89% higher dopamine concentrations and a tendency to fragment. Both U. lactuca and U. obscura grown in 160 μM NO3− were larger, had higher MQYs, and higher N, pigment, and DMSP concentrations, respectively, than algae in 10 μM NO3−. Also, when U. obscura was grown in the 160 μM NO3− medium, it significantly increased its surface area/mass ratio. Although both species grew faster in high NO3−, high light only promoted the growth of Ulva, which may explain the dominance of Ulva in summer months. High light was physiologically stressful to both species and caused increases in photoprotective mechanisms, such as the production of dopamine, a melanin precursor, in Ulvaria, and DMSP lysis in Ulva to generate antioxidants. Growing in 10 μM NO3- produced responses that were consistent with nitrogen limitation and had greater impacts on Ulvaria than Ulva, suggesting that Ulvaria responds more strongly to eutrophication.

Ofunato Bay is located in the northeastern Pacific Ocean area of Japan, and it has the highest biodiversity of marine organisms in the world, primarily due to tidal influences from the cold Oyashio and warm Kuroshio Currents. Our previous results from performing shotgun metagenomics indicated that Candidatus Pelagibacter ubique and Planktomarina temperata were the dominant bacteria (Reza et al., 2018a, 2018b). These bacteria are reportedly able to catabolize dimethylsulfoniopropionate (DMSP) produced from phytoplankton into dimethyl sulfide (DMS) or methanethiol (MeSH). This study was focused on seasonal changes in the abundances of bacterial genes (dddP, dmdA) related to DMSP catabolism in the seawater of Ofunato Bay by BLAST+ analysis using shotgun metagenomic datasets. We found seasonal changes among the Candidatus Pelagibacter ubique strains, including those of the HTCC1062 type and the Red Sea type. A good correlation was observed between the chlorophyll a concentrations and the abundances of the catabolic genes, suggesting that the bacteria directly interact with phytoplankton in the marine material cycle system and play important roles in producing DMS and MeSH from DMSP as signaling molecules for the possible formation of the scent of the tidewater or as fish attractants.

Dimethylsulfoniopropionate (DMSP) is a key biogenic compound in marine algae and symbiotic cnidarians. Besides its role as a precursor of the climatically active dimethylsulfide, DMSP is a putative antioxidant through its capacity to scavenge reactive oxygen species. Here, the production of DMSP concurrently with the antioxidant capacity (AOC) among the host and endosymbionts of two colour phenotypes of the sea anemone Entacmaea quadricolor, that provides essential habitat for anemonefish, was investigated for 9 days under heat stress (3.2 °C and 6.3 °C above control). Although visual signs of bleaching were observed on day 3 in all of the anemones at high temperature, cell density and chlorophyll a content did not vary among temperatures over time. The maximum quantum yield of endosymbionts decreased over time in medium and high temperature treatments in both phenotypes, indicating slight photoinhibition under thermal stress. Temperature had no or little effect on AOC and DMSP concentrations in the host and endosymbionts in both phenotypes, suggesting adaptation of subtropical E. quadricolor and associated symbionts to short-term abrupt changes in temperature, which is a regular occurrence in this region. However, host and endosymbiont AOC and DMSP concentrations were, at least partly, driven by the host phenotype, with overall greater AOC and lower DMSP concentrations being found in pink compared with green anemones. These results, along with stronger photoinhibition in the green phenotype under thermal stress suggest that green anemones could be more vulnerable to environmental pressure than the pink phenotype. As our oceans continue to warm, the differing responses of the colour phenotypes may influence their relative abundance on reefs, and have implications for reproductive success as the phenotypes correspond to different sexes. Furthermore, the selective disappearance of one phenotype could adversely affect anemonefish that preferentially associate with more sensitive colour morphs.

Marine organisms release dimethylsulfide (DMS) via cleavage of dimethylsulfoniopropionate (DMSP). Different genes encoding proteins with DMSP lyase activity are known, yet these exhibit highly variable levels of activity. Most assigned bacterial DMSP lyases, including DddK, DddL, DddQ, DddW, and DddY, appear to belong to one, cupin-like superfamily. Here, we attempted to define and map this superfamily dubbed cupin-DLL (DMSP lyases and lyase-like). To this end, we have pursued the characterization of various recombinant DMSP lyases belonging to this superfamily of metalloenzymes, and especially of DddY and DddL that seem to be the most active DMSP lyases in this superfamily. We identified two conserved sequence motifs that characterize this superfamily. These motifs include the metal-ligating residues that are absolutely essential and other residues including an active site tyrosine that seems to play a relatively minor role in DMSP lysis. We also identified a transition metal chelator, N, N, N', N'-tetrakis(2-pyridylmethyl)ethane-1,2-diamine (TPEN), that selectively inhibits all known members of the cupin-DLL superfamily that exhibit DMSP lyase activity. A phylogenetic analysis indicated that the known DMSP lyase families are sporadically distributed suggesting that DMSP lyases evolved within this superfamily multiple times. However, unusually low specific DMSP lyase activity and genome context analysis suggest that DMSP lyase is not the native function of most cupin-DLL families. Indeed, a systematic profiling of substrate selectivity with a series of DMSP analogues indicated that some members, most distinctly DddY and DddL, are bona fide DMSP lyases, while others, foremost DddQ, may only exhibit promiscuous DMSP lyase activity.

The marine macroalga Ulva mutabilis (Chlorophyta) develops into callus-like colonies consisting of undifferentiated cells and abnormal cell walls under axenic conditions. Ulva mutabilis is routinely cultured with two bacteria, the Roseovarius sp. MS2 strain and the Maribacter sp. MS6 strain, which release morphogenetic compounds and ensure proper algal morphogenesis. Using this tripartite community as an emerging model system, we tested the hypothesis that the bacterial-algal interactions evolved as a result of mutually taking advantage of signals in the environment. Our study aimed to determine whether cross-kingdom crosstalk is mediated by the attraction of bacteria through algal chemotactic signals. Roseovarius sp. MS2 senses the known osmolyte dimethylsulfoniopropionate (DMSP) released by Ulva into the growth medium. Roseovarius sp. is attracted by DMSP and takes it up rapidly such that DMSP can only be determined in axenic growth media. As DMSP did not promote bacterial growth under the tested conditions, Roseovarius benefited solely from glycerol as the carbon source provided by Ulva. Roseovarius quickly catabolized DMSP into methanethiol (MeSH) and dimethylsulphide (DMS). We conclude that many bacteria can use DMSP as a reliable signal indicating a food source and promote the subsequent development and morphogenesis in Ulva.

Granulosicoccus, the only genus of the family Granulosicoccaceae, occupies a distinct phylogenetic position within the order Chromatiales of the Gammaproteobacteria. The genus has been found in various marine regions, especially associated with diverse marine macroalgae. No genomes have been reported for the genus Granulosicoccus thus far, hampering studies on physiology and lifestyles of this genus. Here we report the complete genome sequence of strain IMCC3135T, the type strain of Granulosicoccus antarcticus isolated from Antarctic coastal seawater. The genome was 7.78 Mbp long and harbored many genes involved in sulfur metabolism. In particular, a gene for dimethylsulfoniopropionate (DMSP) demethylase was found in the genome, rendering strain IMCC3135T one of the few marine gammaproteobacteria equipped with the potential for DMSP demethylation.

Phytoplankton rely on bioactive zwitterionic and highly polar small metabolites with osmoregulatory properties to compensate changes in the salinity of the surrounding seawater. Dimethylsulfoniopropionate (DMSP) is a main representative of this class of metabolites. Salinity-dependent DMSP biosynthesis and turnover contribute significantly to the global sulfur cycle. Using advanced chromatographic and mass spectrometric techniques that enable the detection of highly polar metabolites, we identified cysteinolic acid as an additional widely distributed polar metabolite in phytoplankton. Cysteinolic acid belongs to the class of marine sulfonates, metabolites that are commonly produced by algae and consumed by bacteria. It was detected in all dinoflagellates, haptophytes, diatoms and prymnesiophytes that were surveyed. We quantified the metabolite in different phytoplankton taxa and revealed that the cellular content can reach even higher concentrations than the ubiquitous DMSP. The cysteinolic acid concentration in the cells of the diatom Thalassiosira weissflogii increases significantly when grown in a medium with elevated salinity. In contrast to the compatible solute ectoine, cysteinolic acid is also found in high concentrations in axenic algae, indicating biosynthesis by the algae and not the associated bacteria. Therefore, we add this metabolite to the family of highly polar metabolites with osmoregulatory characteristics produced by phytoplankton.