Bacterial Production Rates Research Articles

Response of the microbial community to coral spawning in lagoon and reef flat environments of Hawaii, USA

The response of the microbial community to coral spawning was investigated over a period of 18 mo, from January 2006 to July 2007, in reef flat and lagoon environments of a sub- tropical embayment (Kaneohe Bay, Oahu, Hawaii, USA). The composition of the bacterioplankton community was characterized using terminal restriction fragment length polymorphism (T-RFLP) analysis of bacterial small-subunit (SSU) ribosomal RNA genes in parallel with measurements of microbial cell abundances, bacterial production via 3 H-leucine incorporation, and seawater bio- chemical parameters. We observed a variable bacterioplankton community structure and 2- to 3-fold changes in the cellular abundance of microorganisms, concentrations of chlorophyll a, and rates of bacterial carbon production at both sites during non-spawning conditions. While shifts in the structure of the bacterioplankton community were evident for both environments following coral spawning, microbial abundances and rates of bacterial production remained largely unchanged from pre-spawning levels. Thus, it appeared that only a small fraction of the microbial community responded to the presence of coral-produced organic matter. Differences in the composition of the bacterioplankton community, cellular abundances of microorganisms, and rates of bacterial produc- tion were evident between the lagoon and reef flat sites during non-spawning conditions, probably signifying the importance of the surface flow regime for coastal reef microbial communities. Our observations indicate that the Kaneohe Bay microbial community may be more significantly affected by physical mixing processes than by organic matter loading from coral spawning.

The contribution of heterotrophic nanoflagellate grazing towards bacterial mortality in tropical waters: comparing estuaries and coastal ecosystems

Heterotrophic nanoflagellate (HNF) grazing depends on both temperature and trophic status of an ecosystem. As most microbes already function at their temperature optimum in tropical waters, we hypothesised that HNF grazing rates would be higher in more productive sites such as estuaries than in less productive areas such as coastal waters. We sampled two estuaries and three coastal sites along the Straits of Malacca and the South China Sea near the Malaysia Peninsula. Bacterial abundance ranged 0.9–6.3 × 106 cells mL–1, whereas HNF abundance ranged 1.8–10.1 ×103 cells mL–1. Bacterial production ranged 1.1–12.7 × 105 cells mL–1 h–1, whereas HNF grazing rates were an order of magnitude lower at 1.0–78.5 × 104 cells mL–1 h–1. Bacterial abundance, net bacterial production and HNF grazing rates were higher in estuaries than coastal waters but HNF abundance did not differ between the two areas. Across all stations, HNF grazing rates increased with bacterial production, and accounted for ~33% of bacterial production. Our results suggest that in the tropical waters studied, there was a bacterial production–grazing imbalance. Other loss factors such as viral lysis, sedimentation or the presence of benthic filter feeders could account for this imbalance.

Rule-based modelling of iron homeostasis in tuberculosis

To establish itself within the host system, Mycobacterium tuberculosis (Mtb) has formulated various means of attacking the host system. One such crucial strategy is the exploitation of the iron resources of the host system. Obtaining and maintaining the required concentration of iron becomes a matter of contest between the host and the pathogen, both trying to achieve this through complex molecular networks. The extent of complexity makes it important to obtain a systems perspective of the interplay between the host and the pathogen with respect to iron homeostasis. We have reconstructed a systems model comprising 92 components and 85 protein-protein or protein-metabolite interactions, which have been captured as a set of 194 rules. Apart from the interactions, these rules also account for protein synthesis and decay, RBC circulation and bacterial production and death rates. We have used a rule-based modelling approach, Kappa, to simulate the system separately under infection and non-infection conditions. Various perturbations including knock-outs and dual perturbation were also carried out to monitor the behavioral change of important proteins and metabolites. From this, key components as well as the required controlling factors in the model that are critical for maintaining iron homeostasis were identified. The model is able to re-establish the importance of iron-dependent regulator (ideR) in Mtb and transferrin (Tf) in the host. Perturbations, where iron storage is increased, appear to enhance nutritional immunity and the analysis indicates how they can be harmful for the host. Instead, decreasing the rate of iron uptake by Tf may prove to be helpful. Simulation and perturbation studies help in identifying Tf as a possible drug target. Regulating the mycobactin (myB) concentration was also identified as a possible strategy to control bacterial growth. The simulations thus provide significant insight into iron homeostasis and also for identifying possible drug targets for tuberculosis.

Investigating the decay rates of Escherichia coli relative to Vibrio parahemolyticus and Salmonella Typhi in tropical coastal waters

Using the size fractionation method, we measured the decay rates of Escherichia coli, Salmonella Typhi and Vibrio parahaemolyticus in the coastal waters of Peninsular Malaysia. The size fractions were total or unfiltered, <250 μm, <20 μm, <2 μm, <0.7 μm, <0.2 μm and <0.02 μm. We also carried out abiotic (inorganic nutrients) and biotic (bacterial abundance, production and protistan bacterivory) measurements at Port Dickson, Klang and Kuantan. Klang had highest nutrient concentrations whereas both bacterial production and protistan bacterivory rates were highest at Kuantan. We observed signs of protist–bacteria coupling via the following correlations: Protistan bacterivory−Bacterial Production: r = 0.773, df = 11, p < 0.01; Protist−Bacteria: r = 0.586, df = 12, p < 0.05. However none of the bacterial decay rates were correlated with the biotic variables measured. E. coli and Salmonella decay rates were generally higher in the larger fraction (>0.7 μm) than in the smaller fraction (<0.7 μm) suggesting the more important role played by protists. E. coli and Salmonella also decreased in the <0.02 μm fraction and suggested that these non-halophilic bacteria did not survive well in seawater. In contrast, Vibrio grew well in seawater. There was usually an increase in Vibrio after one day incubation. Our results confirmed that decay or loss rates of E. coli did not match that of Vibrio, and also did not correlate with Salmonella decay rates. However E. coli showed persistence where its decay rates were generally lower than Salmonella.

Bacterioplankton responses to iron enrichment during the SAGE experiment

We studied the microbial food web in the upper 100 m of the water column in iron-limited sub-Antarctic HNLC waters south-east of New Zealand in the SAGE experiment in 2004, with focus on bacterioplankton. Samples were collected daily from inside and outside the iron enriched patch. Short term enrichment experiments were conducted on board in 4 L polycarbonate bottles with water outside the iron enriched patch to study single and combined effects of micronutrient additions on microbial food web. Low bacterial growth was recorded in the study area with community turnover times of 50 h or more during the study period. Measurements of bacterial standing stocks and production rates in the study show minor responses to the large scale iron enrichment, with increase in rates and stocks after the first enrichment and at the end of the study period after the third iron enrichment when solar radiation increased and wind mixing decreased. The average daily bacterial production rates were 31.5 and 33.7 mgCm −2 d −1 for the OUT and IN stations, respectively; thus overall there was not a significant difference between the control and the iron-enriched patch. In the bottle experiments bacterial thymidine incorporation showed responses to single iron and silicic acid enrichments and a major growth response to the combined iron and sucrose enrichments. Phytoplankton chlorophyll- a showed clear stimulation by single additions of iron and silicic acid and silicic acid enhanced the iron impact. Cobalt additions had no effect on bacteria growth and a negative effect on phytoplankton growth. Low bacterial in situ growth rates and the enrichment experiments suggest that bacteria are co-limited by iron and carbon, and that bacterial iron uptake is dependent on carbon supply by the food web. With the high iron quota (μmol Fe mol C −1) bacteria may scavenge considerable amounts of the excess iron, and thus influence the relative importance of the microbial food web as a carbon sink.

ORIGINAL ARTICLE: Application of soybean meal, soy protein concentrate and isolate differing in α-galactosides content to low- and high-fibre diets in growing turkeys

The aim of this experiment was to investigate the physiological and growth response of young turkeys (up to 8 weeks of age) to dietary replacement of soybean meal (SBM) by soy protein concentrate (PC) or protein isolate (PI). This replacement resulted in a differentiated dietary concentration of α-galactosides of over 2.5% in the SBM diet, approximately 2% with a mixture SBM and PC, 1% with a PC diet and 0.1% with a PI diet. Each treatment was applied in two ways: with lower (3.5%) or higher (5.3%) dietary crude fibre content, made by supplementation with soybean hulls. The highest and lowest body weight of turkeys was recorded both after the first and second 4-week half of the study in the PC and PI-type diets respectively. A gradual withdrawal of α-galactosides from a diet was accompanied by a decline in ileal tissue mass, ileal viscosity and activity of endogenous maltase (the latter was found to be significant at 4 weeks of age). At the same time, two-way anova revealed that an elevated level of crude fibre (HF treatment) caused an increase in ileal tissue mass (p < 0.05 after 4 weeks of feeding) as well as a decrease in activity level of intestinal sucrase and maltase. The presence of raffinose family oligosaccharides in a diet, in contrast to dietary crude fibre level, significantly affected the caecal metabolism. The rate of bacterial production of short-chain fatty acids in the caeca was distinctly diminished by dietary withdrawal of α-galactosides. In conclusion, the soy protein concentrate, in contrast to the protein isolate preparation, exerted positive effects on the turkeys' growth and gastrointestinal tract physiology and should be considered as an effective SBM substitute.

The interplay between bacterial community composition and the environment determining function of inland water bacteria

We hypothesized that habitats differing in water flow regime would differ in bacterial function either because of differences in the local environment, in bacterial community composition (BCC), or in the mechanism shaping BCC (community assembly). In 20 lakes and 17 inlet streams BCC was analyzed by terminal restriction fragment length polymorphism of the gene coding for 16S ribosomal RNA, and bacterial function was estimated as bacterial production rate (BP, measured as leucine incorporation) per content of dissolved organic carbon (DOC) (BP : DOC). BCC in both lakes and streams appeared to be shaped by local environmental forces (i.e., species sorting according to metacommunity theory), but not by massive introduction of cells from the drainage area (mass effect). BP :DOC was lower in streams than in lakes, which appeared to be both because of differences in BCC and environment between lakes and streams, independent of each other. We found no support for an effect of water flow regime in itself (i.e., cell dispersal rate) causing the lower functionality of the streams. In streams, BP :DOC was correlated to both BCC and environment, independent of each other, while in lakes function could not be explained by either BCC or environment. The greater environmental variability among our streams than among our lakes may be the cause for the stronger BCC‐function coupling in our streams, since smaller environmental variation among our lakes would allow a greater functional redundancy.

Oceanic heterotrophic bacterial nutrition by semilabile DOM as revealed by data assimilative modeling

Previous studies have focused on the role of labile dissolved organic matter (DOM) (defined as turnover time of ~1 d) in supporting heterotrophic bacterial production, but have mostly neglected semilabile DOM (defined as turnover time of ~100 to 1000 d) as a potential substrate for heterotrophic bacterial growth. To test the hypothesis that semilabile DOM supports substantial amounts of heterotrophic bacterial production in the open ocean, we constructed a 1-dimensional epipelagic ecosystem model and applied it to 3 open ocean sites: the Arabian Sea, Equatorial Pacific and Station ALOHA in the North Pacific Subtropical Gyre. The model tracks carbon, nitrogen and phosphorus with flexible stoichiometry. This study used a large number of observations, including measurements of heterotrophic bacterial production rates and standing stocks, and DOM concentra- tion data, to rigorously test and constrain model output. Data assimilation was successfully applied to optimize the model parameters and resulted in simultaneous representation of observed nitrate, phosphate, phytoplankton and zooplankton biomass, primary production, heterotrophic bacterial biomass and production, DOM, and suspended and sinking particulate organic matter. Across the 3 ocean ecosystems examined, the data assimilation suggests semilabile DOM may support 17 to 40% of heterotrophic bacterial carbon demand. In an experiment where bacteria only utilize labile DOM, and with more of the DOM production assigned to labile DOM, the model poorly represented the observations. These results suggest that semilabile DOM may play an important role in sustaining heterotrophic bacterial growth in diverse regions of the open ocean.

High bicarbonate assimilation in the dark by Arctic bacteria

Although both autotrophic and heterotrophic microorganisms incorporate CO₂ in the dark through different metabolic pathways, this process has usually been disregarded in oxic marine environments. We studied the significance and mediators of dark bicarbonate assimilation in dilution cultures inoculated with winter Arctic seawater. At stationary phase, bicarbonate incorporation rates were high (0.5-2.5 μg C L⁻¹ d⁻¹) and correlated with rates of bacterial heterotrophic production, suggesting that most of the incorporation was due to heterotrophs. Accordingly, very few typically chemoautotrophic bacteria were detected by 16S rRNA gene cloning. The genetic analysis of the biotin carboxylase gene accC putatively involved in archaeal CO₂ fixation did not yield any archaeal sequence, but amplified a variety of bacterial carboxylases involved in fatty acids biosynthesis, anaplerotic pathways and leucine catabolism. Gammaproteobacteria dominated the seawater cultures (40-70% of cell counts), followed by Betaproteobacteria and Flavobacteria as shown by catalyzed reporter deposition fluorescence in situ hybridization (CARDFISH). Both Beta- and Gammaproteobacteria were active in leucine and bicarbonate uptake, while Flavobacteria did not take up bicarbonate, as measured by microautoradiography combined with CARDFISH. Within Gammaproteobacteria, Pseudoalteromonas-Colwellia and Oleispira were very active in bicarbonate uptake (ca. 30 and 70% of active cells, respectively), while the group Arctic96B-16 did not take up bicarbonate. Our results suggest that, potentially, the incorporation of CO₂ can be relevant for the metabolism of specific Arctic heterotrophic phylotypes, promoting the maintenance of their cell activity and/or longer survival under resource depleted conditions.

Degradation of the Adriatic medusa Aurelia sp. by ambient bacteria

The decomposition of jellyfish after major bloom events results in the release of large amounts of nutrients, which can significantly alter nutrient and oxygen dynamics in the surrounding environment. The response of the ambient bacterial community to decomposing jellyfish biomass was evaluated in two marine ecosystems, the Gulf of Trieste (northern Adriatic Sea) and Big Lake (Mljet Island, southern Adriatic Sea). The major difference between these two ecosystems is that Aurelia sp. medusae occur throughout the year in the oligotrophic Big Lake, whereas in the mesotrophic Gulf of Trieste, they occur only seasonally and often as blooms. Addition of homogenized jellyfish to enclosed bottles containing ambient water from each of these systems triggered considerable changes in the bacterial community dynamics and in the nutrient regime. The high concentrations of protein, dissolved organic phosphorous (DOP), and PO4 3− immediately after homogenate addition stimulated increase in bacterial abundance and production rate, coupled with NH4 + accumulation in both ecosystems. Our preliminary results of the bacterial community structure, as determined with denaturing gradient gel electrophoresis, indicated differences in the bacterial community response between the two ecosystems. Despite divergence in the bacterial community responses to jellyfish homogenate, increased bacterial biomass and growth rates in both distinctive marine systems indicate potentially significant effects of decaying jellyfish blooms on microbial plankton.

Production of surfactin and fengycin by Bacillus subtilis in a bubbleless membrane bioreactor

Surfactin and fengycin are lipopeptide biosurfactants produced by Bacillus subtilis. This work describes for the first time the use of bubbleless bioreactors for the production of these lipopeptides by B. subtilis ATCC 21332 with aeration by a hollow fiber membrane air-liquid contactor to prevent foam formation. Three different configurations were tested: external aeration module made from either polyethersulfone (reactor BB1) or polypropylene (reactor BB2) and a submerged module in polypropylene (reactor BB3). Bacterial growth, glucose consumption, lipopeptide production, and oxygen uptake rate were monitored during the culture in the bioreactors. For all the tested membranes, the bioreactors were of satisfactory bacterial growth and lipopeptide production. In the three configurations, surfactin production related to the culture volume was in the same range: 242, 230, and 188 mg l(-1) for BB1, BB2, and BB3, respectively. Interestingly, high differences were observed for fengycin production: 47 mg l(-1) for BB1, 207 mg l(-1) for BB2, and 393 mg l(-1) for BB3. A significant proportion of surfactin was adsorbed on the membranes and reduced the volumetric oxygen mass transfer coefficient. The degree of adsorption depended on both the material and the structure of the membrane and was higher with the submerged polypropylene membrane.

Effects of small-scale turbulence on lower trophic levels under different nutrient conditions

Small-scale turbulence affects the pelagic food web and energy flow in marine systems and the impact is related to nutrient conditions and the assemblage of organisms present. We generated five levels of turbulence (2*10 29 to 1*10 24 W kg 21 ) in land-based mesocosms (volume 2.6 m 3 ) with and without additional nutrients (31:16:1 Si:N:P m M) to asses the effect of small-scale turbulence on the lower part of the pelagic food web under different nutrient conditions. The ecological influence of nutrients and small-scale turbulence on lower trophic levels was quantified using multivariate statistics (RDA), where nutrients accounted for 31.8% of the observed biological variation, while 7.2% of the variation was explained by small-scale turbulence and its interaction with nutrients. Chlorophyll a, primary production rates, bacterial production rates and diatom and dinoflagellate abundance were positively correlated to turbulence, regardless of nutrient conditions. Abundance of autotrophic flagellates, total phytoplankton and bacteria were positively correlated to turbulence only when nutrients were added. Impact of small-scale turbulence was related to nutrient con- ditions, with implications for oligotrophic and eutrophic situations. The effect on community level was also different compared to single species level. Microbial processes drive biogeochemical cycles, and nutrient-controlled effects of small-scale turbulence on such processes are relevant to foresee altered carbon flow in marine systems.

Total and phytoplankton mediated bottom-up control of bacterioplankton change with temperature in NE Atlantic shelf waters

AME Aquatic Microbial Ecology Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout the JournalEditorsSpecials AME 58:229-239 (2010) - DOI: https://doi.org/10.3354/ame01374 Total and phytoplankton mediated bottom-up control of bacterioplankton change with temperature in NE Atlantic shelf waters Xosé Anxelu G. Morán1,2,*, Alejandra Calvo-Díaz1, Hugh W. Ducklow2 1Centro Oceanográfico de Xixón, Instituto Español de Oceanografía, Camín de L’Arbeyal, s/n, 33212 Xixón, Spain 2The Ecosystems Center, MBL, 7 MBL Street, Woods Hole, Massachusetts 02543-1015, USA *Email: xelu.moran@gi.ieo.es ABSTRACT: The regulation of heterotrophic bacterial growth by resource supply (bottom-up control) was temperature-dependent in our analysis of data obtained during 2006 in the euphotic layer of the southern Bay of Biscay (NE Atlantic) continental shelf. The dataset was split into 2 subgroups using 16°C as the boundary between warm and cool waters based on differences in associated physico-chemical conditions, e.g. inorganic nutrient limitation at higher temperatures. The linear regressions between bacterial biomass (BB) and leucine incorporation rates (LIR) were significantly positive in both temperature regimes, thus indicating similar total bottom-up control, albeit with a slightly higher slope in warm waters (0.33 vs. 0.22). However, the relationship of LIR with phytoplankton biomass (chl a), which is an indicator of bottom-up control that is mediated by phytoplankton, was only significant in waters below 16°C. The analysis of bimonthly variations in the BB-LIR and LIR-chl a correlations indicated that the strength of total bottom-up control significantly increased while the role of phytoplankton in supplying DOM to bacteria diminished with mean temperatures over the 12 to 19°C range, suggesting a seasonal switch in the major source of substrates used by bacteria. We show that the abundance of cells with relatively high nucleic acid content (HNA), which are hypothesized to be the most active ones, was positively associated with bacterial production and specific growth rates in cool but not in warm conditions. These results suggest that HNA bacteria are good predictors of bulk activity and production in temperate ecosystems only when the community relies principally on phytoplankton substrates for growth and metabolism. KEY WORDS: Bacterioplankton · Bottom-up control · Temperature · Bacterial biomass · Bacterial activity · Phytoplankton · Coastal waters Full text in pdf format PreviousNextCite this article as: Morán XAG, Calvo-Díaz A, Ducklow HW (2010) Total and phytoplankton mediated bottom-up control of bacterioplankton change with temperature in NE Atlantic shelf waters. Aquat Microb Ecol 58:229-239. https://doi.org/10.3354/ame01374 Export citation RSS - Facebook - Tweet - linkedIn Cited by Published in AME Vol. 58, No. 3. Online publication date: January 20, 2010 Print ISSN: 0948-3055; Online ISSN: 1616-1564 Copyright © 2010 Inter-Research.

Effects of small-scale turbulence on lower trophic levels under different nutrient conditions

Small-scale turbulence affects the pelagic food web and energy flow in marine systems and the impact is related to nutrient conditions and the assemblage of organisms present. We generated five levels of turbulence (2*10−9 to 1*10−4 W kg−1) in land-based mesocosms (volume 2.6 m3) with and without additional nutrients (31:16:1 Si:N:P μM) to asses the effect of small-scale turbulence on the lower part of the pelagic food web under different nutrient conditions. The ecological influence of nutrients and small-scale turbulence on lower trophic levels was quantified using multivariate statistics (RDA), where nutrients accounted for 31.8% of the observed biological variation, while 7.2% of the variation was explained by small-scale turbulence and its interaction with nutrients. Chlorophyll a, primary production rates, bacterial production rates and diatom and dinoflagellate abundance were positively correlated to turbulence, regardless of nutrient conditions. Abundance of autotrophic flagellates, total phytoplankton and bacteria were positively correlated to turbulence only when nutrients were added. Impact of small-scale turbulence was related to nutrient conditions, with implications for oligotrophic and eutrophic situations. The effect on community level was also different compared to single species level. Microbial processes drive biogeochemical cycles, and nutrient-controlled effects of small-scale turbulence on such processes are relevant to foresee altered carbon flow in marine systems.

PAH mineralization and bacterial organotolerance in surface sediments of the Charleston Harbor estuary

Semi-volatile organic compounds (SVOCs) in estuarine waters can adversely affect biota but watershed sources can be difficult to identify because these compounds are transient. Natural bacterial assemblages may respond to chronic, episodic exposure to SVOCs through selection of more organotolerant bacterial communities. We measured bacterial production, organotolerance and polycyclic aromatic hydrocarbon (PAH) mineralization in Charleston Harbor and compared surface sediment from stations near a known, permitted SVOC outfall (pulp mill effluent) to that from more pristine stations. Naphthalene additions inhibited an average of 77% of bacterial metabolism in sediments from the more pristine site (Wando River). Production in sediments nearest the outfall was only inhibited an average of 9% and in some cases, was actually stimulated. In general, the stations with the highest rates of bacterial production also were among those with the highest rates of PAH mineralization. This suggests that the capacity to mineralize PAH carbon is a common feature amongst the bacterial assemblage in these estuarine sediments and could account for an average of 5.6% of bacterial carbon demand (in terms of production) in the summer, 3.3% in the spring (April) and only 1.2% in winter (December).

Annual DMSP contribution to S and C fluxes through phytoplankton and bacterioplankton in a NW Mediterranean coastal site

AME Aquatic Microbial Ecology Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout the JournalEditorsSpecials AME 57:43-55 (2009) - DOI: https://doi.org/10.3354/ame01325 Annual DMSP contribution to S and C fluxes through phytoplankton and bacterioplankton in a NW Mediterranean coastal site Rafel Simó1,*, Maria Vila-Costa1,2,3, Laura Alonso-Sáez1,4, Clara Cardelús1, Òscar Guadayol1, Evaristo Vázquez-Domínguez1, Josep M. Gasol1 1Department of Marine Biology and Oceanography, Institut de Ciències del Mar, CSIC, Pg Marítim de la Barceloneta 37–49, 08003 Barcelona, Catalunya, Spain 2Present address: Department of Marine Sciences, University of Georgia, Athens, Georgia 30602, USA 3Present address: Group of Limnology, Department of Continental Ecology, Centre d’Estudis Avançats de Blanes, CSIC, c. d’accés a la Cala St. Frances 14, 17300 Blanes, Catalunya, Spain 4Present address: Limnology/Department of Ecology and Evolution, Uppsala University, 75123 Uppsala, Sweden *Email: rsimo@icm.csic.es ABSTRACT: The contribution of dimethylsulfoniopropionate (DMSP) to the fluxes of carbon and sulfur through phytoplankton and bacterioplankton was investigated throughout an annual cycle in the Blanes Bay Microbial Observatory (coastal NW Mediterranean). DMSP accounted for 0.3 to 7% of biovolume-estimated phytoplankton carbon and 4 to 93% of calculated phytoplankton sulfur, with higher contributions in ‘summer’ (highly irradiated, oligotrophic waters, May to September) and lower in ‘winter’ (October to April). DMSP biosynthesis rates accounted for 0.8 to 7% of carbon fixation and 11 to 88% of sulfur assimilation through primary production, with slightly higher shares in summer. Upon release from the algal cells, DMSP supplied 0.5 to 6% of the total carbon demand of heterotrophic bacteria, and 3 to 100% of the sulfur demand over the year. Uncertainties associated with these calculations are due to a scarce knowledge of C:S ratios in marine bacteria. Bacterial DMSP-sulfur assimilation (measured with 35S-DMSP) was positively correlated with bacterial heterotrophic production rates (measured with 3H-leucine). In summer waters, characterized by higher ratios of particulate DMSP to chlorophyll a (DMSP p:chl a), DMSP-sulfur assimilation by bacteria was higher and contributed a larger share of the bacterial sulfur demand. We propose that the DMSP:chl a ratio is a good indicator of the relative role of DMSP in the carbon and sulfur fluxes through the first levels of the planktonic food web. KEY WORDS: Dimethylsulfide · Dimethylsulfoniopropionate · Sulfur · Food web · Primary production · Bacterial production · Respiration · Mediterranean Full text in pdf format PreviousNextCite this article as: Simó R, Vila-Costa M, Alonso-Sáez L, Cardelús C, Guadayol Ò, Vázquez-Domínguez E, Gasol JM (2009) Annual DMSP contribution to S and C fluxes through phytoplankton and bacterioplankton in a NW Mediterranean coastal site. Aquat Microb Ecol 57:43-55. https://doi.org/10.3354/ame01325Export citation RSS - Facebook - Tweet - linkedIn Cited by Published in AME Vol. 57, No. 1. Online publication date: September 08, 2009 Print ISSN: 0948-3055; Online ISSN: 1616-1564 Copyright © 2009 Inter-Research.

Temporal variations in microbial activities and carbon turnover in subtidal sandy sediments

Abstract. Temporal dynamics and vertical patterns in bacterial abundances and activities were studied in a shallow subtidal sand flat in the Sylt-Rømø Basin (North Frisian Wadden Sea, Germany). Extracellular enzymatic activities, bacterial carbon production and community respiration showed strong (factor of 4–5) temporal variations that were mostly related to seasonal temperature change and to changes in substrate availability. These temporal patterns in enzymatic activity were barely reflected in bacterial (200–400 mmol C m−2) and microphytobenthic biomass (800–1500 mmol C m−2) or the sedimentary carbohydrate inventory (1300–2900 mmol C m−2), suggesting that grazing controls the standing stocks of the microphytobenthic and bacterial assemblages. Despite their exposure to strong hydrodynamic forces such as tidal currents and wind-induced wave surge, the subtidal sandy sediments showed persistent vertical gradients in bacterial abundances, carbon production and extracellular enzymatic activities at all times. The vertical distribution of these parameters was tightly coupled to that of the microphytobenthos, dominated by diatoms. Despite the low organic carbon content typical for surge-exposed sandy sediments, high extracellular enzymatic activities and bacterial carbon production rates indicate a very active heterotrophic bacterial community, with a gross secondary productivity of 30–180 mmol C m−2, and a biomass turnover time of 2–18 days. Our data suggest that this high activity is supported by the rapid flux of carbohydrates from microphytobenthic primary productivity. Accordingly, the potential activities of enzymes hydrolyzing carbohydrates cover most of the total bacterial carbon demand during all seasons.

Geological, hydrodynamic and biogeochemical variability of a New Zealand deep-water methane cold seep during an integrated three-year time-series study

Cold seeps are widely distributed on active and passive margins and display considerable temporal variability in terms of gas and fluid expulsion rates and volume, over scales of hours to days. To constrain this variability, two cold seeps, the North and South Tower, located at the Wairarapa Seep site on Opouawe Bank, Cook Strait, New Zealand, were monitored in an integrated geological and biogeochemical study during eight surveys between 2005 and 2008. To ensure sampling of the water column within the flare overlying the seeps the vessel was manoeuvred in response to the backscatter data from a hull-mounted 38 kHz single-beam echo-sounder. High methane concentrations (> 100 nmol l − 1 ) were found within 400–450 m-high flares at both sites, and within an 825 m-high flare at a newly identified seep, southeast of Pahaua Bank. Elevated bottom water methane was also found over newly identified mud volcanoes on the Campbell Bank, Cook Strait. The locations of the seeps appear to be structurally controlled with active methane vents occurring on anticlinal ridges and associated with a 30 m-high normal fault scarp on Opouawe Bank. Fluid flow is facilitated by sedimentary layer permeability properties, structural focusing and dilational fracturing on the crest of a large anticlinal ridge, cored by a seaward-verging reverse fault. The South Tower cold seep did not significantly influence bulk sediment and water column particulates and nutrients, although high bacterial biomass, productivity and methane oxidation rates were associated with elevated methane in the flare. The seep flares exhibited depleted δ 13C–CH 4 values (− 63 to − 70‰), characteristic of shallow biogenic gas sources. Incorporation of the δ 13C–CH 4 and CH 4 concentration data in a mixing model, and comparison of the water residence time with methane oxidation rates, indicated that the primary fate of methane in the flare was dilution. The dissolved methane originating from the seeps was retained in the water column at depths > 700 m, with minimal contribution to atmospheric emissions, as confirmed by surface methane mapping. Nevertheless, the South Tower seep was a significant source of methane with a column-integrated burden below 700 m of 5.6 mmol m − 2 , and an estimated annual emission of 0.5–1 × 10 6 mol CH 4. The structural and tectonic setting of the Wairarapa Seep provides a useful analogue model for other convergent margin cold seeps on the Hikurangi Margin and elsewhere. This unique, three-year integrated study provided valuable insights into the linkage between geological structure and overlying water column biogeochemistry, and confirmed the value of this cold seep site for long-term monitoring.

DOC removal paradigms in highly humic aquatic ecosystems

Dissolved humic substances (HS) usually comprise 50-80% of the dissolved organic carbon (DOC) in aquatic ecosystems. From a trophic and biogeochemical perspective, HS has been considered to be highly refractory and is supposed to accumulate in the water. The upsurge of the microbial loop paradigm and the studies on HS photo-degradation into labile DOC gave rise to the belief that microbial processing of DOC should sustain aquatic food webs in humic waters. However, this has not been extensively supported by the literature, since most HS and their photo-products are often oxidized by microbes through respiration in most nutrient-poor humic waters. Here, we review basic concepts, classical studies, and recent data on bacterial and photo-degradation of DOC, comparing the rates of these processes in highly humic ecosystems and other aquatic ecosystems. We based our review on classical and recent findings from the fields of biogeochemistry and microbial ecology, highlighting some odd results from highly humic Brazilian tropical lagoons, which can reach up to 160 mg C L(-1). Highly humic tropical lagoons showed proportionally lower bacterial production rates and higher bacterial respiration rates (i.e., lower bacterial growth efficiency) than other lakes. Zooplankton showed similar delta(13)C to microalgae but not to humic DOC in these highly humic lagoons. Thus, the data reviewed here do not support the microbial loop as an efficient matter transfer pathway in highly humic ecosystems, where it is supposed to play its major role. In addition, we found that some tropical humic ecosystems presented the highest potential DOC photo-chemical mineralization (PM) rates reported in the literature, exceeding up to threefold the rates reported for temperate humic ecosystems. We propose that these atypically high PM rates are the result of a joint effect of the seasonal dynamics of allochthonous humic DOC input to these ecosystems and the high sunlight incidence throughout the year. The sunlight action on DOC is positive to microbial consumption in these highly humic lagoons, but little support is given to the enhancement of bacterial growth efficiency, since the labile photo-chemical products are mostly respired by microbes in the nutrient-poor humic waters. HS may be an important source of energy for aquatic bacteria in humic waters, but it is probably not as important as a substrate to bacterial growth and to aquatic food webs, since HS consumption is mostly channeled through microbial respiration. This especially seems to be the case of humic-rich, nutrient-poor ecosystems, where the microbial loop was supposed to play its major role. Highly humic ecosystems also present the highest PM rates reported in the literature. Finally, light and bacteria can cooperate in order to enhance total carbon degradation in highly humic aquatic ecosystems but with limited effects on aquatic food webs. More detailed studies using C- and N-stable isotope techniques and modeling approaches are needed to better understand the actual importance of HS to carbon cycling in highly humic waters.

Empirical Leucine-to-Carbon Conversion Factors for Estimating Heterotrophic Bacterial Production: Seasonality and Predictability in a Temperate Coastal Ecosystem

Leucine-to-carbon conversion factors (CFs) are needed for converting substrate incorporation into biomass production of heterotrophic bacteria. During 2006 we performed 20 dilution experiments for determining the spatiotemporal variability of empirical CFs in temperate Atlantic coastal waters. Values (0.49 to 1.92 kg C mol Leu(-1)) showed maxima in autumn to early winter and minima in summer. Spatially averaged CFs were significantly negatively correlated with in situ leucine incorporation rates (r = -0.91) and positively correlated with phosphate concentrations (r = 0.76). These relationships, together with a strong positive covariation between cell-specific leucine incorporation rates and carbon contents (r = 0.85), were interpreted as a strategy to maximize survival through protein synthesis and low growth rates under nutrient limitation (low CFs) until favorable conditions stimulate cell division relative to protein synthesis (high CFs). A multiple regression with in situ leucine incorporation rates and cellular carbon contents explained 96% of CF variance in our ecosystem, suggesting their potential prediction from more easily measurable routine variables. The use of the theoretical CF of 1.55 kg C mol Leu(-1) would have resulted in a serious overestimation (73%) of annual bacterial production rates. Our results emphasize the need for considering the temporal scale in CFs for bacterial production studies.