A mesocosm experiment was carried out in a Norwegian fjord near Bergen in May 2006, with the main objective being the study of the effects of increasing concentrations of atmospheric CO2 (and associated effects such as increased acidification) on blooms of natural marine coastal plankton. Three mesocosms were bubbled with CO2(g) to achieve a high (~700ppm) CO2 concentration (pH ~7.8) to simulate predicted future conditions as a result of rising atmospheric CO2 concentrations. Another three mesocosms were treated as controls and bubbled with ambient air to represent a near pre-industrial scenario (atmospheric CO2 concentration ~300ppm, surface seawater pH ~8.15). Blooms in the mesocosms were stimulated by the addition of nutrients at a near-Redfield ratio ([N:P] ≈ [16:1]), and scientific measurements and analyses were carried out over the course of the blooms for approximately one month. Of particular interest in this study were the autotrophic plankton. The diversity and activities of these microorganisms under the two treatments was therefore investigated. By designing and using new degenerate primers specifically targeting ‘Green-type’ (Form IA and IB), ‘Red-type’ (Form IC and ID) and Form II RuBisCO, analysis of primary producers was carried out using PCR and either gDNA or cDNA (mRNA) templates from key time points spanning the complete duration of the blooms throughout the mesocosm experiment. Over 1250 novel RuBisCO large subunit sequences have been fully annotated and deposited in the NCBI GenBank® database. These sequences revealed distinct changes in the diversity of primary producers both over the courses of the blooms and between treatments. Particularly striking was the effect of acidification on the community structure of the eukaryotic picoplankton, Prasinophytes. A clade of prasinophytes closely related to Micromonas pusilla showed a distinct preference for the high CO2 conditions; a laboratory-based experiment confirmed the high tolerance of Micromonas pusilla to lower pH. Conversely, a clade related to Bathycoccus prasinos was almost entirely excluded from the high CO2 treatments. Clades of form II RuBisCO-containing dinoflagellates were also abundant throughout the experiment in both treatments. The high similarity of some of these clades to the toxin-producing species Heterocapsa triquetra and Gonyaulax polyedra, and apparent high tolerance of some clades to high CO2 conditions, is perhaps cause for concern in a high CO2 world and demands further research. In parallel with the RubisCO work, new primers were designed that target the gene encoding the Fe protein of nitrogenase (NifH). 82 Bergen genomic nifH sequences have been annotated and submitted to GenBank®. These sequences include those from organisms related to Alpha, Beta, and Gammaproteobacteria, and Cluster II and Cluster III sequences that align most closely with anaerobic Bacteria, Gram positive, and/or sulphur-reducing Bacteria. The biggest surprise, however, was the apparent abundance and significance of a Rhodobacter sphaeroides-like microorganism throughout the duration of the experiment in both treatments. Whilst this clade was unsurprisingly absent in the RuBisCO cDNA libraries, all but two of 128 nifH cDNA clones analysed were identical to the gene from Rhodobacter sphaeroides. This shows that this clade was potentially fixing N2 throughout the entire experiment, even in the presence of combined N added to both sets of mesocosms at the start of the experiment. A group of Rhodobacter sphaeroides-like microorganisms present at Bergen may therefore have been an unexpected source of new N during the experiment and contributed to the maintenance of the mesocosm communities as nutrients became depleted. One organism dominated the autotrophic communities after the blooms in both treatments. Synechococcus spp. Form IA rbcL clones most closely related to the coastal strain Synechococcus sp. strain CC9902 were recovered throughout the experiment but were particularly numerous toward the end of the experiment and dominated the “Green-type” libraries at this time. Initially, rbcL clones from these cyanobacteria were mostly derived from the ambient CO2 mesocosms but were equally distributed between treatments by the end of the experiment. This suggests that cyanobacteria related to strain CC9902 may be less tolerant of elevated CO2 (which was greatest at the beginning rather than the end of the experiment). However, despite the mesocosms being Pi-limited at the end of the experiment, several Synechococcus species (including those related to strain CC9902 and another coastal strain, CC9311) thrived. Following on from this observation, Pi uptake and assimilation mechanisms in a Synechococcus species were investigated in the laboratory. This led to the sequencing and characterisation of a pstS gene from the marine cyanobacterium Synechococcus sp. WH 8103. Unlike conventional pstS, it was discovered that the pstS II gene in this organism is constitutively expressed and unresponsive to or only weakly regulated by Pi supply. The use of PstS/pstS as a marker for P-limitation in natural samples, therefore, should be interpreted with caution.

Bifenilos policlorados (PCBs) e pesticidas organoclorados são poluentes resistentes à degradação e têm sido identificados em vários compartimentos do ambiente marinho. O objetivo deste trabalho foi otimizar e validar a metodologia, e avaliar a contaminação por pesticidas organoclorados e PCBs em algas e sedimentos costeiros no Estuário e Baía de Santos-São Vicente e no Complexo Estuarino-Lagunar de Iguape e Cananéia (SP). Foram coletadas nessas regiões um total de 37 amostras de sedimento superficial, 3 testemunhos com 27 sub-amostras e 10 amostras de alga, no período de 1998-2001. O método, que incluiu a extração e purificação com solventes orgânicos e análise por GC-ECD, mostrou-se satisfatório dentro dos padrões internacionais. Na região de Cananéia-Iguape predominaram os DDTs (sedimentos: 0,78 a 14,52 ng.g-1 peso seco) e as maiores concentrações ocorreram nas proximidades da Cidade de Cananéia e Baía de Trapandé. Na região de Santos predominaram os PCBs (sedimentos: 4,08 a 133,42 ng.g-1 peso seco, testemunhos de sedimentos: 3, 70 a 44,65 ng.g-1 peso seco e algas: 15,83 a 43,21 ng.g-1 peso seco) e os maiores valores foram encontrados no emissário submarino, no Estuário de Santos, em locais próximos as indústrias, e no Estuário de São Vicente. De maneira geral, as concentrações tanto de PCBs quanto de pesticidas organoclorados em Santos e Cananéia-Iguape foram baixas. Santos apresentou maior incidência de PCBs, provavelmente devido à industrialização, enquanto que em Cananéia-Iguape predominaram os pesticidas organoclorados, que podem ser atribuídos às antigas campanhas de saúde pública ou aplicações nas lavouras. / Polychlorinated biphenyls and chlorinated pesticides are degradation resistant pollutants. They have been detected in several compartments of marine environment. The objective of this study was the optimization of the methodology and the evaluation of the contamination of chlorinated pesticides and PCBs em algae and coastal sediments in the Estuary and Bay of Santos-São Vicente and in the Lagunar Complex of Iguape and Cananéia (SP). An amount of 37 samples of superficial sediment, 3 cores with 27 subsamples and 10 samples of algae was collected in the period of 1998-2001. The methodology was considered satisfactory within international standards, that includes extraction and clean up with organic solvents and analysis with GC-ECD. In the Cananéia-Iguape region, DDTs were predominant and the highest levels were found around the city of Cananéia and in Trapandé Bay. In the Santos area, the PCBs were predominant and the highest values were found around the Santos Bay outfall and in the Estuary of Santos-São Vicente. In general, either the concentrations of PCBs or chlorinated pesticides in Santos and Cananéia-Iguape were low. Santos presented higher incidence of PCBs, probably due to industrialization, while in Cananéia-Iguape the chlorinated pesticides predominated, and that can be attributed to past public health campaigns or to agricultural uses.

Bifenilos policlorados (PCBs) e pesticidas organoclorados são poluentes resistentes à degradação e têm sido identificados em vários compartimentos do ambiente marinho. O objetivo deste trabalho foi otimizar e validar a metodologia, e avaliar a contaminação por pesticidas organoclorados e PCBs em algas e sedimentos costeiros no Estuário e Baía de Santos-São Vicente e no Complexo Estuarino-Lagunar de Iguape e Cananéia (SP). Foram coletadas nessas regiões um total de 37 amostras de sedimento superficial, 3 testemunhos com 27 sub-amostras e 10 amostras de alga, no período de 1998-2001. O método, que incluiu a extração e purificação com solventes orgânicos e análise por GC-ECD, mostrou-se satisfatório dentro dos padrões internacionais. Na região de Cananéia-Iguape predominaram os DDTs (sedimentos: 0,78 a 14,52 ng.g-1 peso seco) e as maiores concentrações ocorreram nas proximidades da Cidade de Cananéia e Baía de Trapandé. Na região de Santos predominaram os PCBs (sedimentos: 4,08 a 133,42 ng.g-1 peso seco, testemunhos de sedimentos: 3, 70 a 44,65 ng.g-1 peso seco e algas: 15,83 a 43,21 ng.g-1 peso seco) e os maiores valores foram encontrados no emissário submarino, no Estuário de Santos, em locais próximos as indústrias, e no Estuário de São Vicente. De maneira geral, as concentrações tanto de PCBs quanto de pesticidas organoclorados em Santos e Cananéia-Iguape foram baixas. Santos apresentou maior incidência de PCBs, provavelmente devido à industrialização, enquanto que em Cananéia-Iguape predominaram os pesticidas organoclorados, que podem ser atribuídos às antigas campanhas de saúde pública ou aplicações nas lavouras. / Polychlorinated biphenyls and chlorinated pesticides are degradation resistant pollutants. They have been detected in several compartments of marine environment. The objective of this study was the optimization of the methodology and the evaluation of the contamination of chlorinated pesticides and PCBs em algae and coastal sediments in the Estuary and Bay of Santos-São Vicente and in the Lagunar Complex of Iguape and Cananéia (SP). An amount of 37 samples of superficial sediment, 3 cores with 27 subsamples and 10 samples of algae was collected in the period of 1998-2001. The methodology was considered satisfactory within international standards, that includes extraction and clean up with organic solvents and analysis with GC-ECD. In the Cananéia-Iguape region, DDTs were predominant and the highest levels were found around the city of Cananéia and in Trapandé Bay. In the Santos area, the PCBs were predominant and the highest values were found around the Santos Bay outfall and in the Estuary of Santos-São Vicente. In general, either the concentrations of PCBs or chlorinated pesticides in Santos and Cananéia-Iguape were low. Santos presented higher incidence of PCBs, probably due to industrialization, while in Cananéia-Iguape the chlorinated pesticides predominated, and that can be attributed to past public health campaigns or to agricultural uses.

Anthropogenic carbon dioxide (CO2) emissions are increasing the atmospheric CO2 concentration and the oceans are absorbing around 1/3 them. The CO2 hydrolysis increases the H+ concentration, decreasing the pH, while the proportions of the HCO3- and CO32- ions are also affected. This process already led to a decrease of 0.1 pH units in surface seawater. According to "business-as-usual" models, provided by the Intergovernmental Panel on Climate Change (IPCC), the pH is expected to decrease 0.3-0.5 units by 2100 and 0.7-0.8 by 2300. As a result the surface ocean carbonates chemistry will also change: with increasing pCO2, dissolved inorganic carbon will increase and the equilibrium of the carbonate system will shift to higher CO2 and HCO3– levels, while CO32– concentration will decrease. Surface seawaters will progressively become less saturated towards calcite and aragonite saturation state and some particular polar and cold water regions could even become completely undersaturated within the next 50 years. <p>Responses of marine organisms to environmental hypercapnia, i.e. to an excess of CO2 in the aquatic environment, can be extremely variable and the degree of sensitivity varies between species and life stages. Sea urchins are key stone species in many marine ecosystems. They are considered to be particularly vulnerable to ocean acidification effects not only due to the nature of their skeleton (magnesium calcite) whose solubility is similar or higher than that of aragonite, but also because they lack an efficient ion regulatory machinery, being therefore considered poor acid-base regulators. Populations from polar regions are expected to be at an even higher risk since the carbonate chemical changes in surface ocean waters are happening there at a faster rate. <p>The goal of this work was to study the effects of low seawater pH exposure of different life stages of sea urchins, in order to better understand how species from different environments and/or geographic origins would respond and if there would be scope for possible adaptation and/or acclimatization.<p>In a first stage we investigated the effects of ocean acidification on the early stages of an intertidal species from temperate regions, the Atlantic Paracentrotus lividus sea urchin, and of a sub-Antarctic species, Arbacia dufresnei. The fertilization, larval development and larval growth were studied on specimens submitted through different pH experimental treatments. The fertilization rate of P. lividus gametes whose progenitors came from a tide pool with high pH decrease was significantly higher, indicating a possible acclimatization or adaptation of gametes to pH stress. Larval size in both species decreased significantly in low pH treatments. However, smaller A. dufresnei echinoplutei were isometric to those of control treatments, showing that size reduction was most likely due to a slower growth rate. In the pH 7.4 (predicted for 2300) treatment, P. lividus presented significantly more abnormal forms than control ones, but A. dufresnei did not. The latter does not seem to be more vulnerable than temperate species, most likely due to acclimatization/adaptation to lower pH seasonal fluctuations experienced by individuals of this population during spring time.<p>In a second stage, adult physiological responses of P. lividus and A. dufresnei to low pH seawaters were studied. Intertidal field P. lividus specimens can experience pH fluctuations of 0.4 units during low tidal cycles, but their coelomic fluid pH will not change. During experimental exposure to low pH, the coelomic fluid (extracellular) pH of both species decreased after weeks of exposure to low seawater pH. However, it owned a certain buffer capacity (higher than that of seawater) which did not seem to be related to passive skeleton dissolution. In laboratory studies, the feeding rate of P. lividus, the RNA/DNA ratio (proxy for protein synthesis and thus metabolism) of both the gonads and the body wall of the studied species and the carbonic anhydrase activity in the body wall (an enzyme involved in calcification and respiratory processes) of A. dufresnei did not differ according to seawater pH. The same was true for spine regeneration (a proxy for calcification) of both species. This shows that both P. lividus and A. dufresnei are able to cope when exposed to mild hypercapnia (lowest investigated pH 7.4) for a mid-term period of time (weeks). In a different set of experiments, pH effects were tested on P. lividus individuals together with two temperatures (10ºC and 16ºC). The pH decrease of the coelomic fluid did not vary between temperatures, neither did its buffer response. The oxygen uptake rates of P. lividus (as a proxy for global metabolic state of the whole organism) increased in lower pH treatments (7.7 and 7.4) in organisms exposed to lower temperatures (10ºC), showing that this was upregulated and that organisms experienced a higher energetic demand to maintain normal physiological functions. For instance, gonad production (given by the RNA/DNA ratio) was not affected neither by temperature, nor pH.<p>Finally, possible morphological and chemical adaptations of cidaroid (“naked”) spines, which are not covered by epidermis, to low magnesium calcite saturation states were investigated. Deep sea field specimens from the Weddell Sea (Antarctica), Ctenocidaris speciosa were studied. Cidaroid spines have an exterior skeleton layer with a polycrystalline constitution that apparently protects the interior part of the monocrystaline skeleton, the stereom (tridimensional magnesium calcite lattice). The cortex of C. speciosa was by its turn divided into two layers. From these, it presented a thicker inner cortex layer and a lower Mg content in specimens collected below the aragonite saturation horizon. The naked cortex seems able to resist to low calcium carbonate saturation state. We suggest that this could be linked to the important organic matrix that surrounds the crystallites of the cortex.<p>Some echinoid species present adaptive features that enable them to deal with low pH stresses. This seems to be related to the environmental conditions to which populations are submitted to. Therefore, organisms already submitted to pH daily or seasonal fluctuations or living in environments undersaturated in calcium carbonate seem to be able to cope with environmental conditions expected in an acidified ocean. Under the realistic scenario of a decrease of ca. 0.4 units of pH by 2100, sea urchins, and echinoderms in general, appear to be robust for most studied processes. Even thought, this general response can depend on different parameters such as exposure time, pH level tested, the process and the life stage considered, our results show that there is scope for echinoids to cope with ocean acidification.<p> / Doctorat en Sciences / info:eu-repo/semantics/nonPublished

The subject of BIF genesis, particularly their environmental conditions and ocean chemistry at the time of deposition and their evolution through time, has been a subject of much contentiousness, generating a wealth of proposed genetic models and constant refinements thereof over the years. The prevailing paradigm within the various schools of thought, is the widespread and generally agreed upon depositional and diagenetic model(s) which advocate for BIF deposition under anoxic marine conditions. According to the prevailing models, the primary depositional environment would have involved a seawater column whereby soluble Fe²⁺ expelled by hydrothermal activity mixed with free O₂ from the shallow photic zone produced by eukaryotes, forming a high valence iron oxy-hydroxide precursor such as FeOOH or Fe(OH)₃. An alternative biological mechanism producing similar ferric precursors would have been in the form of photo-ferrotrophy, whereby oxidation of ferrous iron to the ferric form took place in the absence of biological O₂ production. Irrespective of the exact mode of primary iron precipitation (which remains contentious to date), the precipitated ferric oxy-hydroxide precursor would have reacted with co-precipitated organic matter, thus acting as a suitable electron acceptor for organic carbon remineralisation through Dissimilatory Iron Reduction (DIR), as also observed in many modern anoxic diagenetic environments. DIR-dominated diagenetic models imply a predominantly diagenetic influence in BIF mineralogy and genesis, and use as key evidence the low δ¹³C values relative to the seawater bicarbonate value of ~0 ‰, which is also thought to have been the dissolved bicarbonate isotope composition in the early Precambrian oceans. The carbon for diagenetic carbonate formation would thus have been sourced through a combination of two end-member sources: pore-fluid bicarbonate at ~0 ‰ and particulate organic carbon at circa -28 ‰, resulting in the intermediate δ¹³C values observed in BIFs today. This study targets 65 drillcore samples of the upper Kuruman and Griquatown BIF from the lower Transvaal Supergroup in the Hotazel area, Northern Cape, South Africa, and sets out to explore key aspects in BIF carbonate petrography and geochemistry that are pertinent to current debates surrounding their interpretation with regard to primary versus diagenetic processes. The focus here rests on applications of carbonate (mainly siderite and ankerite) petrography, mineral chemistry, bulk and mineral-specific carbon isotopes and speciation analyses, with a view to obtaining valuable new insights into BIF carbonates as potential records of ocean chemistry for their bulk carbonate-carbon isotope signature. Evaluation of the present results is done in light of pre-existing, widely accepted diagenetic models against a proposed water-column model for the origin of the carbonate species in BIF. The latter utilises a combination of geochemical attributes of the studied carbonates, including the conspicuous Mn enrichment and stratigraphic variability in Mn/Fe ratio of the Griquatown BIF recorded solely in the carbonate fraction of the rocks. Additionally, the carbon isotope signatures of the Griquatown BIF samples are brought into the discussion and provide insights into the potential causes and mechanisms that may have controlled these signatures in a diagenetic versus primary sedimentary environment. Ultimately, implications of the combined observations, findings and arguments presented in this thesis are presented and discussed with particular respect to the redox evolution and carbon cycle of the ocean system prior to the Great Oxidation Event (GOE). A crucial conclusion reached is that, by contrast to previously-proposed models, diagenesis cannot singularly be the major contributing factor in BIF genesis at least with respect to the carbonate fraction in BIF, as it does not readily explain the carbon isotope and mineral-chemical signatures of carbonates in the Griquatown and uppermost Kuruman BIFs. It is proposed instead that these signatures may well record water-column processes of carbon, manganese and iron cycling, and that carbonate formation in the water column and its subsequent transfer to the precursor BIF sediment constitutes a faithful record of such processes. Corollary to that interpretation is the suggestion that the evidently increasing Mn abundance in the carbonate fraction of the Griquatown BIF up-section would point to a chemically evolving depositional basin with time, from being mainly ferruginous as expressed by Mn-poor BIFs in the lower stratigraphic sections (i.e. Kuruman BF) to more manganiferous as recorded in the upper Griquatown BIF, culminating in the deposition of the abnormally enriched in Mn Hotazel BIF at the stratigraphic top of the Transvaal Supergroup. The Paleoproterozoic ocean must therefore have been characterised by long-term active cycling of organic carbon in the water column in the form of an ancient biological pump, albeit with Fe(III) and subsequently Mn(III,IV) oxy-hydroxides being the key electron acceptors within the water column. The highly reproducible stratigraphic isotope profiles for bulk δ¹³C from similar sections further afield over distances up to 20 km, further corroborate unabatedly that bulk carbonate carbon isotope signatures record water column carbon cycling processes rather than widely-proposed anaerobic diagenetic processes.

Thesis: Ph. D., Joint Program in Chemical Oceanography (Massachusetts Institute of Technology, Department of Earth, Atmospheric, and Planetary Sciences; and the Woods Hole Oceanographic Institution), 2014. / This electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections. / Cataloged from student-submitted PDF version of thesis. / Includes bibliographical references. / The great geologic and climatic diversity of the Fraser River basin in southwestern Canada render it an excellent location for understanding biogeochemical cycling of sediments and terrigenous organic carbon in a relatively pristine, large, temperate watershed. Sediments delivered by all tributaries have the potential to reach the ocean due to a lack of main stem lakes or impoundments, a unique feature for a river of its size. This study documents the concentrations of a suite of dissolved and particulate organic and inorganic constituents, which elucidate spatial and temporal variations in chemical weathering (including carbonate weathering in certain areas) as well as organic carbon mobilization, export, and biogeochemical transformation. Radiogenic strontium isotopes are employed as a tracer of sediment provenance based on the wide variation in bedrock age and lithology in the Fraser basin. The influence of sediments derived from the headwaters is detectable at the river mouth, however more downstream sediment sources predominate, particularly during high discharge conditions. Bulk radiocarbon analyses are used to quantify terrestrial storage timescales of organic carbon and distinguish between petrogenic and biospheric organic carbon, which is critical to assessing the role of rivers in long-term atmospheric CO2 consumption. The estimated terrestrial residence time of biospheric organic carbon in the Fraser basin is 650 years, which is relatively short compared to other larger rivers (Amazon, Ganges-Brahmaputra) in which this assessment has been performed, and is likely related to the limited floodplain storage capacity and non-steady-state post-glacial erosion state of the Fraser River. A large portion of the dissolved inorganic carbon load of the Fraser River (>80%) is estimated to derive from remineralization of dissolved organic carbon, particularly during the annual spring freshet when organic carbon concentrations increase rapidly. This thesis establishes a baseline for carbon cycling in a largely unperturbed modern mid-latitude river system and establishes a framework for future process studies on the mechanisms of organic carbon turnover and organic matter-mineral associations in river systems. / by Britta Marie Voss. / Ph. D.

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