31 results on '"Nathan S. Garcia"'
Search Results
2. Global Ocean Particulate Organic Phosphorus, Carbon, Oxygen for Respiration, and Nitrogen (GO-POPCORN)
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Tatsuro Tanioka, Alyse A. Larkin, Allison R. Moreno, Melissa L. Brock, Adam J. Fagan, Catherine A. Garcia, Nathan S. Garcia, Skylar D. Gerace, Jenna A. Lee, Michael W. Lomas, and Adam C. Martiny
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Science - Abstract
Measurement(s) particulate matter • particulate carbon oxygen demand • particulate phosphorus Technology Type(s) elemental analyzer • potassium dichromate • ash-hydrolysis Factor Type(s) location • period Sample Characteristic - Environment ocean Sample Characteristic - Location global
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- 2022
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3. Global patterns and predictors of C:N:P in marine ecosystems
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Tatsuro Tanioka, Catherine A. Garcia, Alyse A. Larkin, Nathan S. Garcia, Adam J. Fagan, and Adam C. Martiny
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Geology ,QE1-996.5 ,Environmental sciences ,GE1-350 - Abstract
Variations in the biogeography of particulate organic matter carbon-nitrogen-phosphorus stoichiometry in the surface ocean can be robustly predicted by different factors depending on latitude, region and hemisphere, according to a global ocean observational analysis.
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- 2022
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4. Nutrient supply controls particulate elemental concentrations and ratios in the low latitude eastern Indian Ocean
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Catherine A. Garcia, Steven E. Baer, Nathan S. Garcia, Sara Rauschenberg, Benjamin S. Twining, Michael W. Lomas, and Adam C. Martiny
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Science - Abstract
The Indian Ocean provides a unique environmental gradient to test underlying drivers of the elemental composition of particulate organic matter. Here the authors show that nutrient supply, over temperature and biodiversity changes, controls regional variation of elemental ratios in the tropical Indian Ocean.
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- 2018
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5. Modulation of digestive physiology and biochemistry in Mytilus californianus in response to feeding level acclimation and microhabitat
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Kwasi M. Connor, Aaron Sung, Nathan S. Garcia, Andrew Y. Gracey, and Donovan P. German
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Clearance rate ,Digestive enzyme activity ,Growth ,Rate-maximization ,Respiration rate ,Thermal stress ,Yield-maximization ,Science ,Biology (General) ,QH301-705.5 - Abstract
The intertidal mussel Mytilus californianus is a critical foundation species that is exposed to fluctuations in the environment along tidal- and wave-exposure gradients. We investigated feeding and digestion in mussels under laboratory conditions and across environmental gradients in the field. We assessed whether mussels adopt a rate-maximization (higher ingestion and lower assimilation) or a yield-maximization acquisition (lower ingestion and higher assimilation) strategy under laboratory conditions by measuring feeding physiology and digestive enzyme activities. We used digestive enzyme activity to define resource acquisition strategies in laboratory studies, then measured digestive enzyme activities in three microhabitats at the extreme ends of the tidal- and wave-exposure gradients within a stretch of shore (
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- 2016
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6. High Variability in Cellular Stoichiometry of Carbon, Nitrogen, and Phosphorus Within Classes of Marine Eukaryotic Phytoplankton Under Sufficient Nutrient Conditions
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Nathan S. Garcia, Julie Sexton, Tracey Riggins, Jeff Brown, Michael W. Lomas, and Adam C. Martiny
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eukaryote ,protist ,diatom ,dinoflagellate ,prymnesiophyte ,temperature ,Microbiology ,QR1-502 - Abstract
Current hypotheses suggest that cellular elemental stoichiometry of marine eukaryotic phytoplankton such as the ratios of cellular carbon:nitrogen:phosphorus (C:N:P) vary between phylogenetic groups. To investigate how phylogenetic structure, cell volume, growth rate, and temperature interact to affect the cellular elemental stoichiometry of marine eukaryotic phytoplankton, we examined the C:N:P composition in 30 isolates across 7 classes of marine phytoplankton that were grown with a sufficient supply of nutrients and nitrate as the nitrogen source. The isolates covered a wide range in cell volume (5 orders of magnitude), growth rate (
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- 2018
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7. Elemental Stoichiometry of Particulate Organic Matter across the Atlantic Ocean
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Adam J Fagan, Tatsuro Tanioka, Alyse A Larkin, Jenna Alyson Lee, Nathan S Garcia, and Adam Camillo Martiny
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Recent studies show that stoichiometric elemental ratios of marine ecosystems are not static at Redfield proportions but vary systematically between biomes. However, the wider Atlantic Ocean is under-sampled for particulate organic matter (POM) elemental composition, especially as it comes to phosphorus. Thus, it is uncertain how environmental variation in this region translates into shifts in C:N:P. To address this, we analyzed hydrography, genomics, and POM concentrations from 877 stations on the meridional transects AMT28 and C13.5, spanning the Atlantic Ocean. We observed nutrient-replete, high-latitude ecosystem C:N:P to be significantly lower than the oligotrophic gyres. Latitudinal and zonal differences in elemental stoichiometry were linked to overall nutrient supply as well as N vs. P limitation. C:P and N:P were generally higher in the P-stressed northern region compared to southern hemisphere regions. We also detected a zonal difference linked to a westward deepening nutricline and a shift from N to P limitation. We also evaluated possible seasonal changes in C:N:P across the basin and predicted these to be limited. Overall, this study confirms latitudinal shifts in surface ocean POM ratios but reveals previously unrecognized hemisphere and zonal gradients. This work demonstrates the importance of understanding how regional shifts in hydrography and type of nutrient stress shape the coupling between Atlantic Ocean nutrient and carbon cycles.
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- 2023
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8. Basin-scale biogeography of Prochlorococcus and SAR11 ecotype replication
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Alyse A. Larkin, George I. Hagstrom, Melissa L. Brock, Nathan S. Garcia, and Adam C. Martiny
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Ecotype ,Technology ,Metagenome ,Seawater ,Biological Sciences ,Indian Ocean ,Microbiology ,Ecology, Evolution, Behavior and Systematics ,Environmental Sciences ,Prochlorococcus - Abstract
Establishing links between microbial diversity and environmental processes requires resolving the high degree of functional variation among closely related lineages or ecotypes. Here, we implement and validate an improved metagenomic approach that estimates the spatial biogeography and environmental regulation of ecotype-specific replication patterns (RObs) across ocean regions. A total of 719 metagenomes were analyzed from meridional Bio-GO-SHIP sections in the Atlantic and Indian Ocean. Accounting for sequencing bias and anchoring replication estimates in genome structure were critical for identifying physiologically relevant biological signals. For example, ecotypes within the dominant marine cyanobacteria Prochlorococcus exhibited distinct diel cycles in RObs that peaked between 19:00–22:00. Additionally, both Prochlorococcus ecotypes and ecotypes within the highly abundant heterotroph Pelagibacter (SAR11) demonstrated systematic biogeographies in RObs that differed from spatial patterns in relative abundance. Finally, RObs was significantly regulated by nutrient stress and temperature, and explained by differences in the genomic potential for nutrient transport, energy production, cell wall structure, and replication. Our results suggest that our new approach to estimating replication is reflective of gross population growth. Moreover, this work reveals that the interaction between adaptation and environmental change drives systematic variability in replication patterns across ocean basins that is ecotype-specific, adding an activity-based dimension to our understanding of microbial niche space.
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- 2023
9. Metagenomic analysis reveals global-scale patterns of ocean nutrient limitation
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Jenna A. Lee, Adam C. Martiny, Nicola A. Wiseman, Melissa L. Brock, J. Keith Moore, Lucas J. Ustick, Alyse A. Larkin, Catherine A. Garcia, and Nathan S. Garcia
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Nitrogen ,Iron ,Oceans and Seas ,Phosphates ,Iron assimilation ,Phosphorus metabolism ,Nutrient ,Stress, Physiological ,Nitrogen Fixation ,Phytoplankton ,Seawater ,Atlantic Ocean ,Indian Ocean ,Nitrogen cycle ,Prochlorococcus ,Nitrates ,Pacific Ocean ,Multidisciplinary ,biology ,Ecology ,Phosphorus ,Nutrients ,biology.organism_classification ,Adaptation, Physiological ,Genes, Bacterial ,Metagenomics ,Metagenome ,Environmental science ,Hydrography - Abstract
Genomes reveal nutrient stress patterns Within the surface ocean, nitrogen, iron, and phosphorous can all be limiting nutrients for phytoplankton depending on location. Ustick et al. used the prevalence of Prochlorococcus genes involved in nutrient acquisition to develop maps of inferred nutrient stress across the global ocean (see the Perspective by Coleman). They found broad patterns of limitation consistent with an Earth system model and nutrient addition experiments. Leveraging metagenomic data in this manner is an appealing approach that will help to expand our understanding of the biogeochemistry in the vast open ocean. Science , this issue p. 287 ; see also p. 239
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- 2021
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10. The Diel Cycle of Surface Ocean Elemental Stoichiometry has Implications for Ocean Productivity
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Nathan S. Garcia, David Talmy, Wei‐Wei Fu, Alyse A. Larkin, Jenna Lee, and Adam C. Martiny
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Atmospheric Science ,Global and Planetary Change ,Environmental Chemistry ,General Environmental Science - Published
- 2022
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11. Carbon and nitrogen productivity during spring in the oligotrophic Indian Ocean along the GO-SHIP IO9N transect
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Adam C. Martiny, Catherine A. Garcia, Benjamin S. Twining, Steven E. Baer, Nathan S. Garcia, Sara Rauschenberg, and Michael W. Lomas
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0106 biological sciences ,Biogeochemical cycle ,010504 meteorology & atmospheric sciences ,biology ,010604 marine biology & hydrobiology ,Oceanography ,biology.organism_classification ,01 natural sciences ,Latitude ,Productivity (ecology) ,Phytoplankton ,Environmental science ,Autotroph ,Prochlorococcus ,Transect ,Hydrography ,0105 earth and related environmental sciences - Abstract
There is limited biogeochemical rate data from the oligotrophic central Indian Ocean, but it is known that there are geographical gradients in the physical and chemical conditions that may lead to unique biogeochemical regimes. As participants on a GO-SHIP repeat hydrography cruise, a transect was completed in spring of 2016 from 28 °S to 18 °N in the Indian Ocean, roughly along the 95 °E meridion. Cell count samples (phytoplankton and heterotrophic bacteria) analyzed by flow cytometry, and samples for carbon and nitrogen productivity incubations, assessed by stable isotopic tracers, were obtained from 20 m at approximately every other degree of latitude. Microbial cell counts by flow cytometry indicate that Prochlorococcus was the principal autotroph, but with increasing contributions of Synechococcus around the equator. Large eukaryotes (> 20 μm), imaged using FlowCAM, were generally absent or in very low abundance (
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- 2019
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12. High spatial resolution global ocean metagenomes from Bio-GO-SHIP repeat hydrography transects
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Lucas J. Ustick, Alyse A. Larkin, Jenna A. Lee, Leticia Barbero, Nathan S. Garcia, Melissa L. Brock, Glen A. Tarran, Lynne D. Talley, Brendan R. Carter, Adam C. Martiny, Catherine A. Garcia, Rolf E. Sonnerup, and Denis L. Volkov
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Statistics and Probability ,Data Descriptor ,Biogeochemical cycle ,010504 meteorology & atmospheric sciences ,Oceans and Seas ,Science ,Climate change ,Library and Information Sciences ,01 natural sciences ,Education ,03 medical and health sciences ,Element cycles ,High spatial resolution ,Seawater ,Transect ,Life Below Water ,030304 developmental biology ,0105 earth and related environmental sciences ,Marine biology ,Genomic Library ,0303 health sciences ,Microbiota ,Sampling (statistics) ,Biogeochemistry ,Computer Science Applications ,Oceanography ,Metagenomics ,Metagenome ,Environmental science ,Statistics, Probability and Uncertainty ,Hydrography ,Information Systems - Abstract
Detailed descriptions of microbial communities have lagged far behind physical and chemical measurements in the marine environment. Here, we present 971 globally distributed surface ocean metagenomes collected at high spatio-temporal resolution. Our low-cost metagenomic sequencing protocol produced 3.65 terabases of data, where the median number of base pairs per sample was 3.41 billion. The median distance between sampling stations was 26 km. The metagenomic libraries described here were collected as a part of a biological initiative for the Global Ocean Ship-based Hydrographic Investigations Program, or “Bio-GO-SHIP.” One of the primary aims of GO-SHIP is to produce high spatial and vertical resolution measurements of key state variables to directly quantify climate change impacts on ocean environments. By similarly collecting marine metagenomes at high spatiotemporal resolution, we expect that this dataset will help answer questions about the link between microbial communities and biogeochemical fluxes in a changing ocean., Measurement(s) DNA sequencing • temperature of water • concentration of phosphate in water • concentration of nitrogen atom in water Technology Type(s) Illumina sequencing • watercraft • continuous flow autoanalyzer Sample Characteristic - Organism marine metagenome Sample Characteristic - Environment ocean Sample Characteristic - Location global Machine-accessible metadata file describing the reported data: 10.6084/m9.figshare.13971122
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- 2021
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13. High spatial resolution global ocean metagenomes from Bio-GO-SHIP repeat hydrography transects
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Lynne D. Talley, Jenna A. Lee, Melissa L. Brock, Lucas J. Ustick, Alyse A. Larkin, Leticia Barbero, Nathan S. Garcia, Brendan R. Carter, Glen A. Tarran, Rolf E. Sonnerup, Denis L. Volkov, Catherine A. Garcia, and Adam C. Martiny
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Biogeochemical cycle ,Oceanography ,Metagenomics ,High spatial resolution ,Environmental science ,Sampling (statistics) ,Climate change ,Spatiotemporal resolution ,Hydrography ,Transect - Abstract
Detailed descriptions of microbial communities have lagged far behind physical and chemical measurements in the marine environment. Here, we present 720 globally distributed surface ocean metagenomes collected at high spatio-temporal resolution. Our low-cost metagenomic sequencing protocol produced 2.75 terabases of data, where the median number of base pairs per sample was 3.48 billion. The median distance between sampling stations was 26 km. The metagenomic libraries described here were collected as a part of a biological initiative for the Global Ocean Ship-based Hydrographic Investigations Program, or “Bio-GO-SHIP.” One of the primary aims of GO-SHIP is to produce high spatial and vertical resolution measurements of key state variables to directly quantify climate change impacts on ocean environments. By similarly collecting marine metagenomes at high spatiotemporal resolution, we expect that this dataset will help answer questions about the link between microbial communities and biogeochemical fluxes in a changing ocean.
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- 2020
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14. Environmental stability impacts the differential sensitivity of marine microbiomes to increases in temperature and acidity
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Tiffany C. Williams, Sara K. Blinebry, Dana E. Hunt, Brooke K. Sienkiewicz, Zackary I. Johnson, Despina Tsementzi, Doris L. Juarez, Konstantinos T. Konstantinidis, Nathan S. Garcia, and Zhao Wang
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Phylotype ,0303 health sciences ,Biogeochemical cycle ,030306 microbiology ,Ecology ,Climate Change ,Microbiota ,Oceans and Seas ,Temperature ,Climate change ,Biology ,Hydrogen-Ion Concentration ,Microbiology ,Acclimatization ,Article ,03 medical and health sciences ,Microbial population biology ,Respiration ,Seawater ,Diel vertical migration ,Ecology, Evolution, Behavior and Systematics ,030304 developmental biology - Abstract
Ambient conditions shape microbiome responses to both short- and long-duration environment changes through processes including physiological acclimation, compositional shifts, and evolution. Thus, we predict that microbial communities inhabiting locations with larger diel, episodic, and annual variability in temperature and pH should be less sensitive to shifts in these climate-change factors. To test this hypothesis, we compared responses of surface ocean microbes from more variable (nearshore) and more constant (offshore) sites to short-term factorial warming (+3 °C) and/or acidification (pH −0.3). In all cases, warming alone significantly altered microbial community composition, while acidification had a minor influence. Compared with nearshore microbes, warmed offshore microbiomes exhibited larger changes in community composition, phylotype abundances, respiration rates, and metatranscriptomes, suggesting increased sensitivity of microbes from the less-variable environment. Moreover, while warming increased respiration rates, offshore metatranscriptomes yielded evidence of thermal stress responses in protein synthesis, heat shock proteins, and regulation. Future oceans with warmer waters may enhance overall metabolic and biogeochemical rates, but they will host altered microbial communities, especially in relatively thermally stable regions of the oceans.
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- 2020
15. Nutrient supply controls particulate elemental concentrations and ratios in the low latitude eastern Indian Ocean
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Benjamin S. Twining, Steven E. Baer, Catherine A. Garcia, Adam C. Martiny, Nathan S. Garcia, Sara Rauschenberg, and Michael W. Lomas
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0106 biological sciences ,010504 meteorology & atmospheric sciences ,Nitrogen ,Iron ,Science ,General Physics and Astronomy ,01 natural sciences ,Article ,General Biochemistry, Genetics and Molecular Biology ,Phosphorus metabolism ,Nutrient ,Ocean gyre ,Nitrogen Fixation ,Phytoplankton ,MD Multidisciplinary ,Water Movements ,Seawater ,14. Life underwater ,lcsh:Science ,Nitrogen cycle ,Indian Ocean ,0105 earth and related environmental sciences ,Prochlorococcus ,geography ,Multidisciplinary ,geography.geographical_feature_category ,biology ,010604 marine biology & hydrobiology ,fungi ,Phosphorus ,General Chemistry ,Biodiversity ,Nutrients ,Particulates ,biology.organism_classification ,Carbon ,Oceanography ,13. Climate action ,Environmental science ,lcsh:Q ,Bay - Abstract
Variation in ocean C:N:P of particulate organic matter (POM) has led to competing hypotheses for the underlying drivers. Each hypothesis predicts C:N:P equally well due to regional co-variance in environmental conditions and biodiversity. The Indian Ocean offers a unique positive temperature and nutrient supply relationship to test these hypotheses. Here we show how elemental concentrations and ratios vary over daily and regional scales. POM concentrations were lowest in the southern gyre, elevated across the equator, and peaked in the Bay of Bengal. Elemental ratios were highest in the gyre, but approached Redfield proportions northwards. As Prochlorococcus dominated the phytoplankton community, biodiversity changes could not explain the elemental variation. Instead, our data supports the nutrient supply hypothesis. Finally, gyre dissolved iron concentrations suggest extensive iron stress, leading to depressed ratios compared to other gyres. We propose a model whereby differences in iron supply and N2-fixation influence C:N:P levels across ocean gyres., The Indian Ocean provides a unique environmental gradient to test underlying drivers of the elemental composition of particulate organic matter. Here the authors show that nutrient supply, over temperature and biodiversity changes, controls regional variation of elemental ratios in the tropical Indian Ocean.
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- 2018
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16. Subtle biogeochemical regimes in the Indian Ocean revealed by spatial and diel frequency of Prochlorococcus haplotypes
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Alyse A. Larkin, Nathan S. Garcia, Steven E. Baer, Michael W. Lomas, Benjamin S. Twining, Kimberly A. Ingoglia, Adam C. Martiny, and Catherine A. Garcia
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Indian ocean ,Biogeochemical cycle ,Oceanography ,biology ,Haplotype ,Prochlorococcus ,Aquatic Science ,biology.organism_classification ,Diel vertical migration - Published
- 2019
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17. Interactions between growth-dependent changes in cell size, nutrient supply and cellular elemental stoichiometry of marine Synechococcus
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Adam C. Martiny, Juan A. Bonachela, and Nathan S. Garcia
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0301 basic medicine ,Cyanobacteria ,Nitrogen ,Chemostat ,Microbiology ,Phosphorus metabolism ,QH301 ,03 medical and health sciences ,Phytoplankton ,Seawater ,Nitrogen cycle ,Ecology, Evolution, Behavior and Systematics ,Cell Size ,Synechococcus ,biology ,Ecology ,Geomicrobiology ,fungi ,Phosphorus ,biology.organism_classification ,Carbon ,030104 developmental biology ,Environmental biotechnology ,Environmental chemistry ,Original Article - Abstract
The factors that control elemental ratios within phytoplankton, like carbon:nitrogen:phosphorus (C:N:P), are key to biogeochemical cycles. Previous studies have identified relationships between nutrient-limited growth and elemental ratios in large eukaryotes, but little is known about these interactions in small marine phytoplankton like the globally important Cyanobacteria. To improve our understanding of these interactions in picophytoplankton, we asked how cellular elemental stoichiometry varies as a function of steady-state, N- and P-limited growth in laboratory chemostat cultures of Synechococcus WH8102. By combining empirical data and theoretical modeling, we identified a previously unrecognized factor (growth-dependent variability in cell size) that controls the relationship between nutrient-limited growth and cellular elemental stoichiometry. To predict the cellular elemental stoichiometry of phytoplankton, previous theoretical models rely on the traditional Droop model, which purports that the acquisition of a single limiting nutrient suffices to explain the relationship between a cellular nutrient quota and growth rate. Our study, however, indicates that growth-dependent changes in cell size have an important role in regulating cell nutrient quotas. This key ingredient, along with nutrient-uptake protein regulation, enables our model to predict the cellular elemental stoichiometry of Synechococcus across a range of nutrient-limited conditions. Our analysis also adds to the growth rate hypothesis, suggesting that P-rich biomolecules other than nucleic acids are important drivers of stoichiometric variability in Synechococcus. Lastly, by comparing our data with field observations, our study has important ecological relevance as it provides a framework for understanding and predicting elemental ratios in ocean regions where small phytoplankton like Synechococcus dominates.
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- 2016
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18. Diel variability in the elemental composition of the marine cyanobacteriumSynechococcus
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Adam C. Martiny, Johann S. Lopez, David Talmy, and Nathan S. Garcia
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0106 biological sciences ,Cyanobacteria ,010504 meteorology & atmospheric sciences ,Ecology ,biology ,010604 marine biology & hydrobiology ,Phosphorus ,chemistry.chemical_element ,Aquatic Science ,Plankton ,biology.organism_classification ,Synechococcus ,01 natural sciences ,Nutrient ,chemistry ,Botany ,Phytoplankton ,Marine ecosystem ,Diel vertical migration ,Ecology, Evolution, Behavior and Systematics ,0105 earth and related environmental sciences - Abstract
Journal of Plankton Research plankt.oxfordjournals.org J. Plankton Res. (2016) 38(4): 1052–1061. First published online January 18, 2016 doi:10.1093/plankt/fbv120 Contribution to the Themed Section: Scaling from individual p lankton to marine ecosystems Diel variability in the elemental composition of the marine cyanobacterium Synechococcus JOHANN S. LOPEZ 1 , NATHAN S. GARCIA 1 *, DAVID TALMY 2 AND ADAM C. MARTINY 1,3 DEPARTMENT OF EARTH SYSTEM SCIENCE , UNIVERSITY OF CALIFORNIA , IRVINE , CA , USA , DEPARTMENT OF EARTH , ATMOSPHERE AND PLANETARY SCIENCES , MASSACHUSETTS INSTITUTE OF TECHNOLOGY , CAMBRIDGE , MA , USA AND DEPARTMENT OF ECOLOGY AND EVOLUTIONARY BIOLOGY , UNIVERSITY OF CALIFORNIA , IRVINE , CA , USA * CORRESPONDING AUTHOR : n8garcia@gmail.com Received August 26, 2015; accepted December 10, 2015 Corresponding editor: Pia Moisander The ratio of elements such as carbon:nitrogen:phosphorus (C:N:P) in phytoplankton is known to vary substantially within single isolates and across environmental gradients. In addition, C:N:P is known to vary throughout the day due to diel patterns in nutrient acquisition and storage. It has been hypothesized that small phytoplankton such as marine cyanobacteria have relatively invariable elemental ratios during a 24 h period, whereas larger phytoplankton have a greater capacity to store elements and thus a wider diel range of C:N:P. To test this hypothesis, we examined diel vari- ability in cellular C:N:P, using a chemostat culturing system, for one of the most abundant marine cyanobacteria, Synechococcus (WH8102) during two 24 h periods. The cellular C quota nearly doubled during the 14 h light period and was subsequently reduced during the dark period. The cellular N quota also varied considerably, whereas the P quota remained relatively stable. These daily changes in elemental quotas led to highly variable C:N cell and C:P cell . Furthermore, the magnitude of variability in cellular elemental stoichiometry of Synechococcus was positively related to the growth rate. We constructed a model to test the extent to which variation in C:N cell and C:P cell is related to reserve carbon accumulation and depletion over each light –dark cycle. Results imply that, in addition to growth-related respiratory losses, Synechococcus also purges excess C during the dark period in order to maintain a nutritive balance within cells. Our data suggest that diel variation in C:N cell and C:P cell of Synechococcus is of the same order of magnitude as stoichiometric variation within plankton communities between major ocean environments. KEYWORDS: cyanobacteria; Synechococcus; stoichiometry; diel; Redfield; phytoplankton available online at www.plankt.oxfordjournals.org # The Author 2016. Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com
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- 2016
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19. Draft Genome Sequences of Three Bacterial Isolates from Cultures of the Marine Diatom Thalassiosira rotula
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Kate Davis, Tatiana A. Rynearson, Cheuk Man Yung, Nathan S. Garcia, and Dana E. Hunt
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0301 basic medicine ,fungi ,030106 microbiology ,Heterotrophic bacteria ,Marine diatom ,Thalassiosira rotula ,Biology ,Genome ,03 medical and health sciences ,Botany ,Phytoplankton ,Genetics ,Prokaryotes ,Molecular Biology - Abstract
Phytoplankton often both provision and depend on heterotrophic bacteria. In order to investigate these relationships further, we sequenced draft genomes of three bacterial isolates from cultures of the marine diatom Thalassiosira rotula to identify metabolic functions that may support interactions with T. rotula .
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- 2017
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20. Iron deficiency increases growth and nitrogen-fixation rates of phosphorus-deficient marine cyanobacteria
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Nathan S. Garcia, Fei-Xue Fu, Peter N. Sedwick, and David A. Hutchins
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Cyanobacteria ,Nitrogen ,Iron ,Oceans and Seas ,chemistry.chemical_element ,Microbiology ,Phosphorus metabolism ,chemistry.chemical_compound ,Nitrogen Fixation ,Humans ,Seawater ,Nitrogen cycle ,Ecology, Evolution, Behavior and Systematics ,biology ,Ecology ,Phosphorus ,Biogeochemistry ,biology.organism_classification ,Trichodesmium ,chemistry ,Carbon dioxide ,Nitrogen fixation ,Original Article ,Water Microbiology - Abstract
Marine dinitrogen (N2)-fixing cyanobacteria have large impacts on global biogeochemistry as they fix carbon dioxide (CO2) and fertilize oligotrophic ocean waters with new nitrogen. Iron (Fe) and phosphorus (P) are the two most important limiting nutrients for marine biological N2 fixation, and their availabilities vary between major ocean basins and regions. A long-standing question concerns the ability of two globally dominant N2-fixing cyanobacteria, unicellular Crocosphaera and filamentous Trichodesmium, to maintain relatively high N2-fixation rates in these regimes where both Fe and P are typically scarce. We show that under P-deficient conditions, cultures of these two cyanobacteria are able to grow and fix N2 faster when Fe deficient than when Fe replete. In addition, growth affinities relative to P increase while minimum concentrations of P that support growth decrease at low Fe concentrations. In Crocosphaera, this effect is accompanied by a reduction in cell sizes and elemental quotas. Relatively high growth rates of these two biogeochemically critical cyanobacteria in low-P, low-Fe environments such as those that characterize much of the oligotrophic ocean challenge the common assumption that low Fe levels can have only negative effects on marine primary producers. The closely interdependent influence of Fe and P on N2-fixing cyanobacteria suggests that even subtle shifts in their supply ratio in the past, present and future oceans could have large consequences for global carbon and nitrogen cycles.
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- 2014
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21. Differing responses of marine N2 fixers to warming and consequences for future diazotroph community structure
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Nathan S. Garcia, Fei-Xue Fu, Yunsheng Luo, Eric A. Webb, David A. Hutchins, Elizabeth Yu, and Jasmine Gale
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Oceanography ,Trichodesmium ,Ecology ,Community structure ,Nitrogen fixation ,Global change ,Crocosphaera ,Diazotroph ,Aquatic Science ,Biology ,biology.organism_classification ,Ecology, Evolution, Behavior and Systematics - Published
- 2014
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22. Colimitation of the unicellular photosynthetic diazotroph Crocosphaera watsonii by phosphorus, light, and carbon dioxide
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Nathan S. Garcia, David A. Hutchins, and Fei-Xue Fu
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Biodilution ,Phosphorus ,chemistry.chemical_element ,Crocosphaera watsonii ,Aquatic Science ,Biology ,Oceanography ,Photosynthesis ,pCO2 ,chemistry.chemical_compound ,Cmin ,Animal science ,chemistry ,Botany ,Carbon dioxide ,Diazotroph - Abstract
We describe interactive effects of total phosphorus (total P 5 0.1–4.0 mmol L21; added as H2NaPO4), irradiance (40 and 150 mmol quanta m22 s21), and the partial pressure of carbon dioxide (PCO2 ; 19 and 81 Pa, i.e., 190 and 800 ppm) on growth and CO2- and dinitrogen (N2)-fixation rates of the unicellular N2-fixing cyanobacterium Crocosphaera watsonii (WH0003) isolated from the Pacific Ocean near Hawaii. In semicontinuous cultures of C. watsonii, elevated PCO2 positively affected growth and CO2- and N2-fixation rates under high light. Under low light, elevated PCO2 positively affected growth rates at all concentrations of P, but CO2- and N2-fixation rates were affected by elevated PCO2 only when P was low. In both high-light and low-light cultures, the total P requirements for growth and CO2 -a nd N 2-fixation declined as PCO2 increased. The minimum concentration (Cmin) of total P and half-saturation constant (KK) for growth and CO2- and N2-fixation rates with respect to total P were reduced by 0.05 mmol L21 as a function of elevated PCO2 . We speculate that low P requirements under high PCO2 resulted from a lower energy demand associated with carbon-concentrating mechanisms in comparison with lowPCO2 cultures. There was also a 0.10 mmol L21 increase in Cmin and KK for growth and N2 fixation with respect to total P as a function of increasing light regardless of PCO2 concentration. We speculate that cellular P concentrations are responsible for this shift through biodilution of cellular P and possibly cellular P uptake systems as a function of increasing light. Changing concentrations of P, CO2, and light have both positive and negative interactive effects on growth and CO2-, and N2-fixation rates of unicellular oxygenic diazotrophs like C. watsonii.
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- 2013
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23. Combined effects of CO2 and light on large and small isolates of the unicellular N2-fixing cyanobacterium Crocosphaera watsonii from the western tropical Atlantic Ocean
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Margaret R. Mulholland, Peter W. Bernhardt, Fei-Xue Fu, Cynthia L. Breene, Nathan S. Garcia, Elizabeth Yu, and David A. Hutchins
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Cyanobacteria ,biology ,Plant Science ,Crocosphaera watsonii ,respiratory system ,Aquatic Science ,Tropical Atlantic ,biology.organism_classification ,respiratory tract diseases ,chemistry.chemical_compound ,chemistry ,Botany ,Carbon dioxide ,Nitrogen fixation ,Crocosphaera ,Diazotroph ,circulatory and respiratory physiology - Abstract
We examined the combined effects of light and pCO2 on growth, CO2-fixation and N2-fixation rates by strains of the unicellular marine N2-fixing cyanobacterium Crocosphaera watsonii with small (WH0401) and large (WH0402) cells that were isolated from the western tropical Atlantic Ocean. In low-pCO2-acclimated cultures (190 ppm) of WH0401, growth, CO2-fixation and N2-fixation rates were significantly lower than those in cultures acclimated to higher (present-day ∼385 ppm, or future ∼750 ppm) pCO2 treatments. Growth rates were not significantly different, however, in low-pCO2-acclimated cultures of WH0402 in comparison with higher pCO2 treatments. Unlike previous reports for C. watsonii (strain WH8501), N2-fixation rates did not increase further in cultures of WH0401 or WH0402 when acclimated to 750 ppm relative to those maintained at present-day pCO2. Both light and pCO2 had a significant negative effect on gross : net N2-fixation rates in WH0402 and trends were similar in WH0401, implying that retention of...
- Published
- 2013
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24. INTERACTIVE EFFECTS OF IRRADIANCE AND CO2 ON CO2 FIXATION AND N2 FIXATION IN THE DIAZOTROPH TRICHODESMIUM ERYTHRAEUM (CYANOBACTERIA)(1)
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Nathan S, Garcia, Fei-Xue, Fu, Cynthia L, Breene, Peter W, Bernhardt, Margaret R, Mulholland, Jill A, Sohm, and David A, Hutchins
- Abstract
The diazotrophic cyanobacteria Trichodesmium spp. contribute approximately half of the known marine dinitrogen (N2 ) fixation. Rapidly changing environmental factors such as the rising atmospheric partial pressure of carbon dioxide (pCO2 ) and shallower mixed layers (higher light intensities) are likely to affect N2 -fixation rates in the future ocean. Several studies have documented that N2 fixation in laboratory cultures of T. erythraeum increased when pCO2 was doubled from present-day atmospheric concentrations (∼380 ppm) to projected future levels (∼750 ppm). We examined the interactive effects of light and pCO2 on two strains of T. erythraeum Ehrenb. (GBRTRLI101 and IMS101) in laboratory semicontinuous cultures. Elevated pCO2 stimulated gross N2 -fixation rates in cultures growing at 38 μmol quanta · m(-2 ) · s(-1) (GBRTRLI101 and IMS101) and 100 μmol quanta · m(-2 ) · s(-1) (IMS101), but this effect was reduced in both strains growing at 220 μmol quanta · m(-2 ) · s(-1) . Conversely, CO2 -fixation rates increased significantly (P 0.05) in response to high pCO2 under mid- and high irradiances only. These data imply that the stimulatory effect of elevated pCO2 on CO2 fixation and N2 fixation by T. erythraeum is correlated with light. The ratio of gross:net N2 fixation was also correlated with light and trichome length in IMS101. Our study suggests that elevated pCO2 may have a strong positive effect on Trichodesmium gross N2 fixation in intermediate and bottom layers of the euphotic zone, but perhaps not in light-saturated surface layers. Climate change models must consider the interactive effects of multiple environmental variables on phytoplankton and the biogeochemical cycles they mediate.
- Published
- 2016
25. INTERACTIVE EFFECTS OF IRRADIANCE AND CO2 ON CO2 FIXATION AND N2 FIXATION IN THE DIAZOTROPH TRICHODESMIUM ERYTHRAEUM (CYANOBACTERIA)1
- Author
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Margaret R. Mulholland, Nathan S. Garcia, Cynthia L. Breene, Fei-Xue Fu, David A. Hutchins, Peter W. Bernhardt, and Jill A. Sohm
- Subjects
Cyanobacteria ,Trichodesmium ,Botany ,Phytoplankton ,Carbon fixation ,Nitrogen fixation ,Photic zone ,Plant Science ,Diazotroph ,Aquatic Science ,Biology ,Trichodesmium erythraeum ,biology.organism_classification - Abstract
The diazotrophic cyanobacteria Trichodesmium spp. contribute approximately half of the known marine dinitrogen (N2 ) fixation. Rapidly changing environmental factors such as the rising atmospheric partial pressure of carbon dioxide (pCO2 ) and shallower mixed layers (higher light intensities) are likely to affect N2 -fixation rates in the future ocean. Several studies have documented that N2 fixation in laboratory cultures of T. erythraeum increased when pCO2 was doubled from present-day atmospheric concentrations (∼380 ppm) to projected future levels (∼750 ppm). We examined the interactive effects of light and pCO2 on two strains of T. erythraeum Ehrenb. (GBRTRLI101 and IMS101) in laboratory semicontinuous cultures. Elevated pCO2 stimulated gross N2 -fixation rates in cultures growing at 38 μmol quanta · m(-2 ) · s(-1) (GBRTRLI101 and IMS101) and 100 μmol quanta · m(-2 ) · s(-1) (IMS101), but this effect was reduced in both strains growing at 220 μmol quanta · m(-2 ) · s(-1) . Conversely, CO2 -fixation rates increased significantly (P
- Published
- 2011
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26. CO2 and phosphate availability control the toxicity of the harmful bloom dinoflagellate Karlodinium veneficum
- Author
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Allen R. Place, David A. Hutchins, Nathan S. Garcia, and Fei-Xue Fu
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biology ,Dinoflagellate ,Ocean acidification ,Aquatic Science ,Phosphate ,biology.organism_classification ,Algal bloom ,chemistry.chemical_compound ,chemistry ,Toxicity ,Botany ,Food science ,Karlodinium ,Eutrophication ,Bloom ,Ecology, Evolution, Behavior and Systematics - Abstract
We demonstrated that the toxicity of the harmful bloom dinoflagellate Karlodinium veneficum is regulated by both CO 2 concentrations and phosphate availability. Semi-continuous cultures were grown in a factorial experiment under all combinations of 3 CO 2 levels (230, 430 and 745 ppm) and 2 phosphate conditions (0.5 and 20 uM). After steady-state acclimation was achieved, karlotoxin cellular quotas and growth rates were determined in all 6 treatments. This strain produced both types of karlotoxin, KmTx-1 and KmTx-2. Chlorophyll a-normalized production of the 2 types of karlotoxins was much higher in P-limited cultures compared with P-replete ones under the same CO 2 conditions. Increasing CO 2 strongly stimulated production of KmTx-1 and decreased production of KmTx-2 in both treatments, but especially in P-limited cultures. Because the KmTx-1 toxin is an order of magnitude more potent than KmTx-2, total cellular toxicity was increased dramatically at high pCO 2 , particularly in P-limited cultures. Specific growth rates were accelerated by enriched CO 2 in P-replete cultures, but not in P-limited treatments. Growth rates or toxicity of K. veneficum could increase substantially in the future with high CO 2 levels in the ocean, depending on P availability, and so interactions between rising CO 2 and eutrophication could cause major shifts in present day patterns of harmful algal toxin production. These results suggest that over the coming decades, rising CO 2 could substantially increase karlotoxin damage to food webs in the often P-limited estuaries where Karlodinium blooms occur.
- Published
- 2010
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27. Influence of irradiance and iron on the growth of colonial Phaeocystis antarctica: implications for seasonal bloom dynamics in the Ross Sea, Antarctica
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Giacomo R. DiTullio, Peter N. Sedwick, and Nathan S. Garcia
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Growth medium ,biology ,Chemistry ,Irradiance ,Aquatic Science ,Seasonality ,biology.organism_classification ,medicine.disease ,chemistry.chemical_compound ,Oceanography ,Algae ,Environmental chemistry ,medicine ,Seawater ,Water quality ,Growth rate ,Bloom ,Ecology, Evolution, Behavior and Systematics - Abstract
Laboratory culture experiments were used to investigate the growth rate of colonial Phaeocystis antarctica as a function of irradiance and dissolved iron concentration. The experiments were conducted with a P. antarctica strain isolated from the southern Ross Sea, Antarctica, and made use of natural, low-iron (
- Published
- 2009
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28. Effects of iron concentration on pigment composition in Phaeocystis antarctica grown at low irradiance
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Peter N. Sedwick, Nathan S. Garcia, S. F. Riseman, and Giacomo R. DiTullio
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Biogeochemical cycle ,biology ,fungi ,chemistry.chemical_element ,Photosynthetic pigment ,biology.organism_classification ,chemistry.chemical_compound ,Pigment ,Oceanography ,chemistry ,Algae ,visual_art ,visual_art.visual_art_medium ,Environmental Chemistry ,Fucoxanthin ,Composition (visual arts) ,Autotroph ,Carbon ,Earth-Surface Processes ,Water Science and Technology - Abstract
Interpretation of photosynthetic pigment data using iterative programs such as CHEMTAX are widely used to examine algal community structure in the surface ocean. The accuracy of such programs relies on understanding the effects of environmental parameters on the pigment composition of taxonomically diverse algal groups. Phaeocystis antarctica is an important contributor to total autotrophic production and the biogeochemical cycling of carbon and sulfur in the Southern Ocean. Here we report the results of a laboratory culture experiment in which we examined the effects of ambient dissolved iron concentration on the pigment composition of colonial P. antarctica, using a new P. antarctica strain isolated from the southern Ross Sea in December 2003. Low-iron ( 3) indicative of Fe stress. We also observed that the ratio of fucoxanthin to 19′-hexanoyloxyfucoxanthin (Fuco:Hex ratio) was highly correlated (r 2 = 0.82) with initial dissolved Fe concentration, with Fuco:Hex ratios
- Published
- 2007
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29. Evidence for high iron requirements of colonial Phaeocystis antarctica at low irradiance
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Peter N. Sedwick, S. F. Riseman, Nathan S. Garcia, Giacomo R. DiTullio, and Chris M. Marsay
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Chlorophyll a ,Biomass (ecology) ,biology ,fungi ,Irradiance ,biology.organism_classification ,chemistry.chemical_compound ,Oceanography ,Algae ,chemistry ,Phytoplankton ,Environmental Chemistry ,Ecosystem ,Seawater ,Growth rate ,Earth-Surface Processes ,Water Science and Technology - Abstract
We have carried out field and laboratory experiments to examine the iron requirements of colonial Phaeocystis antarctica in the Ross Sea. In December 2003, we performed an iron/light-manipulation bioassay experiment in the Ross Sea polynya, using an algal assemblage dominated by colonial Phaeocystis antarctica, collected from surface waters with an ambient dissolved Fe concentration of ∼0.4 nM. Results from this experiment suggest that P. antarctica growth rates were enhanced at high irradiance (∼50% of incident surface irradiance) but were unaffected by iron addition, and that elevated irradiance mediated a significant decrease in cellular chlorophyll a content. We also conducted a laboratory iron dose–response bioassay experiment using a unialgal, non-axenic strain of colonial P. antarctica and low-iron (
- Published
- 2007
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30. Interactions between changing pCO(2), N-2 fixation, and Fe limitation in the marine unicellular cyanobacterium Crocosphaera
- Author
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Aaron J. Beck, Nathan S. Garcia, David A. Hutchins, Peter W. Bernhardt, Fei-Xue Fu, Margaret R. Mulholland, Mark E. Warner, and Sergio A. Sañudo-Wilhelmy
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Cyanobacteria ,Biogeochemical cycle ,biology ,Phosphorus ,Carbon fixation ,chemistry.chemical_element ,Aquatic Science ,Oceanography ,biology.organism_classification ,Photosynthesis ,Nitrogen ,chemistry.chemical_compound ,chemistry ,Carbon dioxide ,Botany ,Trace metal - Abstract
We examined the physiological responses of steady-state iron (Fe)-replete and Fe-limited cultures of the biogeochemically critical marine unicellular diazotrophic cyanobacterium Crocosphaera at glacial (19 Pa; 190 ppm), current (39 Pa; 380 ppm), and projected year 2100 (76 Pa; 750 ppm) CO 2 levels. Rates of N 2 and CO 2 fixation and growth increased in step with increasing partial pressure of CO 2 (pCO 2 ), but only under Fe-replete conditions. N 2 and carbon fixation rates at 75 Pa CO 2 were 1.4-1.8-fold and 1.2-2.0-fold higher, respectively, relative to those at present day and glacial pCO 2 levels. In Fe-replete cultures, cellular Fe and molybdenum quotas varied threefold and were linearly related to N 2 fixation rates and to external pCO 2 . However, N 2 fixation and trace metal quotas were decoupled from pCO 2 in Fe-limited Crocosphaera. Higher CO 2 and Fe concentrations both resulted in increased cellular pigment contents and affected photosynthesis vs. irradiance parameters. If these results also apply to natural Crocosphaera populations, anthropogenic CO 2 enrichment could substantially increase global oceanic N 2 and CO 2 fixation, but this effect may be tempered by Fe availability. Possible biogeochemical consequences may include elevated inputs of new nitrogen to the ocean and increased potential for Fe and/or phosphorus limitation in the future high-CO 2 ocean, and feedbacks to atmospheric pCO 2 in both the near future and over glacial to interglacial timescales.
- Published
- 2008
31. Light-Limited Growth Rate Modulates Nitrate Inhibition of Dinitrogen Fixation in the Marine Unicellular Cyanobacterium Crocosphaera watsonii
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Nathan S. Garcia and David A. Hutchins
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0106 biological sciences ,Cyanobacteria ,Time Factors ,Light ,010504 meteorology & atmospheric sciences ,Physiology ,lcsh:Medicine ,Marine and Aquatic Sciences ,chemistry.chemical_element ,Oceanography ,Biochemistry ,Microbiology ,01 natural sciences ,chemistry.chemical_compound ,Nutrient ,Nitrate ,Nitrogen Fixation ,Phytoplankton ,14. Life underwater ,Growth rate ,lcsh:Science ,0105 earth and related environmental sciences ,Nitrates ,Multidisciplinary ,biology ,Ecology ,Chemical Oceanography ,010604 marine biology & hydrobiology ,lcsh:R ,Biological Oceanography ,Ecology and Environmental Sciences ,Biology and Life Sciences ,Aquatic Environments ,Cell Biology ,Crocosphaera watsonii ,Biogeochemistry ,biology.organism_classification ,Marine Environments ,Nitrogen ,Geochemistry ,chemistry ,Ocean Environments ,Earth Sciences ,Biophysics ,lcsh:Q ,Diazotroph ,Research Article - Abstract
Biological N2 fixation is the dominant supply of new nitrogen (N) to the oceans, but is often inhibited in the presence of fixed N sources such as nitrate (NO3 −). Anthropogenic fixed N inputs to the ocean are increasing, but their effect on marine N2 fixation is uncertain. Thus, global estimates of new oceanic N depend on a fundamental understanding of factors that modulate N source preferences by N2-fixing cyanobacteria. We examined the unicellular diazotroph Crocosphaera watsonii (strain WH0003) to determine how the light-limited growth rate influences the inhibitory effects of fixed N on N2 fixation. When growth (µ) was limited by low light (µ = 0.23 d−1), short-term experiments indicated that 0.4 µM NH4 + reduced N2-fixation by ∼90% relative to controls without added NH4 +. In fast-growing, high-light-acclimated cultures (µ = 0.68 d−1), 2.0 µM NH4 + was needed to achieve the same effect. In long-term exposures to NO3 −, inhibition of N2 fixation also varied with growth rate. In high-light-acclimated, fast-growing cultures, NO3 − did not inhibit N2-fixation rates in comparison with cultures growing on N2 alone. Instead NO3 − supported even faster growth, indicating that the cellular assimilation rate of N2 alone (i.e. dinitrogen reduction) could not support the light-specific maximum growth rate of Crocosphaera. When growth was severely light-limited, NO3 − did not support faster growth rates but instead inhibited N2-fixation rates by 55% relative to controls. These data rest on the basic tenet that light energy is the driver of photoautotrophic growth while various nutrient substrates serve as supports. Our findings provide a novel conceptual framework to examine interactions between N source preferences and predict degrees of inhibition of N2 fixation by fixed N sources based on the growth rate as controlled by light.
- Published
- 2014
- Full Text
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