Observations of Carbon Export by Small Sinking Particles in the Upper Mesopelagic

Carbon and nutrients are transported out of the surface ocean and sequestered at depth by sinking particles. Sinking particle sizes span many orders of magnitude and the relative influence of small particles on carbon export compared to large particles has not been resolved. To determine the influence of particle size on carbon export, the flux of both small (11–64 μm) and large (\u3e 64 μm) particles in the upper mesopelagic was examined during 5 cruises of the Bermuda Atlantic Time Series (BATS) in the Sargasso Sea using neutrally buoyant sediment traps mounted with tubes containing polyacrylamide gel layers and tubes containing a poisoned brine layer. Particles were also collected in surface-tethered, free-floating traps at higher carbon flux locations in the tropical and subtropical South Atlantic Ocean. Particle sizes spanning three orders of magnitude were resolved in gel samples, included sinking particles as small as 11 μm. At BATS, the number flux of small particles tended to increase with depth, whereas the number flux of large particles tended to decrease with depth. The carbon content of different sized particles could not be modeled by a single set of parameters because the particle composition varied across locations and over time. The modeled carbon flux by small particles at BATS, including all samples and depths, was 39 ± 20% of the modeled total carbon flux, and the percentage increased with depth in 4 out of the 5 months sampled. These results indicate that small particles (\u3c 64 μm) are actively settling in the water column and are an important contributor to carbon flux throughout the mesopelagic. Observations and models that overlook these particles will underestimate the vertical flux of organic matter in the ocean

Observations of carbon export by small sinking particles in the upper mesopelagic

© The Author(s), 2015. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Marine Chemistry 175 (2015): 72-81, doi:10.1016/j.marchem.2015.02.011.Carbon and nutrients are transported out of the surface ocean and sequestered at depth by sinking particles. Sinking particle sizes span many orders of magnitude and the relative influence of small particles on carbon export compared to large particles has not been resolved. To determine the influence of particle size on carbon export, the flux of both small (11–64 μm) and large (> 64 μm) particles in the upper mesopelagic was examined during 5 cruises of the Bermuda Atlantic Time Series (BATS) in the Sargasso Sea using neutrally buoyant sediment traps mounted with tubes containing polyacrylamide gel layers and tubes containing a poisoned brine layer. Particles were also collected in surface-tethered, free-floating traps at higher carbon flux locations in the tropical and subtropical South Atlantic Ocean. Particle sizes spanning three orders of magnitude were resolved in gel samples, included sinking particles as small as 11 μm. At BATS, the number flux of small particles tended to increase with depth, whereas the number flux of large particles tended to decrease with depth. The carbon content of different sized particles could not be modeled by a single set of parameters because the particle composition varied across locations and over time. The modeled carbon flux by small particles at BATS, including all samples and depths, was 39 ± 20% of the modeled total carbon flux, and the percentage increased with depth in 4 out of the 5 months sampled. These results indicate that small particles (< 64 μm) are actively settling in the water column and are an important contributor to carbon flux throughout the mesopelagic. Observations and models that overlook these particles will underestimate the vertical flux of organic matter in the ocean.Funding for this study was provided by the National Science Foundation Chemical Oceanography Program (OCE-1260001 and 1406552 to M. L. Estapa) and the Woods Hole Oceanographic Institution Devonshire Postdoctoral Scholarship awarded to C. A. Durkin. Funding for the DeepDOM cruise was provided by the National Science Foundation Chemical Oceanography Program (OCE-1154320 to E. B. Kujawinski and K. Longnecker, WHOI)

Preferred Measurements: Optimality and Stability in Quantum Parameter Estimation

We explore precision in a measurement process incorporating pure probe states, unitary dynamics and complete measurements via a simple formalism. The concept of `information complement' is introduced. It undermines measurement precision and its minimization reveals the system properties at an optimal point. Maximally precise measurements can exhibit independence from the true value of the estimated parameter, but demanding this severely restricts the type of viable probe and dynamics, including the requirement that the Hamiltonian be block-diagonal in a basis of preferred measurements. The curvature of the information complement near a globally optimal point provides a new quantification of measurement stability.Comment: 4 pages, 2 figures, in submission. Substantial Extension and replacement of arXiv:0902.3260v1 in response to Referees' remark

Sinking phytoplankton associated with carbon flux in the Atlantic Ocean

© The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Limnology and Oceanography 61 (2016): 1172–1187, doi:10.1002/lno.10253.The composition of sinking particles and the mechanisms leading to their transport ultimately control how much carbon is naturally sequestered in the deep ocean by the “biological pump.” While detrital particles often contain much of the sinking carbon, sinking of intact phytoplankton cells can also contribute to carbon export, which represents a direct flux of carbon from the atmosphere to the deep ocean by circumventing the surface ocean food web. Phytoplankton that contributed to carbon flux were identified in sinking material collected by short-term sediment trap deployments conducted along a transect off the eastern shore of South America. Particulate organic carbon flux at 125 m depth did not change significantly along the transect. Instead, changes occurred in the composition and association of phytoplankton with detrital particles. The fluxes of diatoms, coccolithophores, dinoflagellates, and nano-sized cells at 125 m were unrelated to the overlying surface population abundances, indicating that functional-group specific transport mechanisms were variable across locations. The dominant export mechanism of phytoplankton at each station was putatively identified by principal component analysis and fell into one of three categories; (1) transport and sinking of individual, viable diatom cells, (2) transport by aggregates and fecal pellets, or (3) enhanced export of coccolithophores through direct settling and/or aggregationFunding for the DeepDOM cruise was provided by the National Science Foundation (NSF) grant OCE-1154320 to E. B. Kujawinski and K. Longnecker, WHOI. Partial research support was provided by NSF through grants OCE-0925284, and OCE-1316036 to S.T. Dyhrman. C.A. Durkin was supported by a Woods Hole Oceanographic Institution Devonshire Postdoctoral Scholarship

State-Level Immunization Information Systems: Potential for Childhood Immunization Data Linkages.

Objectives Sources of immunization data include state registries or immunization information systems (IIS), medical records, and surveys. Little is known about the quality of these data sources or the feasibility of using IIS data for research. We assessed the feasibility of collecting immunization information for a national children\u27s health study by accessing existing IIS data and comparing the completeness of these data against medical record abstractions (MRA) and parent report. Staff time needed to obtain IIS and MRA data was assessed. Methods We administered a questionnaire to state-level IIS representatives to ascertain availability and completeness of their data for research and gather information about data formats. We evaluated quality of data from IIS, medical records, and reports from parents of 119 National Children\u27s Study participants at three locations. Results IIS data were comparable to MRA data and both were more complete than parental report. Agreement between IIS and MRA data was greater than between parental report and MRA, suggesting IIS and MRA are better sources than parental report. Obtaining IIS data took less staff time than chart review, making IIS data linkage for research a preferred choice. Conclusions IIS survey results indicate data can be obtained by researchers using data linkages. IIS are an accessible and feasible child immunization information source and these registries reduce reliance on parental report or medical record abstraction. Researchers seeking to link IIS data with large multi-site studies should consider acquiring IIS data, but may need strategies to overcome barriers to data completeness and linkage

Experimental Constraints on the Neutrino Oscillations and a Simple Model of Three Flavour Mixing

A simple model of the neutrino mixing is considered, which contains only one right-handed neutrino field, coupled via the mass term to the three usual left-handed fields. This is a simplest model that allows for three-flavour neutrino oscillations. The existing experimental limits on the neutrino oscillations are used to obtain constraints on the two free mixing parameters of the model. A specific sum rule relating the oscillation probabilities of different flavours is derived.Comment: 10 pages, 3 figures in post script, Latex, IFT 2/9

The Salmonella effector SteD mediates MARCH8-1 dependent ubiquitination of MHC II molecules and inhibits T cell activation

The SPI-2 type III secretion system (T3SS) of intracellular Salmonella enterica translocates effector proteins into mammalian cells. Infection of antigen-presenting cells results in SPI-2 T3SS-dependent ubiquitination and reduction of surface-localized mature MHC class II (mMHCII). We identify the effector SteD as required and sufficient for this process. In Mel Juso cells, SteD localized to the Golgi network and vesicles containing the E3 ubiquitin ligase MARCH8 and mMHCII. SteD caused MARCH8-dependent ubiquitination and depletion of surface mMHCII. One of two transmembrane domains and the C-terminal cytoplasmic region of SteD mediated binding to MARCH8 and mMHCII, respectively. Infection of dendritic cells resulted in SteD-dependent depletion of surface MHCII, the co-stimulatory molecule B7.2, and suppression of T cell activation. SteD also accounted for suppression of T cell activation during Salmonella infection of mice. We propose that SteD is an adaptor, forcing inappropriate ubiquitination of mMHCII by MARCH8 and thereby suppressing T cell activation

Biogenic sinking particle fluxes and sediment trap collection efficiency at Ocean Station Papa

© The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Estapa, M., Buesseler, K., Durkin, C. A., Omand, M., Benitez-Nelson, C. R., Roca-Marti, M., Breves, E., Kelly, R. P., & Pike, S. Biogenic sinking particle fluxes and sediment trap collection efficiency at Ocean Station Papa. Elementa: Science of the Anthropocene, 9(1), (2021): 00122, https://doi.org/10.1525/elementa.2020.00122.Comprehensive field observations characterizing the biological carbon pump (BCP) provide the foundation needed to constrain mechanistic models of downward particulate organic carbon (POC) flux in the ocean. Sediment traps were deployed three times during the EXport Processes in the Ocean from RemoTe Sensing campaign at Ocean Station Papa in August–September 2018. We propose a new method to correct sediment trap sample contamination by zooplankton “swimmers.” We consider the advantages of polyacrylamide gel collectors to constrain swimmer influence and estimate the magnitude of possible trap biases. Measured sediment trap fluxes of thorium-234 are compared to water column measurements to assess trap performance and estimate the possible magnitude of fluxes by vertically migrating zooplankton that bypassed traps. We found generally low fluxes of sinking POC (1.38 ± 0.77 mmol C m–2 d–1 at 100 m, n = 9) that included high and variable contributions by rare, large particles. Sinking particle sizes generally decreased between 100 and 335 m. Measured 234Th fluxes were smaller than water column 234Th fluxes by a factor of approximately 3. Much of this difference was consistent with trap undersampling of both small (1 mm) and with zooplankton active migrant fluxes. The fraction of net primary production exported below the euphotic zone (0.1% light level; Ez-ratio = 0.10 ± 0.06; ratio uncertainties are propagated from measurements with n = 7–9) was consistent with prior, late summer studies at Station P, as was the fraction of material exported to 100 m below the base of the euphotic zone (T100, 0.55 ± 0.35). While both the Ez-ratio and T100 parameters varied weekly, their product, which we interpret as overall BCP efficiency, was remarkably stable (0.055 ± 0.010), suggesting a tight coupling between production and recycling at Station P.The authors would like to acknowledge funding support from the NASA EXPORTS program (Award 80NSSC17K0662) for all sediment trap data presented here. Net primary production data collection was supported by EXPORTS (Award 80NSSC17K568) to Oregon State University. Thorium data collection was supported by EXPORTS (Award 80NSSC17K0555) to KB, CRBN, and L. Resplandy

Checkpoints are blind to replication restart and recombination intermediates that result in gross chromosomal rearrangements

Replication fork inactivation can be overcome by homologous recombination, but this can cause gross chromosomal rearrangements that subsequently missegregate at mitosis, driving further chromosome instability. It is unclear when the chromosome rearrangements are generated and whether individual replication problems or the resulting recombination intermediates delay the cell cycle. Here we have investigated checkpoint activation during HR-dependent replication restart using a site-specific replication fork-arrest system. Analysis during a single cell cycle shows that HR-dependent replication intermediates arise in S phase, shortly after replication arrest, and are resolved into acentric and dicentric chromosomes in G2. Despite this, cells progress into mitosis without delay. Neither the DNA damage nor the intra-S phase checkpoints are activated in the first cell cycle, demonstrating that these checkpoints are blind to replication and recombination intermediates as well as to rearranged chromosomes. The dicentrics form anaphase bridges that subsequently break, inducing checkpoint activation in the second cell cycle