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  • 1
    Publication Date: 2014-10-14
    Description: Anthropogenically driven climate change will rapidly become Earth's dominant transformative influence in the coming decades. The oceanic biological pump—the complex suite of processes that results in the transfer of particulate and dissolved organic carbon from the surface to the deep ocean—constitutes the main mechanism for removing CO2 from the atmosphere and sequestering carbon at depth on submillennium time scales. Variations in the efficacy of the biological pump and the strength of the deep ocean carbon sink, which is larger than all other bioactive carbon reservoirs, regulate Earth's climate and have been implicated in past glacial-​interglacial cycles. The numerous biological, chemical, and physical processes involved in the biological pump are inextricably linked and heterogeneous over a wide range of spatial and temporal scales, and they influence virtually the entire ocean ecosystem. Thus, the functioning of the oceanic biological pump is not only relevant to the modulation of Earth's climate but also constitutes the basis for marine biodiversity and key food resources that support the human population. Our understanding of the biological pump is far from complete. Moreover, how the biological pump and the deep ocean carbon sink will respond to the rapid and ongoing anthropogenic changes to our planet—including warming, acidification, and deoxygenation of ocean waters—remains highly uncertain. To understand and quantify present-day and future changes in biological pump processes requires sustained global observations coupled with extensive modeling studies supported by international scientific coordination and funding
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev
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  • 2
    Publication Date: 2014-06-25
    Description: wo commonly used proxies based on the distribution of glycerol dialkyl glycerol tetraethers (GDGTs) are the TEX86 (TetraEther indeX of 86 carbon atoms) paleothermometer for sea surface temperature reconstructions and the BIT (Branched Isoprenoid Tetraether) index for reconstructing soil organic matter input to the ocean. An initial round-robin study of two sediment extracts, in which 15 laboratories participated, showed relatively consistent TEX86 values (reproducibility ±3–4°C when translated to temperature) but a large spread in BIT measurements (reproducibility ±0.41 on a scale of 0–1). Here we report results of a second round-robin study with 35 laboratories in which three sediments, one sediment extract, and two mixtures of pure, isolated GDGTs were analyzed. The results for TEX86 and BIT index showed improvement compared to the previous round-robin study. The reproducibility, indicating interlaboratory variation, of TEX86 values ranged from 1.3 to 3.0°C when translated to temperature. These results are similar to those of other temperature proxies used in paleoceanography. Comparison of the results obtained from one of the three sediments showed that TEX86 and BIT indices are not significantly affected by interlaboratory differences in sediment extraction techniques. BIT values of the sediments and extracts were at the extremes of the index with values close to 0 or 1, and showed good reproducibility (ranging from 0.013 to 0.042). However, the measured BIT values for the two GDGT mixtures, with known molar ratios of crenarchaeol and branched GDGTs, had intermediate BIT values and showed poor reproducibility and a large overestimation of the “true” (i.e., molar-based) BIT index. The latter is likely due to, among other factors, the higher mass spectrometric response of branched GDGTs compared to crenarchaeol, which also varies among mass spectrometers. Correction for this different mass spectrometric response showed a considerable improvement in the reproducibility of BIT index measurements among laboratories, as well as a substantially improved estimation of molar-based BIT values. This suggests that standard mixtures should be used in order to obtain consistent, and molar-based, BIT values.
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev
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  • 3
    Publication Date: 2022-05-25
    Description: Author Posting. © American Geophysical Union, 2009. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Geochemistry Geophysics Geosystems 10 (2009): Q03012, doi:10.1029/2008GC002221.
    Description: Recently, two new proxies based on the distribution of glycerol dialkyl glycerol tetraethers (GDGTs) were proposed, i.e., the TEX86 proxy for sea surface temperature reconstructions and the BIT index for reconstructing soil organic matter input to the ocean. In this study, fifteen laboratories participated in a round robin study of two sediment extracts with a range of TEX86 and BIT values to test the analytical reproducibility and repeatability in analyzing these proxies. For TEX86 the repeatability, indicating intra-laboratory variation, was 0.028 and 0.017 for the two sediment extracts or ±1–2°C when translated to temperature. The reproducibility, indicating among-laboratory variation, of TEX86 measurements was substantially higher, i.e., 0.050 and 0.067 or ±3–4°C when translated to temperature. The latter values are higher than those obtained in round robin studies of Mg/Ca and U37 k′ paleothermometers, suggesting the need to primarily improve compatibility between labs. The repeatability of BIT measurements for the sediment with substantial amounts of soil organic matter input was relatively small, 0.029, but reproducibility was large, 0.410. This large variance could not be attributed to specific equipment used or a particular data treatment. We suggest that this may be caused by the large difference in the molecular weight in the GDGTs used in the BIT index, i.e., crenarchaeol versus the branched GDGTs. Potentially, this difference gives rise to variable responses in the different mass spectrometers used. Calibration using authentic standards is needed to establish compatibility between labs performing BIT measurements.
    Keywords: TEX86 ; BIT ; Round robin ; HPLC/MS
    Repository Name: Woods Hole Open Access Server
    Type: Article
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  • 4
    Publication Date: 2022-05-25
    Description: Author Posting. © Inter-Research, 2009. This article is posted here by permission of Inter-Research for personal use, not for redistribution. The definitive version was published in Aquatic Microbial Ecology 54 (2009): 127-133, doi:10.3354/ame01261.
    Description: Quorum sensing (QS) via acylated homoserine lactones (AHLs) was discovered in the ocean, yet AHLs are expected to be very short-lived at seawater pH due to rapid abiotic degradation. Quorum quenching, the enzymatic degradation of AHLs, is also likely. To better understand the potential for QS to regulate behaviors of marine bacteria, we investigated the degradation of a variety of AHL molecules in several types of seawater media. We did this by incubating AHLs and tracking their concentration using HPLC/electrospray-ionization mass-spectrometry (HPLC/ESI-MS). AHL concentrations decreased with time, and degradation rate coefficients were calculated by applying a first-order rate law. The rate of abiotic degradation showed strong dependence on acyl chain length and the presence of 3-oxo substitutions on the acyl chain. We found that the rate of abiotic degradation of AHLs in artificial seawater was much slower than that predicted by an oft-cited equation for non-marine media that takes only pH into account. However, AHLs degraded more rapidly in natural seawater than in artificial seawater, an observation we found to be due to quorum quenching enzyme activity. By applying calculated degradation rates in a simple steady-state calculation, we suggest that despite the observed quorum quenching activity, AHLs are likely to be viable signals in organic particles and in other microbial ‘hotpsots’ in marine environments.
    Description: This work was funded by a grant from the Office of Naval Research to B.A.S.V.M. (N0014-06-1-0134), and an NSF Graduate Student Fellowship to L.H.
    Keywords: Quorum sensing ; Quorum quenching ; Marine bacteria ; Acylated homoserine lactone ; HPLC ; Mass spectrometry ; Degradation
    Repository Name: Woods Hole Open Access Server
    Type: Article
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  • 5
    Publication Date: 2022-05-25
    Description: Author Posting. © The Author(s), 2010. This is the author's version of the work. It is posted here by permission of Nature Publishing Group for personal use, not for redistribution. The definitive version was published in The ISME Journal 5 (2011): 1057–1060, doi:10.1038/ismej.2010.192.
    Description: In low phosphorus (P) marine systems phytoplankton replace membrane phospholipids with non-phosphorus lipids, but it is not known how rapidly this substitution occurs. Here, when cells of the model diatom Thalassiosira pseudonana were transferred from P-replete medium to P-free medium, the phospholipid content of the cells rapidly declined within 48 h from 45±0.9% to 21±4.5% of total membrane lipids; the difference was made up by non-phosphorus lipids. Conversely, when P-limited T. pseudonana were resupplied with P, cells reduced the percentage of their total membrane lipid contributed by a non-phosphorus lipid from 43±1.5% to 7.3±0.9% within 24 h, while the contribution by phospholipids rose from 2.2±0.1% to 44±3%. This dynamic phospholipid reservoir contained sufficient P to synthesize multiple haploid genomes, suggesting that phospholipid turnover could be an important P source for cells. Field observations of phytoplankton lipid content may thus reflect short-term changes in P supply and cellular physiology, rather than simply long-term adjustment to the environment.
    Description: This research was funded by NSF OCE-0646944 and OCE- 1045670 (B.V.M.), OCE-0723677 and OCE-0549794 (S.T.D.), and by the Graduate School, National Oceanography Centre, Southampton (P.M).
    Keywords: Betaine lipids ; DGCC ; Lipid substitution ; Non-phosphorus lipids ; Phosphatidylcholine ; Diatoms
    Repository Name: Woods Hole Open Access Server
    Type: Preprint
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  • 6
    Publication Date: 2022-05-25
    Description: © The Author(s), 2011. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS One 6 (2011): e28949, doi:10.1371/journal.pone.0028949.
    Description: Shotgun mass spectrometry was used to detect proteins in the harmful alga, Aureococcus anophagefferens, and monitor their relative abundance across nutrient replete (control), phosphate-deficient (−P) and −P refed with phosphate (P-refed) conditions. Spectral counting techniques identified differentially abundant proteins and demonstrated that under phosphate deficiency, A. anophagefferens increases proteins involved in both inorganic and organic phosphorus (P) scavenging, including a phosphate transporter, 5′-nucleotidase, and alkaline phosphatase. Additionally, an increase in abundance of a sulfolipid biosynthesis protein was detected in −P and P-refed conditions. Analysis of the polar membrane lipids showed that cellular concentrations of the sulfolipid sulphoquinovosyldiacylglycerol (SQDG) were nearly two-fold greater in the −P condition versus the control condition, while cellular phospholipids were approximately 8-fold less. Transcript and protein abundances were more tightly coupled for gene products involved in P metabolism compared to those involved in a range of other metabolic functions. Comparison of protein abundances between the −P and P-refed conditions identified differences in the timing of protein degradation and turnover. This suggests that culture studies examining nutrient starvation responses will be valuable in interpreting protein abundance patterns for cellular nutritional status and history in metaproteomic datasets.
    Description: Research for this work was supported by a National Oceanic and Atmospheric Administration ECOHAB grant (#NA09NOS4780206) and National Science Foundation grant (#OCE-0723667) and a STAR Research Assistance Agreement No. R-83041501-0 awarded by the U.S. Environmental Protection Agency. Further support came from the Woods Hole Coastal Ocean Institute. LLW was supported by a Environmental Protection Agency STAR Fellowship (#FP916901). EMB was supported by a National Science Foundation (NSF) Graduate Research Fellowship (#2007037200) and an Environmental Protection Agency STAR Fellowship (#F6E20324).
    Repository Name: Woods Hole Open Access Server
    Type: Article
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  • 7
    Publication Date: 2022-05-25
    Description: © The Author(s), 2011. This article is distributed under the terms of the Creative Commons Attribution 3.0 License. The definitive version was published in Biogeosciences 8 (2011): 3733-3745, doi:10.5194/bg-8-3733-2011.
    Description: Intact polar membrane lipids compose a significant fraction of cellular material in plankton and their synthesis imposes a substantial constraint on planktonic nutrient requirements. As a part of the Biogeochemistry from the Oligotrophic to the Ultraoligotrophic Mediterranean (BOUM) cruise we examined the distribution of several classes of intact polar diacylglycerolipids (IP-DAGs) across the Mediterranean, and found that phospholipid concentration as a percent of total lipids correlated with phosphate concentration. In addition, the ratios of non-phosphorus lipids to phospholipids – sulfoquinovosyldiacylglycerol (SQDG) to phosphatidylglycerol (PG), and betaine lipids to phosphatidylcholine (PC) – were also found to increase from west to east across the Mediterranean. Additionally, microcosm incubations from across the Mediterranean were amended with phosphate and ammonium, and in the course of several days nutrient amendments elicited a shift in the ratios of IP-DAGs. These experiments were used to assess the relative contribution of community shifts and physiological response to the observed change in IP-DAGs across the Mediterranean. The ratio of SQDG to chlorophyll-a was also explored as an indicator of phytoplankton response to nitrogen availability. This study is the first to demonstrate the dynamic response of membrane lipid composition to changes in nutrients in a natural, mixed planktonic community.
    Description: Funding for this work was provided by a grant from the National Science Foundation (OCE-0646944 and OCE-1031143).
    Repository Name: Woods Hole Open Access Server
    Type: Article
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  • 8
    Publication Date: 2017-01-04
    Description: Citation only. Published in Science 316: 567-570, doi: 10.1126/science.1137959
    Description: Funding was obtained primarily through the NSF, Ocean Sciences Programs in Chemical and Biological Oceanography, with additional support from the U.S. Department of Energy, Office of Science, Biological and Environmental Research Program, and other national programs, including the Australian Cooperative Research Centre program and Australian Antarctic Division.
    Keywords: Carbon flux ; Carbon sequestration ; Biological pump
    Repository Name: Woods Hole Open Access Server
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  • 9
    Publication Date: 2022-05-26
    Description: Author Posting. © American Geophysical Union, 2013. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Geochemistry, Geophysics, Geosystems 14 (2013): 5263–5285, doi:10.1002/2013GC004904.
    Description: Two commonly used proxies based on the distribution of glycerol dialkyl glycerol tetraethers (GDGTs) are the TEX86 (TetraEther indeX of 86 carbon atoms) paleothermometer for sea surface temperature reconstructions and the BIT (Branched Isoprenoid Tetraether) index for reconstructing soil organic matter input to the ocean. An initial round-robin study of two sediment extracts, in which 15 laboratories participated, showed relatively consistent TEX86 values (reproducibility ±3–4°C when translated to temperature) but a large spread in BIT measurements (reproducibility ±0.41 on a scale of 0–1). Here we report results of a second round-robin study with 35 laboratories in which three sediments, one sediment extract, and two mixtures of pure, isolated GDGTs were analyzed. The results for TEX86 and BIT index showed improvement compared to the previous round-robin study. The reproducibility, indicating interlaboratory variation, of TEX86 values ranged from 1.3 to 3.0°C when translated to temperature. These results are similar to those of other temperature proxies used in paleoceanography. Comparison of the results obtained from one of the three sediments showed that TEX86 and BIT indices are not significantly affected by interlaboratory differences in sediment extraction techniques. BIT values of the sediments and extracts were at the extremes of the index with values close to 0 or 1, and showed good reproducibility (ranging from 0.013 to 0.042). However, the measured BIT values for the two GDGT mixtures, with known molar ratios of crenarchaeol and branched GDGTs, had intermediate BIT values and showed poor reproducibility and a large overestimation of the “true” (i.e., molar-based) BIT index. The latter is likely due to, among other factors, the higher mass spectrometric response of branched GDGTs compared to crenarchaeol, which also varies among mass spectrometers. Correction for this different mass spectrometric response showed a considerable improvement in the reproducibility of BIT index measurements among laboratories, as well as a substantially improved estimation of molar-based BIT values. This suggests that standard mixtures should be used in order to obtain consistent, and molar-based, BIT values.
    Description: S.S. thanks the Netherlands Organisation for Scientific Research (NWO) for financial support through a VICI grant and Jaap van der Meer for advice and support on the statistical analysis. A.P. thanks Susan Carter for laboratory assistance and NSF-OCE for funding. A.R.M. thanks Jordi Coello and N uria Moraleda for advice and support on the statistical analysis and Spanish Ministry for research and innovation (MICIIN) for funding. V.G. thanks Xavier Philippon and Carl Johnson for technical assistance. K.G. and M.W. thank the Australian Research Council and John de Laeter Centre for funding toward the LC-MS system, and ARC Fellowship awarded to K.G. C.L.Z. thanks the State Key Laboratory of Marine Geology and the Chinese ‘‘National Thousand Talents’’ program for supporting the LC-MS work performed at Tongji University.
    Description: 2014-06-20
    Keywords: TEX86 ; BIT ; GDGT ; Round robin
    Repository Name: Woods Hole Open Access Server
    Type: Article
    Format: text/plain
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  • 10
    Publication Date: 2022-05-26
    Description: Author Posting. © The Oceanography Society, 2014. This article is posted here by permission of The Oceanography Society for personal use, not for redistribution. The definitive version was published in Oceanography 27, no. 3 (2014): 10-16, doi:10.5670/oceanog.2014.78.
    Description: Anthropogenically driven climate change will rapidly become Earth's dominant transformative influence in the coming decades. The oceanic biological pump—the complex suite of processes that results in the transfer of particulate and dissolved organic carbon from the surface to the deep ocean—constitutes the main mechanism for removing CO2 from the atmosphere and sequestering carbon at depth on submillennium time scales. Variations in the efficacy of the biological pump and the strength of the deep ocean carbon sink, which is larger than all other bioactive carbon reservoirs, regulate Earth's climate and have been implicated in past glacial-​interglacial cycles. The numerous biological, chemical, and physical processes involved in the biological pump are inextricably linked and heterogeneous over a wide range of spatial and temporal scales, and they influence virtually the entire ocean ecosystem. Thus, the functioning of the oceanic biological pump is not only relevant to the modulation of Earth's climate but also constitutes the basis for marine biodiversity and key food resources that support the human population. Our understanding of the biological pump is far from complete. Moreover, how the biological pump and the deep ocean carbon sink will respond to the rapid and ongoing anthropogenic changes to our planet—including warming, acidification, and deoxygenation of ocean waters—remains highly uncertain. To understand and quantify present-day and future changes in biological pump processes requires sustained global observations coupled with extensive modeling studies supported by international scientific coordination and funding.
    Description: We thank the National Science Foundation for support of ocean biogeochemical flux studies, including the US JGOFS program throughout its tenure; OCE 9986766 to S. Honjo; and OCE-0425677, OCE-0851350, and OPP-0909377 to T. Eglinton.
    Repository Name: Woods Hole Open Access Server
    Type: Article
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