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     data   graph     files  public Nitrite Oxidoreductase targeted metaproteomics from R/V Kilo Moana cruise KM1128 and R/V
Falkor cruise FK160115 in the Central Pacific Ocean in 2011 and 2016
   ?     I   M   background (external link) RSS Subscribe BCO-DMO bcodmo_dataset_806510

The Dataset's Variables and Attributes

Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson,.odvTxt
attribute NC_GLOBAL acquisition_description String Metaproteomics samples were collected by McLane pump onto 0.2 micron Supor
membrane filters, with 51 and 3.0 micron prefilters. Global metaproteomic
analyses were conducted using 1-dimensional (1D) and 2-dimensional (2D)
chromatographic separation for the Metzyme and ProteOMZ expeditions
respectively. Following global metaproteomic analyses, targeted metaproteomic
assays were designed and samples were analyzed again by parallel reaction
monitoring (PRM) mass spectrometry using mass spectral information from the
global proteomic analyses. See methods in Saito et al., 2020 Nature
Geosciences for full details.

Samples were analyzed on a Thermo Fusion Orbitrap mass spectrometer. See
methods in Saito et al., 2020 Nature Geosciences for full details.

Data quality flags are included following GEOTRACES conventions for results
below detection limit (flag= 6).\u00a0

Parameters were named using the prior GEOTRACES IDP parameter naming
convention used for peptides (PEP), although these are new parameters not
previously submitted here or elsewhere.

The peptide\u00a0parameter naming convention was developed in collaboration
with the GEOTRACES program. In other to avoid the sustainability challenge of
having to maintain a parameter key of codes that represent protein and peptide
sequences, the tryptic peptide amino acid sequences are inserted into the
parameter name, with prefixes and suffixes for additional metadata. For
example, the parameter name \"PEP_MTIQWGK_NxrA_PUMP\" has the following
components. The prefix PEP refers to the peptides datatype, \"MTIQWGK\" refers
to the specific amino acid sequence of the measured peptide, using the IUPAC-
IUB 1 letter amino acid naming convention. This sequence can be used to
calculate the molecular weight and elemental formula of the molecule that was
measured (e.g. see
[https://web.expasy.org/compute_pi/](\\"https://web.expasy.org/compute_pi/\\")
and
[https://web.expasy.org/protparam/](\\"https://web.expasy.org/protparam/\\")).
\"NxrA\" refers to the protein name, in this case nitrite oxidoreductase
subunit A. \"PUMP\" refers to the samping methodology, in order to
differentiate when samples may be collected from the same location and depth
but by different methods. This approach is useful as tryptic peptides are
short enough in sequence to allow their use within parameter names, and each
parameter name uniquely describes the molecule being measured, even when, as
in this Nxr study, many different peptides are being measured from within a
single protein.
Reference:\u00a0[https://febs.onlinelibrary.wiley.com/doi/pdf/10.1111/j.1432-1033.1984.tb...](\\"https://febs.onlinelibrary.wiley.com/doi/pdf/10.1111/j.1432-1033.1984.tb07877.x\\")
attribute NC_GLOBAL awards_0_award_nid String 55017
attribute NC_GLOBAL awards_0_award_number String OCE-1031271
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1031271 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String Donald L. Rice
attribute NC_GLOBAL awards_0_program_manager_nid String 51467
attribute NC_GLOBAL awards_1_award_nid String 646122
attribute NC_GLOBAL awards_1_award_number String GBMF3782
attribute NC_GLOBAL awards_1_data_url String https://www.moore.org/grant-detail?grantId=GBMF3782 (external link)
attribute NC_GLOBAL awards_1_funder_name String Gordon and Betty Moore Foundation: Marine Microbiology Initiative
attribute NC_GLOBAL awards_1_funding_acronym String MMI
attribute NC_GLOBAL awards_1_funding_source_nid String 385
attribute NC_GLOBAL awards_2_award_nid String 724457
attribute NC_GLOBAL awards_2_award_number String OCE-1657766
attribute NC_GLOBAL awards_2_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1657766 (external link)
attribute NC_GLOBAL awards_2_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_2_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_2_funding_source_nid String 355
attribute NC_GLOBAL awards_2_program_manager String David L. Garrison
attribute NC_GLOBAL awards_2_program_manager_nid String 50534
attribute NC_GLOBAL awards_3_award_nid String 785825
attribute NC_GLOBAL awards_3_award_number String OCE-1736599
attribute NC_GLOBAL awards_3_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1736599 (external link)
attribute NC_GLOBAL awards_3_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_3_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_3_funding_source_nid String 355
attribute NC_GLOBAL awards_3_program_manager String Henrietta N Edmonds
attribute NC_GLOBAL awards_3_program_manager_nid String 51517
attribute NC_GLOBAL awards_4_award_nid String 786678
attribute NC_GLOBAL awards_4_award_number String OCE-1850719
attribute NC_GLOBAL awards_4_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1850719 (external link)
attribute NC_GLOBAL awards_4_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_4_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_4_funding_source_nid String 355
attribute NC_GLOBAL awards_4_program_manager String Daniel Thornhill
attribute NC_GLOBAL awards_4_program_manager_nid String 722161
attribute NC_GLOBAL awards_5_award_nid String 806568
attribute NC_GLOBAL awards_5_award_number String OCE-1924554
attribute NC_GLOBAL awards_5_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1924554 (external link)
attribute NC_GLOBAL awards_5_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_5_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_5_funding_source_nid String 355
attribute NC_GLOBAL awards_5_program_manager String Dr Simone Metz
attribute NC_GLOBAL awards_5_program_manager_nid String 51479
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Pacific Nitrite Oxidoreductase
PI: Mak A. Saito
Data Version 1: 2020-04-21
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3 19 Dec 2019
attribute NC_GLOBAL dataset_current_state String Final and no updates
attribute NC_GLOBAL date_created String 2020-03-19T15:37:18Z
attribute NC_GLOBAL date_modified String 2020-04-27T20:02:55Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.806510.1
attribute NC_GLOBAL Easternmost_Easting double 156.0
attribute NC_GLOBAL geospatial_lat_max double 17.0
attribute NC_GLOBAL geospatial_lat_min double -3.5
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double 156.0
attribute NC_GLOBAL geospatial_lon_min double -160.77
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL geospatial_vertical_max double 1250.0
attribute NC_GLOBAL geospatial_vertical_min double 20.0
attribute NC_GLOBAL geospatial_vertical_positive String down
attribute NC_GLOBAL geospatial_vertical_units String m
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/806510 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String McLane Pump
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 807118
attribute NC_GLOBAL instruments_0_description String McLane pumps sample large volumes of seawater at depth. They are attached to a wire and lowered to different depths in the ocean. As the water is pumped through the filter, particles suspended in the ocean are collected on the filters. The pumps are then retrieved and the contents of the filters are analyzed in a lab.
attribute NC_GLOBAL instruments_0_instrument_name String McLane Pump
attribute NC_GLOBAL instruments_0_instrument_nid String 627
attribute NC_GLOBAL instruments_1_acronym String Mass Spec
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 806511
attribute NC_GLOBAL instruments_1_description String General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components.
attribute NC_GLOBAL instruments_1_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB16/ (external link)
attribute NC_GLOBAL instruments_1_instrument_name String Mass Spectrometer
attribute NC_GLOBAL instruments_1_instrument_nid String 685
attribute NC_GLOBAL instruments_1_supplied_name String Thermo Fusion Orbitrap mass spectrometer
attribute NC_GLOBAL keywords String aihgvyegvtifeapak, alivntpr, bco, bco-dmo, biological, cast, chemical, data, dataset, date, depth, dllgilqlfr, dmo, erddap, expedition, Fe_as_NxrAB, flag, fpnfgedtahgr, ggtlvavapeynppatk, glwepvr, icnhctypgclaacpr, iglnqqavgyvptdeewr, iso, lane, lanqvalldsiir, latitude, lhpddfipgyk, local, Long180, longitude, management, McLane_cast, McLane_ISO_DateTime_UTC, mean, mtiqwgk, nxr, NxrA_mean, NxrA_std, NxrAB_mean, NxrB_mean, NxrB_std, oceanography, office, pep, PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP, PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG, PEP_ALIVNTPR_NxrA_PUMP, PEP_ALIVNTPR_NxrA_PUMP_FLAG, PEP_DLLGILQLFR_NxrB_PUMP, PEP_DLLGILQLFR_NxrB_PUMP_FLAG, PEP_FPNFGEDTAHGR_NxrB_PUMP, PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG, PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP, PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG, PEP_GLWEPVR_NxrA_PUMP, PEP_GLWEPVR_NxrA_PUMP_FLAG, PEP_ICNHCTYPGCLAACPR_NxrB_PUMP, PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG, PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP, PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG, PEP_LANQVALLDSIIR_NxrA_PUMP, PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG, PEP_LHPDDFIPGYK_NxrA_PUMP, PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG, PEP_MTIQWGK_NxrA_PUMP, PEP_MTIQWGK_NxrA_PUMP_FLAG, PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP, PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG, preliminary, profiler, pump, salinity, salinity-temperature-depth, station, std, temperature, time, tqfyndepeaieygenfivhr
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/806510/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/806510 (external link)
attribute NC_GLOBAL Northernmost_Northing double 17.0
attribute NC_GLOBAL param_mapping String {'806510': {'Lat': 'flag - latitude', 'Long180': 'flag - longitude', 'Depth': 'master - depth', 'McLane_ISO_DateTime_UTC': 'flag - time'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/806510/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_0_affiliation_acronym String WHOI
attribute NC_GLOBAL people_0_person_name String Mak A. Saito
attribute NC_GLOBAL people_0_person_nid String 50985
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_1_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_1_person_name String Amber D. York
attribute NC_GLOBAL people_1_person_nid String 643627
attribute NC_GLOBAL people_1_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL project String MetZyme,ProteOMZ (Proteomics in an Oxygen Minimum Zone),TriCoLim,PMT Cobalt and Metalloenzymes,MM Saito,Cyanobacteria Warming Responses,O2 Min Metalloenzyme
attribute NC_GLOBAL projects_0_acronym String MetZyme
attribute NC_GLOBAL projects_0_description String MetZyme project researchers will determine the role of enzymatic activity in the cycling of trace metals. Specifically the research will address the following questions: (1) degradation of sinking particulate organic material in the Tropical North Pacific can be influenced by the ability of microbes to synthesize zinc proteases, which in turn is controlled by the abundance or availability of zinc, and (2) methylation of mercury is controlled, in part, by the activity of cobalt-containing enzymes, and therefore the supply of labile cobalt to the corrinoid-containing enzymes or co-factors responsible for methylation. To attain their goal, they will collect dissolved and particulate samples for trace metals and metalloenzymes from three stations along a biogeochemical gradient in the Tropical North Pacific (along 150 degrees West from 18 degrees North to the equator). Sinking particles from metal clean sediment traps will also be obtained. The samples will also be used to carry out shipboard incubation experiments using amendments of metals, metal-chelators, B12, and proteases to examine the sensitivity and metal limitation of heterotrophic, enzymatic degradation of organic matter within the oceanic "Twilight Zone" (100-500 m). This study will result in a novel metaproteomic/metalloenzyme datasets that should provide insights into the biogeochemical cycling of metals, as well as co-limitation of primary productivity and controls on the export of carbon from the photic zone. In addition to the final data being contributed to BCO-DMO, an online metaproteomic data server will be created so the community has access to the raw data files generated by this research.
attribute NC_GLOBAL projects_0_end_date String 2013-08
attribute NC_GLOBAL projects_0_geolocation String Tropical North Pacific along 150 degrees West from 18 degrees North to the equator
attribute NC_GLOBAL projects_0_name String Connecting Trace Elements and Metalloenzymes Across Marine Biogeochemical Gradients
attribute NC_GLOBAL projects_0_project_nid String 2236
attribute NC_GLOBAL projects_0_start_date String 2010-09
attribute NC_GLOBAL projects_1_acronym String ProteOMZ (Proteomics in an Oxygen Minimum Zone)
attribute NC_GLOBAL projects_1_description String From Schmidt Ocean Institute's ProteOMZ Project page:
Rising temperatures, ocean acidification, and overfishing have now gained widespread notoriety as human-caused phenomena that are changing our seas. In recent years, scientists have increasingly recognized that there is yet another ingredient in that deleterious mix: a process called deoxygenation that results in less oxygen available in our seas.
Large-scale ocean circulation naturally results in low-oxygen areas of the ocean called oxygen deficient zones (ODZs). The cycling of carbon and nutrients – the foundation of marine life, called biogeochemistry – is fundamentally different in ODZs than in oxygen-rich areas. Because researchers think deoxygenation will greatly expand the total area of ODZs over the next 100 years, studying how these areas function now is important in predicting and understanding the oceans of the future. This first expedition of 2016 led by Dr. Mak Saito from the Woods Hole Oceanographic Institution (WHOI) along with scientists from University of Maryland Center for Environmental Science, University of California Santa Cruz, and University of Washington aimed to do just that, investigate ODZs.
During the 28 day voyage named “ProteOMZ,” researchers aboard R/V Falkor traveled from Honolulu, Hawaii to Tahiti to describe the biogeochemical processes that occur within this particular swath of the ocean’s ODZs. By doing so, they contributed to our greater understanding of ODZs, gathered a database of baseline measurements to which future measurements can be compared, and established a new methodology that could be used in future research on these expanding ODZs.
attribute NC_GLOBAL projects_1_geolocation String Central Pacific Ocean (Hawaii to Tahiti)
attribute NC_GLOBAL projects_1_name String The ProteOMZ Expedition: Investigating Life Without Oxygen in the Pacific Ocean
attribute NC_GLOBAL projects_1_project_nid String 685696
attribute NC_GLOBAL projects_1_project_website String https://schmidtocean.org/cruise/investigating-life-without-oxygen-in-the-tropical-pacific/#team (external link)
attribute NC_GLOBAL projects_2_acronym String TriCoLim
attribute NC_GLOBAL projects_2_description String NSF abstract:
Marine cyanobacteria are able to use or "fix" atmospheric nitrogen gas, and so supply much of the essential nutrient nitrogen that supports open ocean food chains. Oceanographers have usually thought that the growth of these nitrogen-fixing cyanobacteria is limited at any particular time and place by the supply of either iron, or of phosphorus. Preliminary experiments have shown, though, that these nitrogen fixers instead grow best when both iron and phosphorus are scarce at the same time. In this project, the researchers will use cellular indicators that are specific for iron and phosphorus limitation to determine how important this type of "balanced limitation" of nitrogen-fixing cyanobacteria is in controlling the productivity of ocean food chains in the tropical Atlantic Ocean. Two graduate students will be trained at the University of Southern California (USC) and Woods Hole Oceanographic Institution, as well as a postdoctoral researcher at USC. Educational outreach efforts will take place at a Los Angeles inner city high school with a student body that is over 98% Hispanic and African-American, and with underrepresented undergraduates in the USC Global Environmental Microbiology course. In addition, two Research Experiences for Undergraduates students will be supervised for summer research projects to help them learn about science career options.
The researchers will investigate the biological and biogeochemical consequences of this unique balanced iron/phosphorus-limited phenotype, using both laboratory and fieldwork approaches. During the first year of this project, the nitrogen-fixing cyanobacteria will be cultured under iron and/or phosphorus limitation, followed by application of proteomics and transcriptomics to identify genes that are potential diagnostic biomarkers for iron/phosphorus balanced limitation. Preliminary work has already identified one promising candidate biomarker in one cyanobacterium, an EzrA protein domain that appears to be associated with the cell size decreases seen specifically under balanced limitation, and the researchers have identified numerous other potential candidates for similar biomarkers. During the second year, these new co-limitation biomarkers and others previously validated for iron limitation (IsiB) and phosphorus limitation (SphX) will be used to investigate balanced limitation during a research cruise transecting from relatively high-iron, low-phosphorus North Atlantic waters, to the relatively high-phosphorus, low-iron South Atlantic. This fieldwork component will survey nitrogen fixing cyanobacteria populations across this natural iron/phosphorus gradient for genetic, proteomic, and physiological indicators of balanced limitation, as well as testing their responses to iron and phosphorus manipulations in shipboard incubation experiments. The third year will be devoted to sample analysis, and publications exploring the responses of oceanic nitrogen fixers to simultaneous limitation by both iron and phosphorus.
attribute NC_GLOBAL projects_2_end_date String 2020-02
attribute NC_GLOBAL projects_2_geolocation String Tropical Atlantic
attribute NC_GLOBAL projects_2_name String Collaborative Research: Iron and phosphorus balanced limitation of nitrogen fixation in the oligotrophic ocean
attribute NC_GLOBAL projects_2_project_nid String 724451
attribute NC_GLOBAL projects_2_start_date String 2017-03
attribute NC_GLOBAL projects_3_acronym String PMT Cobalt and Metalloenzymes
attribute NC_GLOBAL projects_3_description String NSF abstract:
Cobalt is important for many forms of marine life, yet it is one of the scarcest nutrients in the sea. Cobalt's oceanic abundance and distribution, along with other scarce nutrients, can influence the growth of microscopic plants (phytoplankton). This in turn can influence carbon cycles in the ocean and atmosphere. Therefore, knowledge of the controls on cobalt's abundance and chemical forms in seawater is a valuable component of our ability to understand the ocean's influence on global carbon cycling. Within phytoplankton and other marine microbes, metals such as cobalt, iron, nickel, and copper are used as critical components of enzymes responsible for key cellular reactions. Since these enzymes require metals to work, they are named metalloenzymes. Participating in a Pacific Ocean cruise from Alaska to Tahiti, this project will study the oceanic distributions of dissolved cobalt and the cellular content of a group of metalloenzymes known to influence biogeochemical cycles. The project will provide scientific impact by creating new knowledge about oceanic micronutrients in regions of economic interest with regard to fisheries and deep-sea mining. Measurement of proteins in the North Pacific will provide data of broad biological and chemical interest and will be made available through a new NSF-funded "EarthCube Ocean Protein Portal" data base. Educational impact will stem from participation of a graduate student and two young technicians, as well as the PI's development of a high school chemistry curriculum for use in two local high schools, thus allowing teachers to include real oceanic and environmental data at their first introduction to chemistry.
Cobalt has a complex biogeochemical cycle. Both its inorganic and organic forms are used by biology in the upper ocean and it is removed from solution by being scavenged in the intermediate and deep ocean. This scavenging removal results in cobalt having the smallest oceanic inventory of any biologically utilized element. Recent studies, however, have found that large dissolved cobalt plumes occur in major oxygen minimum zones due to a combination of less scavenging and additions from sedimentary and remineralization fluxes. The GP15 US GEOTRACES Pacific Meridional Transect (PMT) provides an opportunity to examine the influence of oxygen depletion on cobalt chemistry. Moreover, the study of the protein component of microbial communities using new proteomic techniques will provide evidence of how different major microorganisms respond to the chemical environment (e.g. through transporter production for specific nutrients and micronutrients) as well as the biochemical basis for metal requirements related to the use of specific metalloenzymes. Specifically, the PMT provides an opportunity to confirm that the Pacific oxygen minimum zones contain a large amount of cobalt and to test the hypotheses that simultaneous zinc scarcity could induce wide-scale biochemical substitution of cobalt for zinc in the North Pacific Ocean.
attribute NC_GLOBAL projects_3_end_date String 2019-10
attribute NC_GLOBAL projects_3_geolocation String Laboratory Study and Cultures from Northeast Pacific Line P Transect 48.8167 N 128.667 W
attribute NC_GLOBAL projects_3_name String US GEOTRACES PMT: Cobalt Biogeochemical Cycling and Connections to Metalloenzymes in the Pacific Ocean
attribute NC_GLOBAL projects_3_project_nid String 785826
attribute NC_GLOBAL projects_3_start_date String 2017-11
attribute NC_GLOBAL projects_4_acronym String MM Saito
attribute NC_GLOBAL projects_4_description String In support of obtaining deeper knowledge of major biogeochemically relevant proteins to inform a mechanistic understanding of global marine biogeochemical cycles.
attribute NC_GLOBAL projects_4_end_date String 2019-12
attribute NC_GLOBAL projects_4_name String Marine Microbial Investigator Award: Investigator Mak Saito
attribute NC_GLOBAL projects_4_project_nid String 786672
attribute NC_GLOBAL projects_4_start_date String 2013-05
attribute NC_GLOBAL projects_5_acronym String Cyanobacteria Warming Responses
attribute NC_GLOBAL projects_5_description String NSF abstract:
The oceans absorb much of the heat generated by human activities, and this warming of the surface ocean has consequences for important groups of marine organisms. Marine cyanobacteria are one such key group of organisms, since they supply much of the essential carbon and nitrogen that supports nearly all the rest of the marine food web. Currently, the growth of cyanobacteria is mostly constrained by scarce supplies of the micronutrient element iron, but they are also very sensitive to the ongoing increases in seawater temperature. Preliminary results suggest that warming could partly mitigate the negative effects of iron limitation on marine cyanobacteria. This project examines in depth how these interactions between warming and iron limitation will affect the future ocean carbon and nitrogen cycles, using laboratory culture experiments showing how cyanobacteria respond to simultaneously changing temperature and iron supplies. Both short-term response studies and long-term evolutionary experiments testing for adaptation use a comprehensive set of molecular biology tools targeting genes to proteins. The final goal is to apply the results of these experiments to improve quantitative models predicting how the ocean's carbon and nitrogen cycles, biological productivity, and living resources will respond to a warming future climate. Two graduate students, a postdoc and 3-4 underrepresented undergraduate researchers are supported, and the investigators also mentor summer science interns from largely Hispanic local high schools.
The physiology, biochemistry and biogeography of nitrogen-fixing cyanobacteria and unicellular picocyanobacteria are strongly influenced by temperature, subjecting them to intense selective pressure as the modern ocean steadily warms up. These groups have likewise been rigorously selected under chronic iron (Fe) scarcity, and the availability of this crucial micronutrient is also changing with a shifting climate. This project examines short-term acclimation and long-term evolutionary responses of Fe-stressed marine cyanobacteria to a warmer environment. Preliminary data show that Iron Use Efficiencies (IUE, mols N fixed.hr-1 mol cellular Fe-1) of Fe-limited Trichodesmium increase 4 to 5-fold with a 5oC temperature increase, allowing the cells to much more efficiently leverage scarce available Fe supplies to grow and fix nitrogen. This means that warming can to a large degree mitigate the negative effects of Fe limitation on Trichodesmium, resulting in a modelled 22% increase in global nitrogen fixation by 2100 in a warmer climate. This project aims to uncover the cellular biochemical mechanisms involved in this Fe-limitation/thermal IUE effect in a four-year experimental evolution study of the diazotrophs Trichodesmium and Crocosphaera and the picocyanobacteria Synechococcus and Prochlorococcus, under a multi-variate selection matrix of temperature and Fe availability. The objectives are to 1) Assess the long-term adaptive responses of fitness, IUE and physiology to Fe limitation and warming interactions in these four major cyanobacterial groups; 2) Determine the molecular and biochemical mechanisms behind the surprising Fe/warming interactive effect on IUE using genomics, transcriptomics and quantitative proteomics coupled with 'metalloproteomics' determinations of Fe content in critical proteins; 3) Compare and contrast acclimation and adaptation responses to Fe limitation and warming in key cyanobacteria taxa, and 4) Integrate results using a published biogeochemical modeling approach to assess global consequences for marine productivity and nitrogen fixation. This project offers a mechanistic and predictive understanding of adaptation to Fe and warming co-stressors in a rapidly changing future ocean environment for some of the most important photoautotrophic functional groups in the ocean.
This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.
attribute NC_GLOBAL projects_5_end_date String 2023-03
attribute NC_GLOBAL projects_5_name String Collaborative Research: Evolutionary, biochemical and biogeochemical responses of marine cyanobacteria to warming and iron limitation interactions
attribute NC_GLOBAL projects_5_project_nid String 786679
attribute NC_GLOBAL projects_5_start_date String 2019-04
attribute NC_GLOBAL projects_6_acronym String O2 Min Metalloenzyme
attribute NC_GLOBAL projects_6_description String NSF abstract:
Though scarce and largely insoluble, trace metals are key components of sophisticated enzymes (protein molecules that speed up biochemical reactions) involved in biogeochemical cycles in the dark ocean (below 1000m). For example, metalloenzymes are involved in nearly every reaction in the nitrogen cycle. Yet, despite direct connections between trace metal and nitrogen cycles, the relationship between trace metal distributions and biological nitrogen cycling processes in the dark ocean have rarely been explored, likely due to the technical challenges associated with their study. Availability of the autonomous underwater vehicle (AUV) Clio, a sampling platform capable of collecting high-resolution vertical profile samples for biochemical and microbial measurements by large volume filtration of microbial particulate material, has overcome this challenge. Thus, this research project plans an interdisciplinary chemistry, biology, and engineering effort to test the hypothesis that certain chemical reactions, such as nitrite oxidation, could become limited by metal availability within the upper mesopelagic and that trace metal demands for nitrite-oxidizing bacteria may be increased under low oxygen conditions. Broader impacts of this study include the continued development and application of the Clio Biogeochemical AUV as a community resource by developing and testing its high-resolution and adaptive sampling capabilities. In addition, metaproteomic data will be deposited into the recently launched Ocean Protein Portal to allow oceanographers and the metals in biology community to examine the distribution of proteins and metalloenzymes in the ocean. Undergraduate students will be supported by this project at all three institutions, with an effort to recruit minority students. The proposed research will also be synergistic with the goals of early community-building efforts for a potential global scale microbial biogeochemistry program modeled after the success of the GEOTRACES program, provisionally called "Biogeoscapes: Ocean metabolism and nutrient cycles on a changing planet".
The proposed research project will test the following three hypotheses: (1) the microbial metalloenzyme distribution of the mesopelagic is spatially dynamic in response to environmental gradients in oxygen and trace metals, (2) nitrite oxidation in the Eastern Tropical Pacific Ocean can be limited by iron availability in the upper mesopelagic through an inability to complete biosynthesis of the microbial protein nitrite oxidoreductase, and (3) nitrite-oxidizing bacteria increase their metalloenzyme requirements at low oxygen, impacting the distribution of both dissolved and particulate metals within oxygen minimum zones. One of the challenges to characterizing the biogeochemistry of the mesopelagic ocean is an inability to effectively sample it. As a sampling platform, we will use the novel biogeochemical AUV Clio that enables high-resolution vertical profile samples for biochemical and microbial measurements by large volume filtration of microbial particulate material on a research expedition in the Eastern Tropical Pacific Ocean. Specific research activities will be orchestrated to test the hypotheses. Hypothesis 1 will be explored by comparison of hydrographic, microbial distributions, dissolved and particulate metal data, and metaproteomic results with profile samples collected by Clio. Hypothesis 2 will be tested by incubation experiments using 15NO2- oxidation rates on Clio-collected incubation samples. Hypothesis 3 will be tested by dividing targeted nitrite oxidoreductase protein copies by qPCR (quantitative polymerase chain reaction)-based nitrite oxidizing bacteria abundance (NOB) to determine if cellular copy number varies with oxygen distributions, and by metalloproteomic analyses of NOB cultures. The demonstration of trace metal limitation of remineralization processes, not just primary production, would transform our understanding of the role of metals in biogeochemical cycling and provide new ways with which to interpret sectional data of dissolved and particulate trace metal distributions in the ocean. The idea that oxygen may play a previously underappreciated role in controlling trace metals due not just to metals' physical chemistry, but also from changing biological demand, will improve our ability to predict trace metal distributions in the face of decreasing ocean oxygen content.
This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.
attribute NC_GLOBAL projects_6_end_date String 2022-10
attribute NC_GLOBAL projects_6_geolocation String Eastern Tropical Pacific
attribute NC_GLOBAL projects_6_name String Collaborative Research: Underexplored Connections between Nitrogen and Trace Metal Cycling in Oxygen Minimum Zones Mediated by Metalloenzyme Inventories
attribute NC_GLOBAL projects_6_project_nid String 806565
attribute NC_GLOBAL projects_6_start_date String 2019-11
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL Southernmost_Northing double -3.5
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Nitrite Oxidoreductase targeted metaproteomics from R/V Kilo Moana cruise KM1128 and R/V Falkor cruise FK160115 in the Central Pacific Ocean in 2011 and 2016. NxrA and NxrB peptide concentrations in fmol/L. Peptide names are using the GEOTRACES naming convention (PEP for peptide, full tryptic peptide amino acid sequence, Protein name, Sampling device (=Pump)). Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit. These data were published in Saito et al., 2020 as Supplementary Table 1.
attribute NC_GLOBAL time_coverage_end String 2016-01-27T06:30Z
attribute NC_GLOBAL time_coverage_start String 2011-10-05T20:00Z
attribute NC_GLOBAL title String Nitrite Oxidoreductase targeted metaproteomics from R/V Kilo Moana cruise KM1128 and R/V Falkor cruise FK160115 in the Central Pacific Ocean in 2011 and 2016
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -160.77
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.5
variable Expedition   String  
attribute Expedition bcodmo_name String cruise_id
attribute Expedition description String Expedition (Cruise) identifier
attribute Expedition long_name String Expedition
attribute Expedition units String unitless
variable Station   byte  
attribute Station _FillValue byte 127
attribute Station actual_range byte 1, 8
attribute Station bcodmo_name String station
attribute Station description String Station
attribute Station long_name String Station
attribute Station units String unitless
variable Long   float  
attribute Long _FillValue float NaN
attribute Long actual_range float 140.0, 205.6
attribute Long bcodmo_name String lon_360
attribute Long colorBarMaximum double 180.0
attribute Long colorBarMinimum double -180.0
attribute Long description String Longitude (0 to 360 degrees)
attribute Long long_name String Longitude
attribute Long source_name String Long
attribute Long standard_name String longitude
attribute Long units String decimal degrees
variable longitude   double  
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -160.77, 156.0
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String Longitude (-180 to 180)
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable latitude   double  
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double -3.5, 17.0
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String Lattitude
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable McLane_cast   String  
attribute McLane_cast bcodmo_name String cast
attribute McLane_cast description String McLane pump cast identifier
attribute McLane_cast long_name String Mc Lane Cast
attribute McLane_cast units String unitless
variable McLane_time_local   String  
attribute McLane_time_local bcodmo_name String DateTime
attribute McLane_time_local description String McLane pump date and time (local time zone HST, UTC-10) in format yyyy-mm-ddTHH:MM
attribute McLane_time_local long_name String Mc Lane Time Local
attribute McLane_time_local source_name String McLane_time_local
attribute McLane_time_local time_precision String 1970-01-01T00:00Z
attribute McLane_time_local units String unitless
variable time   double  
attribute time _CoordinateAxisType String Time
attribute time actual_range double 1.3178448E9, 1.4538762E9
attribute time axis String T
attribute time bcodmo_name String ISO_DateTime_UTC
attribute time description String McLane pump date and time (time zone UTC) in ISO 8601 format yyyy-mm-ddTHH:MMZ
attribute time ioos_category String Time
attribute time long_name String Mc Lane ISO Date Time UTC
attribute time nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/DTUT8601/ (external link)
attribute time standard_name String time
attribute time time_origin String 01-JAN-1970 00:00:00
attribute time time_precision String 1970-01-01T00:00Z
attribute time units String seconds since 1970-01-01T00:00:00Z
variable depth   double  
attribute depth _CoordinateAxisType String Height
attribute depth _CoordinateZisPositive String down
attribute depth _FillValue double NaN
attribute depth actual_range double 20.0, 1250.0
attribute depth axis String Z
attribute depth bcodmo_name String depth
attribute depth colorBarMaximum double 8000.0
attribute depth colorBarMinimum double -8000.0
attribute depth colorBarPalette String TopographyDepth
attribute depth description String Sample depth
attribute depth ioos_category String Location
attribute depth long_name String Depth
attribute depth nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/DEPH/ (external link)
attribute depth positive String down
attribute depth standard_name String depth
attribute depth units String m
variable PEP_LANQVALLDSIIR_NxrA_PUMP   float  
attribute PEP_LANQVALLDSIIR_NxrA_PUMP _FillValue float NaN
attribute PEP_LANQVALLDSIIR_NxrA_PUMP actual_range float 0.0, 73.17
attribute PEP_LANQVALLDSIIR_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_LANQVALLDSIIR_NxrA_PUMP description String Peptide amino acid sequence concentration [LANQVALLDSIIR] from protein NxrA from McLane pump samples.
attribute PEP_LANQVALLDSIIR_NxrA_PUMP long_name String PEP LANQVALLDSIIR Nxr A PUMP
attribute PEP_LANQVALLDSIIR_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG   byte  
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG description String Quality flag for column PEP_LANQVALLDSIIR_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG long_name String PEP LANQVALLDSIIR Nxr A PUMP FLAG
attribute PEP_LANQVALLDSIIR_NxrA_PUMP_FLAG units String unitless
variable PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP   float  
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP _FillValue float NaN
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP actual_range float 0.0, 288.52
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP description String Peptide amino acid sequence concentration [GGTLVAVAPEYNPPATK] from protein NxrA from McLane pump samples.
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP long_name String PEP GGTLVAVAPEYNPPATK Nxr A PUMP
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG   byte  
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG description String Quality flag for column PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG long_name String PEP GGTLVAVAPEYNPPATK Nxr A PUMP FLAG
attribute PEP_GGTLVAVAPEYNPPATK_NxrA_PUMP_FLAG units String unitless
variable PEP_MTIQWGK_NxrA_PUMP   float  
attribute PEP_MTIQWGK_NxrA_PUMP _FillValue float NaN
attribute PEP_MTIQWGK_NxrA_PUMP actual_range float 0.03, 108.11
attribute PEP_MTIQWGK_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_MTIQWGK_NxrA_PUMP description String Peptide amino acid sequence concentration [MTIQWGK] from protein NxrA from McLane pump samples.
attribute PEP_MTIQWGK_NxrA_PUMP long_name String PEP MTIQWGK Nxr A PUMP
attribute PEP_MTIQWGK_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_MTIQWGK_NxrA_PUMP_FLAG   byte  
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG description String Quality flag for column PEP_MTIQWGK_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG long_name String PEP MTIQWGK Nxr A PUMP FLAG
attribute PEP_MTIQWGK_NxrA_PUMP_FLAG units String unitless
variable PEP_LHPDDFIPGYK_NxrA_PUMP   float  
attribute PEP_LHPDDFIPGYK_NxrA_PUMP _FillValue float NaN
attribute PEP_LHPDDFIPGYK_NxrA_PUMP actual_range float 0.06, 227.77
attribute PEP_LHPDDFIPGYK_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_LHPDDFIPGYK_NxrA_PUMP description String Peptide amino acid sequence concentration [LHPDDFIPGYK] from protein NxrA from McLane pump samples.
attribute PEP_LHPDDFIPGYK_NxrA_PUMP long_name String PEP LHPDDFIPGYK Nxr A PUMP
attribute PEP_LHPDDFIPGYK_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG   byte  
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG description String Quality flag for column PEP_LHPDDFIPGYK_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG long_name String PEP LHPDDFIPGYK Nxr A PUMP FLAG
attribute PEP_LHPDDFIPGYK_NxrA_PUMP_FLAG units String unitless
variable PEP_ALIVNTPR_NxrA_PUMP   float  
attribute PEP_ALIVNTPR_NxrA_PUMP _FillValue float NaN
attribute PEP_ALIVNTPR_NxrA_PUMP actual_range float 0.0, 391.34
attribute PEP_ALIVNTPR_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_ALIVNTPR_NxrA_PUMP description String Peptide amino acid sequence concentration [ALIVNTPR] from protein NxrA from McLane pump samples.
attribute PEP_ALIVNTPR_NxrA_PUMP long_name String PEP ALIVNTPR Nxr A PUMP
attribute PEP_ALIVNTPR_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_ALIVNTPR_NxrA_PUMP_FLAG   byte  
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG description String Quality flag for column PEP_ALIVNTPR_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG long_name String PEP ALIVNTPR Nxr A PUMP FLAG
attribute PEP_ALIVNTPR_NxrA_PUMP_FLAG units String unitless
variable PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP   float  
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP _FillValue float NaN
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP actual_range float 0.0, 85.94
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP description String Peptide amino acid sequence concentration [TQFYNDEPEAIEYGENFIVHR] from protein NxrA from McLane pump samples.
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP long_name String PEP TQFYNDEPEAIEYGENFIVHR Nxr A PUMP
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG   byte  
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG description String Quality flag for column PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG long_name String PEP TQFYNDEPEAIEYGENFIVHR Nxr A PUMP FLAG
attribute PEP_TQFYNDEPEAIEYGENFIVHR_NxrA_PUMP_FLAG units String unitless
variable PEP_GLWEPVR_NxrA_PUMP   float  
attribute PEP_GLWEPVR_NxrA_PUMP _FillValue float NaN
attribute PEP_GLWEPVR_NxrA_PUMP actual_range float 0.0, 174.07
attribute PEP_GLWEPVR_NxrA_PUMP bcodmo_name String amino_conc
attribute PEP_GLWEPVR_NxrA_PUMP description String Peptide amino acid sequence concentration [GLWEPVR] from protein NxrA from McLane pump samples.
attribute PEP_GLWEPVR_NxrA_PUMP long_name String PEP GLWEPVR Nxr A PUMP
attribute PEP_GLWEPVR_NxrA_PUMP units String femtomoles per liter (fmol/L)
variable PEP_GLWEPVR_NxrA_PUMP_FLAG   byte  
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG _FillValue byte 127
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG actual_range byte 1, 6
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG description String Quality flag for column PEP_GLWEPVR_NxrA_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG long_name String PEP GLWEPVR Nxr A PUMP FLAG
attribute PEP_GLWEPVR_NxrA_PUMP_FLAG units String unitless
variable PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP   float  
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP _FillValue float NaN
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP actual_range float 0.0, 119.69
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP bcodmo_name String amino_conc
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP description String Peptide amino acid sequence concentration [AIHGVYEGVTIFEAPAK] from protein NxrB from McLane pump samples.
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP long_name String PEP AIHGVYEGVTIFEAPAK Nxr B PUMP
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP units String femtomoles per liter (fmol/L)
variable PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG   byte  
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG _FillValue byte 127
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG actual_range byte 1, 6
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG description String Quality flag for column PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG long_name String PEP AIHGVYEGVTIFEAPAK Nxr B PUMP FLAG
attribute PEP_AIHGVYEGVTIFEAPAK_NxrB_PUMP_FLAG units String unitless
variable PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP   float  
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP _FillValue float NaN
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP actual_range float 0.0, 416.82
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP bcodmo_name String amino_conc
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP colorBarMaximum double 150.0
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP colorBarMinimum double 0.0
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP description String Peptide amino acid sequence concentration [IGLNQQAVGYVPTDEEWR] from protein NxrB from McLane pump samples.
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP long_name String PEP IGLNQQAVGYVPTDEEWR Nxr B PUMP
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP units String femtomoles per liter (fmol/L)
variable PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG   byte  
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG _FillValue byte 127
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG actual_range byte 1, 6
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG description String Quality flag for column PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG long_name String PEP IGLNQQAVGYVPTDEEWR Nxr B PUMP FLAG
attribute PEP_IGLNQQAVGYVPTDEEWR_NxrB_PUMP_FLAG units String unitless
variable PEP_FPNFGEDTAHGR_NxrB_PUMP   float  
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP _FillValue float NaN
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP actual_range float 0.01, 135.91
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP bcodmo_name String amino_conc
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP description String Peptide amino acid sequence concentration [FPNFGEDTAHGR] from protein NxrB from McLane pump samples.
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP long_name String PEP FPNFGEDTAHGR Nxr B PUMP
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP units String femtomoles per liter (fmol/L)
variable PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG   byte  
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG _FillValue byte 127
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG actual_range byte 1, 6
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG description String Quality flag for column PEP_FPNFGEDTAHGR_NxrB_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG long_name String PEP FPNFGEDTAHGR Nxr B PUMP FLAG
attribute PEP_FPNFGEDTAHGR_NxrB_PUMP_FLAG units String unitless
variable PEP_ICNHCTYPGCLAACPR_NxrB_PUMP   float  
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP _FillValue float NaN
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP actual_range float 0.01, 238.41
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP bcodmo_name String amino_conc
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP description String Peptide amino acid sequence concentration [ICNHCTYPGCLAACPR] from protein NxrB from McLane pump samples.
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP long_name String PEP ICNHCTYPGCLAACPR Nxr B PUMP
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP units String femtomoles per liter (fmol/L)
variable PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG   byte  
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG _FillValue byte 127
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG actual_range byte 1, 6
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG description String Quality flag for column PEP_ICNHCTYPGCLAACPR_NxrB_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG long_name String PEP ICNHCTYPGCLAACPR Nxr B PUMP FLAG
attribute PEP_ICNHCTYPGCLAACPR_NxrB_PUMP_FLAG units String unitless
variable PEP_DLLGILQLFR_NxrB_PUMP   float  
attribute PEP_DLLGILQLFR_NxrB_PUMP _FillValue float NaN
attribute PEP_DLLGILQLFR_NxrB_PUMP actual_range float 0.0, 90.07
attribute PEP_DLLGILQLFR_NxrB_PUMP bcodmo_name String amino_conc
attribute PEP_DLLGILQLFR_NxrB_PUMP description String Peptide amino acid sequence concentration [DLLGILQLFR] from protein NxrB from McLane pump samples.
attribute PEP_DLLGILQLFR_NxrB_PUMP long_name String PEP DLLGILQLFR Nxr B PUMP
attribute PEP_DLLGILQLFR_NxrB_PUMP units String femtomoles per liter (fmol/L)
variable PEP_DLLGILQLFR_NxrB_PUMP_FLAG   byte  
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG _FillValue byte 127
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG actual_range byte 1, 6
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG bcodmo_name String q_flag
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG colorBarMaximum double 150.0
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG colorBarMinimum double 0.0
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG description String Quality flag for column PEP_DLLGILQLFR_NxrB_PUMP. Quality flags follow each peptide column and use the GEOTRACES convention of 1 for good, 6 for below detection limit.
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG long_name String PEP DLLGILQLFR Nxr B PUMP FLAG
attribute PEP_DLLGILQLFR_NxrB_PUMP_FLAG units String unitless
variable NxrA_mean   float  
attribute NxrA_mean _FillValue float NaN
attribute NxrA_mean actual_range float 0.0162, 162.8059
attribute NxrA_mean bcodmo_name String mean
attribute NxrA_mean description String Average of NxrA peptides
attribute NxrA_mean long_name String Nxr A Mean
attribute NxrA_mean units String femtomoles per liter (fmol/L)
variable NxrA_std   float  
attribute NxrA_std _FillValue float NaN
attribute NxrA_std actual_range float 0.0223, 137.441
attribute NxrA_std bcodmo_name String standard deviation
attribute NxrA_std description String Standard Deviation of NxrA peptides
attribute NxrA_std long_name String Nxr A Std
attribute NxrA_std units String femtomoles per liter (fmol/L)
variable NxrB_mean   float  
attribute NxrB_mean _FillValue float NaN
attribute NxrB_mean actual_range float 0.0113, 155.0874
attribute NxrB_mean bcodmo_name String mean
attribute NxrB_mean description String Average of NxrB peptides
attribute NxrB_mean long_name String Nxr B Mean
attribute NxrB_mean units String femtomoles per liter (fmol/L)
variable NxrB_std   float  
attribute NxrB_std _FillValue float NaN
attribute NxrB_std actual_range float 0.0045, 168.6216
attribute NxrB_std bcodmo_name String standard deviation
attribute NxrB_std description String Standard Deviation of NxrB peptides
attribute NxrB_std long_name String NXR B STD
attribute NxrB_std units String femtomoles per liter (fmol/L)
variable NxrAB_mean   float  
attribute NxrAB_mean _FillValue float NaN
attribute NxrAB_mean actual_range float 0.0137, 145.8915
attribute NxrAB_mean bcodmo_name String mean
attribute NxrAB_mean description String Average of NxrA and NxrB averages
attribute NxrAB_mean long_name String Nxr AB Mean
attribute NxrAB_mean units String femtomoles per liter (fmol/L)
variable Fe_as_NxrAB   double  
attribute Fe_as_NxrAB _FillValue double NaN
attribute Fe_as_NxrAB actual_range double 3.151E-4, 3.3555045
attribute Fe_as_NxrAB bcodmo_name String Fe
attribute Fe_as_NxrAB description String Concentration of Fe within NxrAB
attribute Fe_as_NxrAB long_name String Fe As Nxr AB
attribute Fe_as_NxrAB units String picomoles per liter (pmol/L)

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.


 
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