Summary of Study ST002539

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001635. The data can be accessed directly via it's Project DOI: 10.21228/M8C42F This work is supported by NIH grant, U2C- DK119886.

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This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST002539
Study TitleMicrobial metabolomic responses to changes in temperature and salinity along the western Antarctic Peninsula.
Study TypeStudy of particulate metabolites in phytoplankton and sea-ice algae along the Western Antarctic Peninsula
Study SummarySeasonal cycles within the marginal ice zones in polar regions include large shifts in temperature and salinity that strongly influence microbial abundance and physiology. However, the combined effects of concurrent temperature and salinity change on microbial community structure and biochemical composition during transitions between seawater and sea ice are not well understood. Coastal marine communities along the western Antarctic Peninsula were sampled and surface seawater was incubated at combinations of temperature and salinity mimicking the formation (cold, salty) and melting (warm, fresh) of sea ice to evaluate how these factors may shape community composition and particulate metabolite pools during seasonal transitions. Bacterial and algal community structures were tightly coupled to each other and distinct across sea-ice, seawater, and sea-ice-meltwater field samples, with unique metabolite profiles in each habitat. During short-term (approximately 10-day) incubations of seawater microbial communities under different temperature and salinity conditions, community compositions changed minimally while metabolite pools shifted greatly, strongly accumulating compatible solutes like proline and glycine betaine under cold and salty conditions. Lower salinities reduced total metabolite concentrations in particulate matter, which may indicate a release of metabolites into the labile dissolved organic matter pool. Low salinity also increased acylcarnitine concentrations in particulate matter, suggesting a potential for fatty acid degradation and reduced nutritional value at the base of the food web during freshening. Our findings have consequences for food web dynamics, microbial interactions, and carbon cycling as polar regions undergo rapid climate change.
Institute
University of Washington, School of Oceanography
DepartmentSchool of Oceanography
LaboratoryYoung Lab
Last NameDawson
First NameHannah
Address1501 NE Boat St, Seattle, WA, 98195, USA
Emailhmdawson@uw.edu
Phone5404547754
Submit Date2023-03-27
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2023-05-25
Release Version1
Hannah Dawson Hannah Dawson
https://dx.doi.org/10.21228/M8C42F
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR001635
Project DOI:doi: 10.21228/M8C42F
Project Title:Microbial metabolomic responses to changes in temperature and salinity along the western Antarctic Peninsula.
Project Type:Marine Metabolomics
Project Summary:Seasonal cycles within the marginal ice zones in polar regions include large shifts in temperature and salinity that strongly influence microbial abundance and physiology. However, the combined effects of concurrent temperature and salinity change on microbial community structure and biochemical composition during transitions between seawater and sea ice are not well understood. Coastal marine communities along the western Antarctic Peninsula were sampled and surface seawater was incubated at combinations of temperature and salinity mimicking the formation (cold, salty) and melting (warm, fresh) of sea ice to evaluate how these factors may shape community composition and particulate metabolite pools during seasonal transitions. Bacterial and algal community structures were tightly coupled to each other and distinct across sea-ice, seawater, and sea-ice-meltwater field samples, with unique metabolite profiles in each habitat. During short-term (approximately 10-day) incubations of seawater microbial communities under different temperature and salinity conditions, community compositions changed minimally while metabolite pools shifted greatly, strongly accumulating compatible solutes like proline and glycine betaine under cold and salty conditions. Lower salinities reduced total metabolite concentrations in particulate matter, which may indicate a release of metabolites into the labile dissolved organic matter pool. Low salinity also increased acylcarnitine concentrations in particulate matter, suggesting a potential for fatty acid degradation and reduced nutritional value at the base of the food web during freshening. Our findings have consequences for food web dynamics, microbial interactions, and carbon cycling as polar regions undergo rapid climate change.
Institute:University of Washington, School of Oceanography
Department:School of Oceanography
Laboratory:Young Lab
Last Name:Dawson
First Name:Hannah
Address:1501 NE Boat St, Seattle, WA, 98195, USA
Email:hmdawson@uw.edu
Phone:5404547754
Funding Source:National Science Foundation
Publications:Dawson et al., in review ISME Journal 2023

Subject:

Subject ID:SU002639
Subject Type:Water sample

Factors:

Subject type: Water sample; Subject species: - (Factor headings shown in green)

mb_sample_id local_sample_id Sampling_Date Latitude Longitude sample_vol_filtered_L
SA255475SW_12_C11/12/2018 64.78 64.07 1.9
SA255476SW_12_A11/12/2018 64.78 64.07 2.25
SA255477SW_12_B11/12/2018 64.78 64.07 2.75
SA255478Sea ice_311/14/2018 NA NA NA
SA255479SW_15_B11/15/2018 64.78 64.07 2.04
SA255480SW_15_C11/15/2018 64.78 64.07 2.095
SA255481SW_15_A11/15/2018 64.78 64.07 2.2
SA255482SW_17_A11/17/2018 64.78 64.07 1.325
SA255483SW_17_B11/17/2018 64.78 64.07 1.325
SA255484SW_17_C11/17/2018 64.78 64.07 1.64
SA255485SW_19_A11/19/2018 64.78 64.07 1.04
SA255486SW_19_B11/19/2018 64.78 64.07 1.15
SA255487SW_19_C11/19/2018 64.78 64.07 1.5
SA255488Sea ice_1_A11/19/2018 NA NA 0.25
SA255489Sea ice_1_B11/19/2018 NA NA 0.5
SA255490Sea ice_1_C11/19/2018 NA NA 0.5
SA255491Meltwater_T-S_A11/20/2018 64.78 64.07 0.6
SA255492Meltwater_T-S_C11/20/2018 64.78 64.07 0.6
SA255493SW_T-S_B11/20/2018 64.78 64.07 0.62
SA255494SW_T-S_A11/20/2018 64.78 64.07 0.62
SA255495Meltwater_T-S_B11/20/2018 64.78 64.07 0.62
SA255496SW_T-S_C11/20/2018 64.78 64.07 0.78
SA255497Sea ice_211/20/2018 NA NA 0.62
SA255498Sea ice_T-S_A11/21/2018 64.78 64.07 0.44
SA255499Sea ice_T-S_C11/21/2018 64.78 64.07 0.5
SA255500Sea ice_T-S_B11/21/2018 64.78 64.07 0.58
SA255501Meltwater_A11/5/2018 64.78 64.05 0.725
SA255502Meltwater_C11/5/2018 64.78 64.05 1.02
SA255503Meltwater_B11/5/2018 64.78 64.05 1.105
SA255504SW_08_D11/8/2018 64.78 64.07 2.205
SA255505SW_08_E11/8/2018 64.78 64.07 2.54
SA255506SW_08_C11/8/2018 64.78 64.07 3
SA255507SW_08_A11/8/2018 64.78 64.07 3.1
SA255508SW_08_B11/8/2018 64.78 64.07 3.3
SA255509Smp_Ev51Slush_ANA NA NA 0.2
SA255510Blk_FilterBlk50_ANA NA NA 0.44
SA255511Blk_FilterBlk20_ANA NA NA 0.45
SA255512Blk_FilterBlk35_ANA NA NA 0.46
SA255513Blk_FilterBlkFSWB3_ANA NA NA 0.775
SA255514Blk_FilterBlkFSWB2_CNA NA NA 0.81
SA255515Blk_FilterBlkFSWB3_CNA NA NA 0.895
SA255516Blk_FilterBlkFSWB3_BNA NA NA 0.91
SA255517Blk_FilterBlkFSWB2_ANA NA NA 0.96
SA255518Blk_FilterBlkFSWB5_ANA NA NA 0.975
SA255519Blk_FilterBlkFSWEvX_ANA NA NA 1
SA255520Blk_FilterBlkFSWB2_BNA NA NA 1.055
SA255521Blk_FilterBlkFSWB5_BNA NA NA 1.15
SA255522Blk_FilterBlkFSWB5_CNA NA NA 1.42
SA255523Smp_EvXSW_ANA NA NA 1.99
SA255524Smp_Ev60SW_ANA NA NA 3
SA255525Smp_Ev15SW_ANA NA NA 3.6
SA255526Std_4uMStdsMix2InH2O_1NA NA NA NA
SA255527Std_4uMStdsMix1InMatrix_1NA NA NA NA
SA255528Std_4uMStdsMix1InMatrix_2NA NA NA NA
SA255529Std_4uMStdsMix2InMatrix_1NA NA NA NA
SA255530Std_H2OinMatrix_2NA NA NA NA
SA255531Poo_TruePooAnt18_Full2NA NA NA NA
SA255532Std_H2OinMatrix_1NA NA NA NA
SA255533Std_4uMStdsMix2InMatrix_2NA NA NA NA
SA255534Std_4uMStdsMix1InH2O_2NA NA NA NA
SA255535Std_4uMStdsMix2InH2O_2NA NA NA NA
SA255536Poo_TruePooAnt18_Full3aNA NA NA NA
SA255537Poo_TruePooAnt18_Full3NA NA NA NA
SA255538Poo_TruePooAnt18_Half2NA NA NA NA
SA255539Poo_TruePooAnt18_Full1NA NA NA NA
SA255540Poo_TruePooAnt18_Half3NA NA NA NA
SA255541Poo_TruePooAnt18_Full4NA NA NA NA
SA255542Poo_TruePooAnt18_Half1NA NA NA NA
SA255543Poo_TruePooAnt18_Half4NA NA NA NA
SA255544Poo_TruePooAnt18_Half3aNA NA NA NA
SA255545Std_4uMStdsMix1InH2O_1NA NA NA NA
Showing results 1 to 71 of 71

Collection:

Collection ID:CO002632
Collection Summary:Samples for particulate metabolites from cruise B234P were collected from Palmer Station from November 5 to November 21 2018, all at <1 m. At each sampling date, triplicate filters were collected using polycarbonate carboys. For sea-ice cores, the bottom 5-cm sections were placed in polycarbonate tubs and allowed to melt at 4°C into filtered seawater before collection. Samples (~0.2-3L) were collected into polycarbonate carboys, filtered onto 147 mm 0.2 μm PTFE filters using peristaltic pumps, polycarbonate filter holders, and Masterflex PharMed BPT tubing (Cole-Parmer). Filters were flash frozen in liquid nitrogen and stored at -80°C until extraction. Blank PTFE filters were extracted alongside samples as methodological blanks.
Sample Type:Suspended Marine Particulate Matter
Storage Conditions:Described in summary

Treatment:

Treatment ID:TR002651
Treatment Summary:On 12th November 2018 (sample SW_12), additional seawater was collected for incubation experiments that simulated temperature(T)-salinity(S) conditions of sea-ice meltwater (3˚C and salinity 21, designated Meltwater_T-S), ambient seawater (0˚C and salinity 35, SW_T-S), and sea ice (3˚C and salinity 52, Sea ice_T-S) in triplicate. All other samples received no treatment and were samples of the natural marine microbial population in the surface ocean and sea ice along the western Antarctic Peninsula.

Sample Preparation:

Sampleprep ID:SP002645
Sampleprep Summary:Each sample was extracted using a modified Bligh-Dyer extraction. Briefly, filters were put into 15 mL teflon centrifuge tubes containing a mixture of 100 µm and 400 µm silica beads. Heavy isotope-labeled internal standards were added along with ~2 mL of cold aqueous solvent (50:50 methanol:water) and ~3 mL of cold organic solvent (dichloromethane). The samples were shaken on a FastPrep-24 Homogenizer for 30 seconds and chilled in a -20 °C freezer repeatedly for three cycles of bead-beating and a total of 30 minutes of chilling. The organic and aqueous layers were separated by spinning samples in a centrifuge at 4,300 rpm for 2 minutes at 4 °C. The aqueous layer was removed to a new glass centrifuge tube. The remaining organic fraction was rinsed three more times with additions of 1 to 2 mL of 50:50 methanol:water. All aqueous rinses were combined for each sample and dried down under N2 gas. The remaining organic layer was transferred into a clean glass centrifuge tube and the remaining bead beating tube was rinsed two more times with cold organic solvent. The combined organic rinses were centrifuged, transferred to a new tube, and dried under N2 gas. Dried aqueous fractions were re-dissolved in 380 µL of water. Dried organic fractions were re-dissolved in 380 µL of 1:1 water:acetonitrile. 20 µL of isotope-labeled injection standards in water were added to both fractions. Blank filters were extracted alongside samples as methodological blanks.
Processing Storage Conditions:On ice
Extraction Method:Bligh-Dyer
Extract Storage:-80℃

Combined analysis:

Analysis ID AN004181 AN004182 AN004183 AN004184
Analysis type MS MS MS MS
Chromatography type HILIC HILIC Reversed phase Reversed phase
Chromatography system Waters Acquity I-Class Waters Acquity I-Class Waters Acquity I-Class Waters Acquity I-Class
Column SeQuant ZIC- pHILIC (150 x 2.1mm,5um) SeQuant ZIC- pHILIC (150 x 2.1mm,5um) Waters ACQUITY UPLC CSH C18 (150 x 2.1mm,1.7um) Waters ACQUITY UPLC HSS CN (100 x 2.1mm,1.8um)
MS Type ESI ESI ESI ESI
MS instrument type Orbitrap Orbitrap Orbitrap Orbitrap
MS instrument name Thermo Q Exactive HF hybrid Orbitrap Thermo Q Exactive HF hybrid Orbitrap Thermo Q Exactive HF hybrid Orbitrap Thermo Q Exactive HF hybrid Orbitrap
Ion Mode POSITIVE NEGATIVE POSITIVE NEGATIVE
Units Estimated metabolite carbon concentration (nmol C per L) Estimated metabolite carbon concentration (nmol C per L) Estimated metabolite carbon concentration per particulate carbon (nmol C per umol C) Estimated metabolite carbon concentration (nmol C per L)

Chromatography:

Chromatography ID:CH003098
Chromatography Summary:See attached summary.
Instrument Name:Waters Acquity I-Class
Column Name:SeQuant ZIC- pHILIC (150 x 2.1mm,5um)
Column Temperature:30
Flow Gradient:100% B for 2 minutes, ramped to 64% A over 18 minutes, ramped up to 100% A over 1 minute, held at 100% A for 7 minutes, and equilibrated at 100% B for 22 minutes (total time is 50 minutes)
Flow Rate:0.15 mL/min
Solvent A:10mM ammonium carbonate;85% water/15% acetonitrile
Solvent B:10mM ammonium carbonate;85% acetonitrile/15% water
Chromatography Type:HILIC
  
Chromatography ID:CH003099
Chromatography Summary:See attached summary.
Instrument Name:Waters Acquity I-Class
Column Name:Waters ACQUITY UPLC CSH C18 (150 x 2.1mm,1.7um)
Column Temperature:65
Flow Gradient:Initial conditions were 90% A and 10% B. The column was ramped to 80% B over 33 minutes, ramped up to 90% B over 12 minutes, held at 90% B for 1 minute, and equilibrated to 90%A and 10% B for 6 minutes (total time is 52 minutes).
Flow Rate:0.45 mL/min
Solvent A:10mM ammonium formate; 60% acetonitrile/40% water; 0.1% formic acid
Solvent B:10mM ammonium formate; 90% isopropyl alcohol/10% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase
  
Chromatography ID:CH003100
Chromatography Summary:See attached summary.
Instrument Name:Waters Acquity I-Class
Column Name:Waters ACQUITY UPLC HSS CN (100 x 2.1mm,1.8um)
Column Temperature:35
Flow Gradient:The column was held at 5% B for 2 minutes, ramped to 100% B over 18 minutes, held at 100% B for 2 minutes, and equilibrated at 5% B for 5 minutes (total run time is 25 minutes)
Flow Rate:0.4 mL/min
Solvent A:0.1% formic acid in water
Solvent B:0.1% formic acid in acetonitrile
Chromatography Type:Reversed phase

MS:

MS ID:MS003928
Analysis ID:AN004181
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:See protocol.
Ion Mode:POSITIVE
Analysis Protocol File:Ingalls_Metabolomics_MS_PalmerStation.txt
  
MS ID:MS003929
Analysis ID:AN004182
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:See protocol.
Ion Mode:NEGATIVE
Analysis Protocol File:Ingalls_Metabolomics_MS_PalmerStation.txt
  
MS ID:MS003930
Analysis ID:AN004183
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:See protocol.
Ion Mode:POSITIVE
Analysis Protocol File:Ingalls_Metabolomics_MS_PalmerStation.txt
  
MS ID:MS003931
Analysis ID:AN004184
Instrument Name:Thermo Q Exactive HF hybrid Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:See protocol.
Ion Mode:NEGATIVE
Analysis Protocol File:Ingalls_Metabolomics_MS_PalmerStation.txt
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