URLhttps://www.bco-dmo.org/dataset/812240
Download URLhttps://www.bco-dmo.org/dataset/812240/data/download
Media Typetext/tab-separated-values
CreatedMay 20, 2020
ModifiedJuly 9, 2020
StateFinal no updates expected
Brief DescriptionM. jannaschii high/low H2: isotopes

Instruments

Gas Chromatograph Mass Spectrometer [Gas Chromatograph Mass Spectrometer]
Details
Instance Description (Gas Chromatograph Mass Spectrometer)

For or identification and abundance of carbon isotopes. Agilent Technologies 5975 inert XL Mass Selective Detector after separation on an Agilent J&W GC HP-5MS UI capillary column (30 m × 0.25 mm i.d., 0.25 µm film thickness, P/N 19091S – 433UIE)

Instruments separating gases, volatile substances or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay by a mass spectrometer.

Thermo Scientific Trace 1310 Gas Chromatograph-IsolinkII-Delta V Isotope Ratio Mass Spectrometer [Gas Chromatograph Mass Spectrometer]
Details
Instance Description (Thermo Scientific Trace 1310 Gas Chromatograph-IsolinkII-Delta V Isotope Ratio Mass Spectrometer)

For measuring isotopic composition of biomarkers, including amino acid and lipids: Thermo Scientific Trace 1310 Gas Chromatograph-IsolinkII-Delta V Isotope Ratio Mass Spectrometer equipped with an Agilent DB-5 fused silica column (30 m × 0.25 mm i.d., 0.25 µm film thickness) and a Gerstel CIS – 6 inlet.

Instruments separating gases, volatile substances or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay by a mass spectrometer.

Thermo Scientific GasBench- Delta V Isotope Radio Mass Spectrometer [Isotope-ratio Mass Spectrometer]
Details
Instance Description (Thermo Scientific GasBench- Delta V Isotope Radio Mass Spectrometer)

For measuring isotopic composition of dissolved inorganic carbon.

The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer).

Parameters

Experiment [treatment]
Details
Experiment
Experiment description: either high (abundant) or low (limited) hydrogen

Experimental conditions applied to experimental units.  In comparative experiments, members of the complementary group, the control group, receive either no treatment or a standard treatment.

Culture_ID [sample]
Details
Culture_ID
culture identifier

unique sample identification or number; any combination of alpha numeric characters; precise definition is file dependent

d13C_ppt_Ala [amino_conc]
Details
d13C_ppt_Ala
13C isotopic ratio of alanine

amino acid concentration

d13C_ppt_Gly [amino_conc]
Details
d13C_ppt_Gly
13C isotopic ratio of glycine

amino acid concentration

d13C_ppt_Thr [amino_conc]
Details
d13C_ppt_Thr
13C isotopic ratio of threonine

amino acid concentration

d13C_ppt_Ser [amino_conc]
Details
d13C_ppt_Ser
13C isotopic ratio of serine

amino acid concentration

d13C_ppt_Val [amino_conc]
Details
d13C_ppt_Val
13C isotopic ratio of valine

amino acid concentration

d13C_ppt_Leu [amino_conc]
Details
d13C_ppt_Leu
13C isotopic ratio of leucine

amino acid concentration

d13C_ppt_Iso [amino_conc]
Details
d13C_ppt_Iso
13C isotopic ratio of isoleucine

amino acid concentration

d13C_ppt_Pro [amino_conc]
Details
d13C_ppt_Pro
13C isotopic ratio of proline

amino acid concentration

d13C_ppt_Glu [amino_conc]
Details
d13C_ppt_Glu
13C isotopic ratio of glu

amino acid concentration

d13C_ppt_Phe [amino_conc]
Details
d13C_ppt_Phe
13C isotopic ratio of phenylalanine

amino acid concentration

Weighted_Avg_d13C_THAA_ppt [amino_conc]
Details
Weighted_Avg_d13C_THAA_ppt
Weighted isotopic ratio of each amino acid as a toal

amino acid concentration

d13C_ppt_Sq_3 [lipids_biota]
Details
d13C_ppt_Sq_3
13C isotopic ratio of squalenoid with three double bonds

lipid concentration in biota

d13C_ppt_Sq_4 [lipids_biota]
Details
d13C_ppt_Sq_4
13C isotopic ratio of squalenoid with four double bonds

lipid concentration in biota

d13C_ppt_Sq_5 [lipids_biota]
Details
d13C_ppt_Sq_5
13C isotopic ratio of squalenoid with five double bonds

lipid concentration in biota

d13C_ppt_Sq_6 [lipids_biota]
Details
d13C_ppt_Sq_6
13C isotopic ratio of squalene

lipid concentration in biota

Weighted_Avg_ppt_d13C_Sq [lipids_biota]
Details
Weighted_Avg_ppt_d13C_Sq
weighted average of the isotopic composition of squalenoids

lipid concentration in biota

DIC_mM_To [DIC]
Details
DIC_mM_To
Concentration of dissolved inorganic carbon at the start of the experiment

Dissolved Inorganic Carbon

DIC_mM_Tf [DIC]
Details
DIC_mM_Tf
Concentration of dissolved inorganic carbon at the end of the experiment

Dissolved Inorganic Carbon

TFAA_uM_To [amino_conc]
Details
TFAA_uM_To
Concentration of total free amino acids at the start of the experiment

amino acid concentration

TFAA_uM_Tf [amino_conc]
Details
TFAA_uM_Tf
Concentration of total free amino acids at the end of the experiment

amino acid concentration

THAA_uM_To [amino_conc]
Details
THAA_uM_To
Concentration of total hydrolizable amino acids at the start of the experiment

amino acid concentration

THAA_uM_Tf [amino_conc]
Details
THAA_uM_Tf
Concentration of total hydrolizable amino acids at the end of the experiment

amino acid concentration

Fractionation_factor_ppt_eCO2_CH4 [unknown]
Details
Fractionation_factor_ppt_eCO2_CH4
Fractionation factor between CO2-and methane
association with a community-wide standard parameter is not yet defined
Fractionation_factor_ppt_eCO2_B [unknown]
Details
Fractionation_factor_ppt_eCO2_B
Fractionation factor between CO2-and biomass
association with a community-wide standard parameter is not yet defined
Fractionation_factor_ppt_eCO2_AA [unknown]
Details
Fractionation_factor_ppt_eCO2_AA
Fractionation factor between CO2-and amino acids
association with a community-wide standard parameter is not yet defined
Fractionation_factor_ppt_eCO2_squalenoids [unknown]
Details
Fractionation_factor_ppt_eCO2_squalenoids
Fractionation factor between CO2-and squalenoids
association with a community-wide standard parameter is not yet defined

Dataset Maintainers

NameAffiliationContact
Susan Q. LangUniversity of South Carolina at Columbia
Nancy CopleyWoods Hole Oceanographic Institution (WHOI BCO-DMO)

BCO-DMO Project Info

Project TitleBioenergetic influences upon carbon flow in alkaliphilic sulfate-reducing microbial populations with relevance to the subsurface biosphere at the Lost City Hydrothermal Field
AcronymCarbon flow through SRB
URLhttps://www.bco-dmo.org/project/661802
CreatedOctober 17, 2016
ModifiedOctober 17, 2016
Project Description

Project description from C-DEBI:
The microbial biosphere in serpentinizing subseafloor rocks is globally significant. Tantalizing evidence from studies of the Lost City Hydrothermal Field and continental ophiolites indicates that hydrogendriven microbial metabolisms prevails under the highly reducing, high pH conditions that characterize these environments. Interest in these processes is evident from an upcoming cruise to the Atlantis Massif in Fall 2015 to obtain drill cores in the vicinity of the Lost City Hydrothermal Field (IODP Expedition #357; both PIs were proponents of the IODP proposal and have applied as shipboard scientists). The PIs and colleagues have made headway over the last decade in identifying the key organisms and metabolisms present at the LCHF, and in constraining the sources and fates of carbon compounds. The linkages between geology and biology remain enigmatic, however, because of the precipitation of inorganic carbon at high pHs and overlapping biogenic and abiogenic carbon sources. We propose here to investigate the influence of free energy availability by sulfate reduction in resource utilization and carbon flow by model alkaliphilic prokaryotes. The laboratory approach using a model system will inform shipboard experiments with fresh samples from the AM, and the potential characterization of new organisms from serpentinizing terrains.

This project was funded by a C-DEBI Research Grant

Project Maintainers
NameAffiliationRoleContact
Susan Q. LangUniversity of South Carolina at ColumbiaPrincipal Investigator
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