Hydrocarbon resources-cores

Mandatory Attributes Optional Attributes

Mandatory Attributes

API gravity

• Harmonized name: api

• Description: API gravity is a measure of how heavy or light a petroleum liquid is compared to water (source: https://en.wikipedia.org/wiki/API_gravity), e.g. 31.1 API

Basin name

• Harmonized name: basin_name

• Description: Name of the basin, e.g. Campos

Collection date

• Harmonized name: collection_date

• Description: the date on which the sample was collected; date/time ranges are supported by providing two dates from among the supported value formats, delimited by a forward-slash character; collection times are supported by adding "T", then the hour and minute after the date, and must be in Coordinated Universal Time (UTC), otherwise known as "Zulu Time" (Z); supported formats include "DD-Mmm-YYYY", "Mmm-YYYY", "YYYY" or ISO 8601 standard "YYYY-mm-dd", "YYYY-mm", "YYYY-mm-ddThh:mm:ss"; e.g., 30-Oct-1990, Oct-1990, 1990, 1990-10-30, 1990-10, 21-Oct-1952/15-Feb-1953, 2015-10-11T17:53:03Z; valid non-ISO dates will be automatically transformed to ISO format

Broad-scale environmental context

• Harmonized name: env_broad_scale

• Description: Add terms that identify the major environment type(s) where your sample was collected. Recommend subclasses of biome [ENVO:00000428]. Multiple terms can be separated by one or more pipes e.g.: mangrove biome [ENVO:01000181]|estuarine biome [ENVO:01000020]

Local-scale environmental context

• Harmonized name: env_local_scale

• Description: Add terms that identify environmental entities having causal influences upon the entity at time of sampling, multiple terms can be separated by pipes, e.g.: shoreline [ENVO:00000486]|intertidal zone [ENVO:00000316]

Environmental medium

• Harmonized name: env_medium

• Description: Add terms that identify the material displaced by the entity at time of sampling. Recommend subclasses of environmental material [ENVO:00010483]. Multiple terms can be separated by pipes e.g.: estuarine water [ENVO:01000301]|estuarine mud [ENVO:00002160]

Geographic location

• Harmonized name: geo_loc_name

• Description: Geographical origin of the sample; use the appropriate name from this list https://www.insdc.org/submitting-standards/geo_loc_name-qualifier-vocabulary/. Use a colon to separate the country or ocean from more detailed information about the location, eg "Canada: Vancouver" or "Germany: halfway down Zugspitze, Alps"

Hydrocarbon type produced

• Harmonized name: hc_produced

• Description: Main hydrocarbon type produced from resource, e.g., oil, gas-condensate, gas, bitumen, coalbed methane

Hydrocarbon resource type

• Harmonized name: hcr

• Description: Main hydrocarbon resource type. The term Hydrocarbon Resource is defined as a natural environmental feature containing large amounts of hydrocarbons at high concentrations potentially suitable for commercial exploitation, e.g., oil reservoir, gas reservoir, oil sand, coalbed, shale, tight oil reservoir, tight gas reservoir

Hydrocarbon resource original temperature

• Harmonized name: hcr_temp

• Description: Original temperature of the hydrocarbon resource

Latitude and longitude

• Harmonized name: lat_lon

• Description: The geographical coordinates of the location where the sample was collected. Specify as degrees latitude and longitude in format "d[d.dddd] N|S d[dd.dddd] W|E", eg, 38.98 N 77.11 W

Sample material type (host or environmental context)

• Harmonized name: samp_mat_type

• Description: The type of material from which the sample was obtained. For the Hydrocarbon package, samples include types like core, rock trimmings, drill cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid, produced water, injected water, swabs, etc. For the Food Package, samples are usually categorized as food, body products or tissues, or environmental material. This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246)

Sulfate in formation water

• Harmonized name: sulfate_fw

• Description: Original sulfate concentration in the hydrocarbon resource

Temperature

• Harmonized name: temp

• Description: temperature of the sample at time of sampling

Vfa in formation water

• Harmonized name: vfa_fw

• Description: Original volatile fatty acid concentration in the hydrocarbon resource

NCBI Taxonomy ID

• Description: NCBI’s taxonomy identifier of the organism for this sample. The NCBI taxonomy ID can be found at https://www.ncbi.nlm.nih.gov/taxonomy/. Enter 32644 (which is a taxonomy ID for unidentified organisms) for the following or similar cases: (1) when NCBI taxonomy ID is not available because NCBI taxonomy does not yet cover the organism, (2) when metagenome or environmental sample was used, whose organismal composition is unknown in advance

• Example: 9606 (for Homo sapiens), 452680 (for Pseudomonas sp. UK4)

Organism

• Description: The most descriptive organism name for this sample (to the species, if possible). In the case of a new species, provide the desired organism name. In the case of unidentified species, choose the appropriate Genus and include ‘sp.’, e.g. “Escherichia sp.”. When sequencing a genome from a non-metagenomic source, include a strain or isolate name too, e.g. “Pseudomonas sp. UK4”

• Example: Homo sapiens, Pseudomonas sp. UK4

Sample name

• Description: A name that you choose for the sample. It can have any format, but we suggest that you make it concise, unique and consistent within your lab, and as informative as possible. Every sample name from a single submitter must be unique within a single BioProject

Optional Attributes

Additional info

• Harmonized name: additional_info

• Description: Information that doesn't fit anywhere else

Alkalinity

• Harmonized name: alkalinity

• Description: alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate

Alkalinity method

• Harmonized name: alkalinity_method

• Description: Method used for alkalinity measurement

Ammonium

• Harmonized name: ammonium

• Description: concentration of ammonium

Aromatics wt%

• Harmonized name: aromatics_pc

• Description: Saturate, Aromatic, Resin and Asphaltene (SARA) is an analysis method that divides crude oil components according to their polarizability and polarity. There are three main methods to obtain SARA results. The most popular one is known as the Iatroscan TLC-FID and is referred to as IP-143 (source: https://en.wikipedia.org/wiki/Saturate,_aromatic,_resin_and_asphaltene)

Asphaltenes wt%

• Harmonized name: asphaltenes_pc

Benzene

• Harmonized name: benzene

• Description: Concentration of benzene in the sample

Calcium

• Harmonized name: calcium

• Description: concentration of calcium

Chloride

• Harmonized name: chloride

• Description: concentration of chloride

Collection method

• Harmonized name: collection_method

• Description: Process used to collect the sample, e.g., bronchoalveolar lavage (BAL)

Density

• Harmonized name: density

• Description: density of sample

Depositional environment

• Harmonized name: depos_env

• Description: Main depositional environment (https://en.wikipedia.org/wiki/Depositional_environment), e.g., continental - alluvial, continental - aeolian, continental - fluvial, continental - lacustrine, transitional - deltaic, transitional - tidal, transitional - lagoonal, transitional - beach, transitional - lake, marine - shallow, marine - deep, marine - reef, other - evaporite, other - glacial, other - volcanic

Derived from

• Description: Indicates when one BioSample was derived from another BioSample. Value should include BioSample accession number(s)

• Example: SAMN00000001, KAS24095074

Dissolved carbon dioxide

• Harmonized name: diss_carb_dioxide

• Description: concentration of dissolved carbon dioxide

Dissolved inorganic carbon

• Harmonized name: diss_inorg_carb

• Description: dissolved inorganic carbon concentration

Dissolved inorganic phosphorus

• Harmonized name: diss_inorg_phosp

• Description: concentration of dissolved inorganic phosphorus

Dissolved iron

• Harmonized name: diss_iron

• Description: Concentration of dissolved iron in the sample

Dissolved organic carbon

• Harmonized name: diss_org_carb

• Description: concentration of dissolved organic carbon

Dissolved oxygen in fluids

• Harmonized name: diss_oxygen_fluid

• Description: Concentration of dissolved oxygen in the oil field produced fluids as it contributes to oxgen-corrosion and microbial activity, e.g. Mic

Elevation

• Harmonized name: elev

• Description: The elevation of the sampling site as measured by the vertical distance from mean sea level.

Ethylbenzene

• Harmonized name: ethylbenzene

• Description: Concentration of ethylbenzene in the sample

Field name

• Harmonized name: field

• Description: Name of the hydrocarbon field, e.g., Albacora

Formation water salinity

• Harmonized name: hcr_fw_salinity

• Description: Original formation water salinity (prior to secondary recovery e.g. Waterflooding) expressed as TDS

Hydrocarbon resource geological age

• Harmonized name: hcr_geol_age

• Description: Geological age of hydrocarbon resource (additional info: https://en.wikipedia.org/wiki/Period_(geology)), e.g., archean, cambrian, carboniferous, cenozoic, cretaceous, devonian, jurassic, mesozoic, neogene, ordovician, paleogene, paleozoic, permian, precambrian, proterozoic, silurian, triassic

Hydrocarbon resource original pressure

• Harmonized name: hcr_pressure

• Description: Original pressure of the hydrocarbon resource

Isolation source

• Harmonized name: isolation_source

• Description: Describes the physical, environmental and/or local geographical source of the biological sample from which the sample was derived.

Lithology

• Harmonized name: lithology

• Description: Hydrocarbon resource main lithology (Additional information: http://petrowiki.org/Lithology_and_rock_type_determination), e.g., basement, chalk, chert, coal, conglomerate, diatomite, dolomite, limestone, sandstone, shale, siltstone, volcanic

Magnesium

• Harmonized name: magnesium

• Description: concentration of magnesium

Miscellaneous parameter

• Harmonized name: misc_param

• Description: any other measurement performed or parameter collected, that is not listed here

Negative control type

• Harmonized name: neg_cont_type

• Description: The substance or equipment used as a negative control in an investigation, e.g., distilled water, phosphate buffer, empty collection device, empty collection tube, DNA-free PCR mix, sterile swab, sterile syringe

Nitrate

• Harmonized name: nitrate

• Description: concentration of nitrate

Nitrite

• Harmonized name: nitrite

• Description: concentration of nitrite

Omics Observatory ID

• Harmonized name: omics_observ_id

• Description: A unique identifier of the omics-enabled observatory (or comparable time series) your data derives from. This identifier should be provided by the OMICON ontology; if you require a new identifier for your time series, contact the ontology's developers. Information is available here: https://github.com/GLOMICON/omicon. This field is only applicable to records which derive from an omics time-series or observatory.

Organism count qPCR information

• Harmonized name: org_count_qpcr_info

• Description: If qpcr was used for the cell count, the target gene name, the primer sequence and the cycling conditions should also be provided, e.g., 16S rrna; FWD:ACGTAGCTATGACGT REV:GTGCTAGTCGAGTAC; initial denaturation:90C_5min; denaturation:90C_2min; annealing:52C_30 sec; elongation:72C_30 sec; 90 C for 1 min; final elongation:72C_5min; 30 cycles

Organism count

• Harmonized name: organism_count

• Description: total count of any organism per gram or volume of sample,should include name of organism followed by count; can include multiple organism counts

Oil water contact depth

• Harmonized name: owc_tvdss

• Description: Depth of the original oil water contact (OWC) zone (average) (m TVDSS)

Oxygenation status of sample

• Harmonized name: oxy_stat_samp

• Description: oxygenation status of sample

Permeability

• Harmonized name: permeability

• Description: Measure of the ability of a hydrocarbon resource to allow fluids to pass through it. Additional information: https://en.wikipedia.org/wiki/Permeability_(earth_sciences)

pH

• Harmonized name: ph

• Description: pH measurement

Porosity

• Harmonized name: porosity

• Description: porosity of deposited sediment is volume of voids divided by the total volume of sample

Positive control type

• Harmonized name: pos_cont_type

• Description: The substance, mixture, product, or apparatus used to verify that a process which is part of an investigation delivers a true positive

Potassium

• Harmonized name: potassium

• Description: concentration of potassium

Pour point

• Harmonized name: pour_point

• Description: Temperature at which a liquid becomes semi solid and loses its flow characteristics. In crude oil a high pour point is generally associated with a high paraffin content, typically found in crude deriving from a larger proportion of plant material (source: https://en.wikipedia.org/wiki/pour_point)

Pressure

• Harmonized name: pressure

• Description: pressure to which the sample is subject, in atmospheres

Reference for biomaterial

• Harmonized name: ref_biomaterial

• Description: Primary publication or genome report

Relationship to oxygen

• Harmonized name: rel_to_oxygen

• Description: Is this organism an aerobe, anaerobe? Please note that aerobic and anaerobic are valid descriptors for microbial environments, eg, aerobe, anaerobe, facultative, microaerophilic, microanaerobe, obligate aerobe, obligate anaerobe, missing, not applicable, not collected, not provided, restricted access

Reservoir name

• Harmonized name: reservoir_name

• Description: Name of the reservoir, e.g., Carapebus

Resins wt%

• Harmonized name: resins_pc

Salinity

• Harmonized name: salinity

• Description: salinity measurement

Sample collection device or method

• Harmonized name: samp_collect_device

• Description: Method or device employed for collecting sample

Sample material processing

• Harmonized name: samp_mat_process

• Description: Processing applied to the sample during or after isolation

Sample measured depth

• Harmonized name: samp_md

• Description: In non deviated well, measured depth is equal to the true vertical depth, TVD (TVD=TVDSS plus the reference or datum it refers to). In deviated wells, the MD is the length of trajectory of the borehole measured from the same reference or datum. Common datums used are ground level (GL), drilling rig floor (DF), rotary table (RT), kelly bushing (KB) and mean sea level (MSL). If "other" is specified, please propose entry in "additional info" field

Sample size

• Harmonized name: samp_size

• Description: Amount or size of sample (volume, mass or area) that was collected

Sample storage duration

• Harmonized name: samp_store_dur

• Description:

Sample storage location

• Harmonized name: samp_store_loc

Sample storage temperature

• Harmonized name: samp_store_temp

Sample subtype

• Harmonized name: samp_subtype

• Description: Name of sample sub-type, e.g., oil phase, water phase, biofilm, not applicable

Sample transport conditions

• Harmonized name: samp_transport_cond

• Description: Sample transport duration (in days or hrs) and temperature the sample was exposed to (e.g., 5.5 days; 20C)

Sample true vertical depth subsea

• Harmonized name: samp_tvdss

• Description: Depth of the sample i.e. The vertical distance between the sea level and the sampled position in the subsurface. Depth can be reported as an interval for subsurface samples e.g., 1325.75-1362.25 m

Sample volume or weight for DNA extraction

• Harmonized name: samp_vol_we_dna_ext

• Description: volume (mL) or weight (g) of sample processed for DNA extraction

Sample well name

• Harmonized name: samp_well_name

• Description: Name of the well where sample was taken, e.g., BXA1123

Saturates wt%

• Harmonized name: saturates_pc

Size fraction selected

• Harmonized name: size_frac

• Description: Filtering pore size used in sample preparation, e.g., 0-0.22 micrometer

Sodium

• Harmonized name: sodium

• Description: sodium concentration

Source material identifiers

• Harmonized name: source_material_id

• Description: unique identifier assigned to a material sample used for extracting nucleic acids, and subsequent sequencing. The identifier can refer either to the original material collected or to any derived sub-samples.

Source rock depositional environment

• Harmonized name: sr_dep_env

• Description: Source rock depositional environment (https://en.wikipedia.org/wiki/Source_rock), e.g., lacustine, fluvioldeltaic, fluviomarine, marine

Source rock geological age

• Harmonized name: sr_geol_age

• Description: Geological age of source rock (Additional info: https://en.wikipedia.org/wiki/Period_(geology)), e.g., archean, cambrian, carboniferous, cenozoic, cretaceous, devonian, jurassic, mesozoic, neogene, ordovician, paleogene, paleozoic, permian, precambrian, proterozoic, silurian, triassic

Source rock kerogen type

• Harmonized name: sr_kerog_type

• Description: Origin of kerogen. Type I: Algal (aquatic), Type II: planktonic and soft plant material (aquatic or terrestrial), Type III: terrestrial woody/ fibrous plant material (terrestrial), Type IV: oxidized recycled woody debris (terrestrial) (additional information: https://en.wikipedia.org/wiki/Kerogen), e.g., type I, type II, type III, type IV

Source rock lithology

• Harmonized name: sr_lithology

• Description: Lithology of source rock (https://en.wikipedia.org/wiki/Source_rock), e.g., clastic, carbonate, coal, biosilicieous

Sulfate

• Harmonized name: sulfate

• Description: concentration of sulfate

Sulfide

• Harmonized name: sulfide

• Description: concentration of sulfide

Suspended solids

• Harmonized name: suspend_solids

• Description: concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter, etc,; can include multiple substances

Total acid number

• Harmonized name: tan

• Description: Total Acid Number (TAN) is a measurement of acidity that is determined by the amount of potassium hydroxide in milligrams that is needed to neutralize the acids in one gram of oil. It is an important quality measurement of crude oil. (source: https://en.wikipedia.org/wiki/Total_acid_number)

Toluene

• Harmonized name: toluene

• Description: Concentration of toluene in the sample

Total iron

• Harmonized name: tot_iron

• Description: Concentration of total iron in the sample

Total nitrogen

• Harmonized name: tot_nitro

• Description: total nitrogen content of the sample

Total phosphorus

• Harmonized name: tot_phosp

• Description: total phosphorus concentration, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus. Can also be measured without filtering, reported as phosphorus

Total sulfur

• Harmonized name: tot_sulfur

• Description: Concentration of total sulfur in the sample

Depth (TVDSS) of hydrocarbon resource pressure

• Harmonized name: tvdss_of_hcr_press

• Description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original pressure was measured, e.g., 1578 m

Depth (TVDSS) of hydrocarbon resource temperature

• Harmonized name: tvdss_of_hcr_temp

• Description: True vertical depth subsea (TVDSS) of the hydrocarbon resource where the original temperature was measured, e.g., 1345 m

Volatile fatty acids

• Harmonized name: vfa

• Description: Concentration of Volatile Fatty Acids in the sample

Viscosity

• Harmonized name: viscosity

• Description: A measure of oil's resistance to gradual deformation by shear stress or tensile stress (e.g., 3.5 cp; 100C)

Well identification number

• Harmonized name: win

• Description: A unique identifier of a well or wellbore. This is part of the Global Framework for Well Identification initiative which is compiled by the Professional Petroleum Data Management Association (PPDM) in an effort to improve well identification systems. (Supporting information: https://ppdm.org/ and http://dl.ppdm.org/dl/690)

Xylene

• Harmonized name: xylene

• Description: Concentration of xylene in the sample