Dataset: NH1417 NEMO Bottles

Name: Niskin bottle sample data from R/V New Horizon NEMO cruise NH1417 in the Eastern Pacific between San Diego and Hawaii from August to September 2014 (Phyto response to N substrates project)
Published: 2018-03-09
Keywords: oceans

Cite This Dataset

Spatial Extent: N:34.9707 E:-117.523 S:21.684 W:-158.633

Temporal Extent: 2014-08-08 - 2014-09-16

Project:

Oligotrophic phytoplankton community response to changes in N substrates and the resulting impact on genetic, taxonomic and functional diversity (PhytoNsubResponse)

Program:

Dimensions of Biodiversity (Dimensions of Biodiversity)

Principal Investigator:

Matthew M. Mills (Stanford University)

Co-Principal Investigator:

Kevin R. Arrigo (Stanford University)

Matthew J. Church (University of Montana)

Dr Zbigniew Kolber (Soliense Inc.)

Jonathan P. Zehr (University of California-Santa Cruz, UCSC)

Contact:

Gert van Dijken (Stanford University)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version Date:

2018-03-09

Restricted:

Validated:

Current State:

Preliminary and in progress

Niskin bottle sample data from R/V New Horizon NEMO cruise NH1417 in the Eastern Pacific between San Diego and Hawaii from August to September 2014 (Phyto response to N substrates project)

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Description

This dataset contains measurements from Niskin bottle samples from R/V New Horizon cruise NH1417 from August 18th to September 16th of 2014 in the Eastern Pacific between San Diego and Hawaii. The R/V New Horizon cruise NH1417 was a Nutrient Effects on Marine microOrganisms (NEMO) cruise.

Measurements from Fast Repetition Rate Fluorometry (FRRF): initial fluorescence, maximum photochemical efficiency of photostream II, and functional absorption of cross-section.

CTD measurements: temperature, salinity, pressure, PAR, in-situ chlorophyll a, dissolved oxygen, fluorescence.

Derived values: Extracted chlorophyll a, 15N2 enrichment, 14C primary production.

Methods & Sampling

Samples were collected using standard oceanographic techniques. A CTD Rosette with 24 10L Niskin bottles was lowered to the maximum sampling depth and then brought back to the surface. Water was collected during upcasts at discrete depths. Once on board seawater was collected from each bottle for analysis. CTD data included are also from the upcasts.

Data Processing Description

Data quality flags are the same as defined in the World Ocean Circulation Experiment (WOCE) and are as follows:

Citations for methods and calculations:

FRRF measurements: Kolber et al. (1998) Biochimica et Biophysica Acta 1367:88-106
14C Primary Production: Lohrenz et al. (1992) Journal of Plankton Research 14:201-221
N2 Fixation: Wilson et al. (2012) Applied Environmental Microbiology 78:6491-6498
Chl a: Welschmeyer (1994) Limnology and Oceanography 39:1985-1992

Quality flag definitions for water bottles:

1 = Bottle information unavailable.

2 = No problems noted.

3 = Leaking.

4 = Did not trip correctly.

5 = Not reported.

6 = Significant discrepancy in measured values between Gerard and Niskin bottles.

7 = Unknown problem.

8 = Pair did not trip correctly. Note that the Niskin bottle can trip at an unplanned depth while the Gerard trips correctly and vice versa.

9 = Samples not drawn from this bottle.

BCO-DMO Data Manager Processing Notes:
* added a conventional header with dataset name, PI name, version date
* modified parameter names to conform with BCO-DMO naming conventions
* Added ISO formatted timestamp from TIME and DATE
* original missing data value '-999' displayed as "nd" for no data in the bco-dmo system

Data Files

File
bottle.csv (Comma Separated Values (.csv), 1.33 MB) MD5:5e36f3a3b538ad2588848fa1592ec92a Primary data file for dataset ID 685756

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1241221
NSF Division of Ocean Sciences	OCE-1241093
NSF Division of Ocean Sciences	OCE-1241263

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
NH1417		2014-08-18	R/V New Horizon	Matthew M. Mills (Chief Scientist) Dr Irina Shilova (Co-Chief Scientist)	data info

Instruments

CTD - profiler

Supplied Name: CTD Rosette

Supplied Description:

Instrument Type

Generic Name: CTD - profiler

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/130/

Generic Description:

The Conductivity, Temperature, Depth (CTD) unit is an integrated instrument package designed to measure the conductivity, temperature, and pressure (depth) of the water column. The instrument is lowered via cable through the water column. It permits scientists to observe the physical properties in real-time via a conducting cable, which is typically connected to a CTD to a deck unit and computer on a ship. The CTD is often configured with additional optional sensors including fluorometers, transmissometers and/or radiometers. It is often combined with a Rosette of water sampling bottles (e.g. Niskin, GO-FLO) for collecting discrete water samples during the cast.

This term applies to profiling CTDs. For fixed CTDs, see https://www.bco-dmo.org/instrument/869934.

Niskin bottle

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Niskin bottle

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/

Generic Description:

A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
EXPOCODE	expedition code assigned by the CCHDO: NODCShipCodeYearMonthDay	unitless	EXPOCODE
SECT_ID	cruise section identification number	unitless	cruise_name
STNNBR	station number	unitless	station
CASTNO	cast number	unitless	cast
BTLNBR	Bottle Number	unitless	bottle
BTLNBR_FLAG_W	Bottle Quality Flag	unitless	flag
DATE	Station Date (GMT); format is YYYYMMDD	years days months	date
TIME	Station Time (GMT); format is HHMM	hours and minutes	time
LATITUDE	Station Latitude (South is negative)	decimal degrees	lat
LONGITUDE	Station Longitude (West is negative)	decimal degrees	lon
DEPTH	CTD depth	meters	depth
CTDPRS	CTD pressure	decibars	press
CTDTMP_UP	Temperature from CTD upcast (Sea-Bird Model 03, ITS-90)	degrees Celsius	temp
CTDTMP_UP_FLAG_W	Temperature from CTD upcast (CTDTMP_UP) quality flag	unitless	q_flag
CTDTMP1_UP	Temperature from CTD upcast (ITS-90)	degrees Celsius	temp
CTDTMP1_UP_FLAG_W	Temperature from CTD upcast (CTDTMP1_UP) quality flag	unitless	q_flag
CTDSAL_UP	Salinity (primary, PSS-78) from CTD upcast	Practical Salinity Units (PSU)	sal
CTDSAL_UP_FLAG_W	Salinity (primary, PSS-78) from CTD upcast) quality flag	unitless	q_flag
CTDSAL2_UP	Salinity (secondary, PSS-78) from CTD upcast	Practical Salinity Units (PSU)	sal
CTDSAL2_UP_FLAG_W	Salinity (secondary, PSS-78) from CTD upcast) quality flag	unitless	q_flag
CTDOXY_UP	Dissolved oxygen from CTD upcast (SBE 43)	milliliters per liter (ml/l)	O2
CTDOXY_UP_FLAG_W	Dissolved oxygen from CTD upcast (SBE 43) quality flag	unitless	q_flag
CTDFLUOR_UP	Fluorescence from CTD upcast	milligrams per meter cubed (mg/m^3)	fluor
CTDFLUOR_UP_FLAG_W	Fluorescence from CTD upcast quality flag	unitless	q_flag
CTDTRANS_UP	Beam transmission from CTD upcast	percent (%)	trans
CTDTRANS_UP_FLAG_W	Beam transmission from CTD upcast quality flag	unitless	q_flag
CTDPAR_UP	Photosynthetically Active Radiation (PAR) from CTD upcast	microEinsteins per meter squared per second (uE/m^2/s)	PAR
CTDPAR_UP_FLAG_W	Photosynthetically Active Radiation (PAR) from CTD upcast quality flag	unitless	q_flag
CTDSPAR_UP	Surface Photosynthetically Active Radiation from CTD upcast	microEinsteins per meter squared per second (uE/m^2/s)	SPAR
CTDSPAR_UP_FLAG_W	Surface Photosynthetically Active Radiation from CTD upcast quality flag	unitless	q_flag
Chlorophyll_a	Chlorophyll a	micrograms per liter (ug/L)	chl_a
Chlorophyll_a_FLAG_W	Chlorophyll a quality flag	unitless	q_flag
Chlorophyll_a_STDEV	Standard deviation of Chlorophyll a	micrograms per liter (ug/L)	std_dev
Chlorophyll_a_STDEV_FLAG_W	Standard deviation of Chlorophyll a quality flag	unitless	q_flag
POC	Particulate organic carbon concentration	micromoles per liter (umol/L)	POC
POC_FLAG_W	Particulate organic carbon concentration quality flag	unitless	q_flag
PON	Particulate organic nitrogen concentration	micromoles per liter (umol/L)	PON
PON_FLAG_W	Particulate organic nitrogen concentration quality flag	unitless	q_flag
NITRAT	Nitrate (NO3) concentration	micromoles per liter (umol/L)	NO3
NITRAT_FLAG_W	Nitrate (NO3) concentration quality flag	unitless	q_flag
NITRAT_STDEV	Nitrate (NO3) concentration	micromoles per liter (umol/L)	std_dev
NITRAT_STDEV_FLAG_W	Nitrate (NO3) concentration quality flag	unitless	q_flag
PHSPHT	Phosphate (PO4) concentration	micromoles per liter (umol/L)	PO4
PHSPHT_FLAG_W	Phosphate (PO4) concentration quality flag	unitless	q_flag
PHSPHT_STDEV	Phosphate (PO4) concentration standard deviation	micromoles per liter (umol/L)	std_dev
PHSPHT_STDEV_FLAG_W	Phosphate (PO4) concentration standard deviation quality flag	unitless	q_flag
N2_FIXATION	Dinitrogen Fixation (15N2 enrichment)	nanomoles per liter per hour (nmol/L/h)	N
N2_FIXATION_FLAG_W	Dinitrogen Fixation (15N2 enrichment) quality flag	unitless	q_flag
N2_FIXATION_STDEV	Dinitrogen Fixation (15N2 enrichment) standard deviation	nanomoles per liter per hour (nmol/L/h)	std_dev
N2_FIXATION_STDEV_FLAG_W	Dinitrogen Fixation (15N2 enrichment) standard deviation quality flag	unitless	q_flag
FRRF_Fo_Color1	Initial Flourescence (445-450nm)	relative	fluor
FRRF_Fo_Color1_FLAG_W	Initial Flourescence (445-450nm) quality flag	unitless	q_flag
FRRF_Fo_Color1_STDEV	Initial Flourescence (445-450nm) Standard Deviation	relative	std_dev
FRRF_Fo_Color1_STDEV_FLAG_W	Initial Flourescence (445-450nm) Standard Deviation quality flag	unitless	q_flag
FRRF_FvFm_Color1	Maximum Photochemical Efficiency (Fv/Fm) of Photosystem II (445-450nm)	dimensionless	Fv_Fm
FRRF_FvFm_Color1_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (445-450nm) quality flag	unitless	q_flag
FRRF_FvFm_Color1_STDEV	Maximum Photochemical Efficiency of Photosystem II (445-450nm) Standard Deviation	dimensionless	std_dev
FRRF_FvFm_Color1_STDEV_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (445-450nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Sig_Color1	Functional Absorbtion Cross section (445-450nm)	10^-20 M^2/QUANTA	fluor
FRRF_Sig_Color1_FLAG_W	Functional Absorbtion Cross section (445-450nm) quality flag	unitless	q_flag
FRRF_Sig_Color1_STDEV	Functional Absorbtion Cross section (445-450nm) Standard Deviation	10^-20 M^2/QUANTA	std_dev
FRRF_Sig_Color1_STDEV_FLAG_W	Functional Absorbtion Cross section (445-450nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Fo_Color2	Initial Flourescence (470nm)	unitless	fluor
FRRF_Fo_Color2_FLAG_W	Initial Flourescence (470nm) quality flag	unitless	q_flag
FRRF_Fo_Color2_STDEV	Initial Flourescence (470nm) Standard Deviation	relative	std_dev
FRRF_Fo_Color2_STDEV_FLAG_W	Initial Flourescence (470nm) Standard Deviation quality flag	unitless	q_flag
FRRF_FvFm_Color2	Maximum Photochemical Efficiency (Fv/Fm) of Photosystem II (470nm)	dimensionless	Fv_Fm
FRRF_FvFm_Color2_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (470nm) quality flag	unitless	q_flag
FRRF_FvFm_Color2_STDEV	Maximum Photochemical Efficiency of Photosystem II (470nm) Standard Deviation	dimensionless	std_dev
FRRF_FvFm_Color2_STDEV_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (470nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Sig_Color2	Functional Absorbtion Cross section (470nm)	10^-20 M^2/QUANTA	no_bcodmo_term
FRRF_Sig_Color2_FLAG_W	Functional Absorbtion Cross section (470nm) quality flag	unitless	q_flag
FRRF_Sig_Color2_STDEV	Functional Absorbtion Cross section (470nm) Standard Deviation	10^-20 M^2/QUANTA	std_dev
FRRF_Sig_Color2_STDEV_FLAG_W	Functional Absorbtion Cross section (470nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Fo_Color3	Initial Flourescence (505nm)	relative	fluor
FRRF_Fo_Color3_FLAG_W	Initial Flourescence (505nm) quality flag	unitless	q_flag
FRRF_Fo_Color3_STDEV	Initial Flourescence (505nm) Standard Deviation	relative	std_dev
FRRF_Fo_Color3_STDEV_FLAG_W	Initial Flourescence (505nm) Standard Deviation quality flag	unitless	q_flag
FRRF_FvFm_Color3	Maximum Photochemical Efficiency (Fv/Fm) of Photosystem II (505nm)	dimensionless	Fv_Fm
FRRF_FvFm_Color3_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (505nm) quality flag	unitless	q_flag
FRRF_FvFm_Color3_STDEV	Maximum Photochemical Efficiency of Photosystem II (505nm) Standard Deviation	dimensionless	std_dev
FRRF_FvFm_Color3_STDEV_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (505nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Sig_Color3	Functional Absorbtion Cross section (505nm)	10^-20 M^2/QUANTA	fluor
FRRF_Sig_Color3_FLAG_W	Functional Absorbtion Cross section (505nm) quality flag	unitless	q_flag
FRRF_Sig_Color3_STDEV	Functional Absorbtion Cross section (505nm) Standard Deviation	10^-20 M^2/QUANTA	std_dev
FRRF_Sig_Color3_STDEV_FLAG_W	Functional Absorbtion Cross section (505nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Fo_Color4	Initial Flourescence (530nm)	relative	fluor
FRRF_Fo_Color4_FLAG_W	Initial Flourescence (530nm) quality flag	unitless	q_flag
FRRF_Fo_Color4_STDEV	Initial Flourescence (530nm) Standard Deviation	relative	std_dev
FRRF_Fo_Color4_STDEV_FLAG_W	Initial Flourescence (530nm) Standard Deviation quality flag	unitless	q_flag
FRRF_FvFm_Color4	Maximum Photochemical Efficiency (Fv/Fm) of Photosystem II (530nm)	dimensionless	Fv_Fm
FRRF_FvFm_Color4_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (530nm) quality flag	unitless	q_flag
FRRF_FvFm_Color4_STDEV	Maximum Photochemical Efficiency of Photosystem II (530nm) Standard Deviation	dimensionless	std_dev
FRRF_FvFm_Color4_STDEV_FLAG_W	Maximum Photochemical Efficiency of Photosystem II (530nm) Standard Deviation quality flag	unitless	q_flag
FRRF_Sig_Color4	Functional Absorbtion Cross section (530nm)	10^-20 M^2/QUANTA	fluor
FRRF_Sig_Color4_FLAG_W	Functional Absorbtion Cross section (530nm) quality flag	unitless	q_flag
FRRF_Sig_Color4_STDEV	Functional Absorbtion Cross section (530nm) Standard Deviation	10^-20 M^2/QUANTA	std_dev
FRRF_Sig_Color4_STDEV_FLAG_W	Functional Absorbtion Cross section (530nm) Standard Deviation quality flag	unitless	q_flag
PRIPROD	Primary Productivity	micrograms of carbon per liter per day (ug/L/d)	PP
PRIPROD_FLAG_W	Primary Productivity quality flag	unitless	q_flag
PRIPROD_STDEV	Primary Productivity Standard Deviation	unitless	std_dev
PRIPROD_STDEV_FLAG	Primary Productivity Standard Deviation quality flag	unitless	q_flag
SAMPNO	Sample Number	unitless	sample
ISO_DateTime_UTC	ISO_DateTime_UTC,ISO timestamp based on the ISO 8601:2004(E) standard in format YYYY-mm-ddTHH:MM (UTC),unitless,nd,ISO_DateTime_UTC	unitless	ISO_DateTime_UTC

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Dataset: NH1417 NEMO Bottles