Dataset: bacteria_water
Deployment: LMG0106

Water column bacteria data

Principal Investigator:

Chris H. Fritsen (Desert Research Institute, DRI)

BCO-DMO Data Manager:

Ms Dicky Allison (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

GLOBEC: Sea Ice Microbial Communities (Sea Ice Microbes)

U.S. GLOBEC Southern Ocean (SOGLOBEC)

Coordinated Deployments:

NBP0104

Data URL:

https://www.bco-dmo.org/dataset-deployment/450299/data

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Description

Bacteria Abundance, Biomass and Chlorophyll: Water Column Samplesa

BG 235 - Methods used for chlorophyll a (chla) analysis and bacteria biomass determination

Core Sampling techniques:

Sampling methods for recovery of chlorophyll a and bacteria from sea ice cores follows those described in
Garrison and Buck (1986)

Recommendations for reporting were used as outlined by: Horner, R. et al.,(1992)

Analytic Techniques:

Chla (mg m^-3):

determined fluorometrically (Turner Designs 10AU Fluorometer) following extraction in 90% acetone (Parsons et al., 1984)
ice core chla corrected to account for chla in filtered sea water (FSW) added to core sections during melting

Bacteria cell abundance (cells m^-3) and biomass (mg C m^-3):

LMG 0106

preserved (0.5% glutaraldehyde) samples stained with 4',6-diamidino-2-phenylindole (DAPI; 0.1 to 0.3% final concentration), filtered through 0.2 mm black, polycarbonate membrane filters, and mounted onto glass microscope slides on the ship (within 24 hours following collection)
bacteria enumerated using epifluorescence microscopy and sized using digital images taken with Image Pro Plus
bacteria biomass determined using cell abundance, cell biovolume (BV; mm³; as determined from mean length and width measurements), and an allometric conversion factor for bacterial carbon per volume specific for DAPI-stained bacteria (cellular carbon = 218 X BV^0.86; Loferer-Krossbacher et al., 1998).
ice core samples corrected for FSW dilution

NBP 0104

preserved (0.5% glutaraldehyde) samples stained with SYBR Gold (0.01% final concentration), filtered through 0.2 mm Anodisc filters (Whatman), and mounted onto glass microscope slides at home institution (~1-2 months following collection)
bacteria enumerated using epifluorescence microscopy and sized using digital images taken with Image Pro Plus
bacteria biomass determined using cell abundance, cell biovolume (BV; mm³), and an allometric conversion factor for bacterial carbon per volume specific for Acridine Orange-stained bacteria (cellular carbon = 89.9 X BV^0.59; Simon and Azam, 1989). Note: an AO-specific carbon per volume conversion factor was used in calculating biomass in SYBR Gold-stained samples because both AO and SYBR Gold stain bacteria cells similarly relative to DAPI (unpublished data).
ice core samples corrected for FSW dilution

Data from LMG0106 (July-August, 2001) added in June 2002.

Updated: April 21, 2006

Methods & Sampling

Dataset acquisition description

#  Bacteria data from Southern Ocean GLOBEC
#     C. Fritsen and F. Stewart
#            * BactAbun = bacterial abundance = cells m-3
#            * BactBio = bacterial biomass = mg C m-3 = ug C l-1
#            * chla = mg chla m-3 = ug chla l-1

Deployment-specific acquisition description

#  Bacteria data from Southern Ocean GLOBEC
#     C. Fritsen and F. Stewart
#            * BactAbun = bacterial abundance = cells m-3
#            * BactBio = bacterial biomass = mg C m-3 = ug C l-1
#            * chla = mg chla m-3 = ug chla l-1

Data Processing Description

Dataset Processing Description

Chla (mg m^-3):

determined fluorometrically (Turner Designs 10AU Fluorometer) following extraction in 90% acetone (Parsons et al., 1984)
ice core chla corrected to account for chla in filtered sea water (FSW) added to core sections during melting

Bacteria cell abundance (cells m^-3) and biomass (mg C m^-3):

LMG 0106

preserved (0.5% glutaraldehyde) samples stained with 4',6-diamidino-2-phenylindole (DAPI; 0.1 to 0.3% final concentration), filtered through 0.2 mm black, polycarbonate membrane filters, and mounted onto glass microscope slides on the ship (within 24 hours following collection)
bacteria enumerated using epifluorescence microscopy and sized using digital images taken with Image Pro Plus
bacteria biomass determined using cell abundance, cell biovolume (BV; mm³; as determined from mean length and width measurements), and an allometric conversion factor for bacterial carbon per volume specific for DAPI-stained bacteria (cellular carbon = 218 X BV^0.86; Loferer-Krossbacher et al., 1998).
ice core samples corrected for FSW dilution

Deployment-specific processing description

Chla (mg m-3):
<ul>
<li>determined fluorometrically (Turner Designs 10AU
Fluorometer) following extraction in 90% acetone (Parsons et al., 1984)</li>

<li>ice core chla
corrected to account for chla in filtered sea water (FSW) added to core
sections during melting</li>
</ul>

Bacteria cell abundance (cells m-3) and
biomass (mg C m-3):

LMG 0106

<ul>
<li>preserved (0.5%
glutaraldehyde) samples stained with 4',6-diamidino-2-phenylindole (DAPI; 0.1
to 0.3% final concentration), filtered through 0.2 mm black, polycarbonate membrane filters, and
mounted onto glass microscope slides on the ship (within 24 hours following
collection)</li>

<li>bacteria enumerated
using epifluorescence microscopy and sized using digital images taken with
Image Pro Plus</li>

<li>bacteria biomass determined
using cell abundance, cell biovolume (BV; mm3;
as determined from mean length and width measurements), and an allometric
conversion factor for bacterial carbon per volume specific for DAPI-stained
bacteria
(cellular carbon = 218 X BV0.86; Loferer-Krößbacher et al., 1998).</li>

<li>ice core samples
corrected for FSW dilution</li>
</ul>

More information about this dataset deployment

Funding

Award Number	Funding Source
ANT-9910098	NSF Antarctic Sciences

Instruments

Niskin bottle

Supplied Name: Niskin Bottle

Supplied Description:

Niskin bottle cast, use Bottle_Niskin

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

Supplied Name	Supplied description	Supplied Units	Standard Name
cruiseid	cruise identification		cruiseid
year	year		year
station	station identification		station
event	event number from event log		event
month_gmt	month of year	GMT	month_gmt
day_gmt	day of month	GMT	day_gmt
lat	latitude, negative = South	decimal degrees	lat
lon	longitude, negative = West	decimal degrees	lon
depth	depth of sample	meters	depth
bact_abun	bacteria abundance	cells/meter<sup>3</sup>	bact_abund
bact_biomass_C	bacteria carbon biomass	milligrams C/meter<sup>3</sup>	bact_biomass_C
chl_a_ugm	chlorophyll a concentration	micrograms/liter	chl_a_ugm

Database

Contribute Data

Dataset: bacteria_water
Deployment: LMG0106

Bacteria Abundance, Biomass and Chlorophyll: Water Column Samplesa

Dataset acquisition description

Deployment-specific acquisition description

Dataset Processing Description

Deployment-specific processing description

Database

Contribute Data

Dataset: bacteria_waterDeployment: LMG0106

Bacteria Abundance, Biomass and Chlorophyll: Water Column Samplesa

Dataset acquisition description

Deployment-specific acquisition description

Dataset Processing Description

Deployment-specific processing description

Dataset: bacteria_water
Deployment: LMG0106