Data

Pigment sampling in the coastal waters of south eastern Tasmania

University of Tasmania, Australia
Swadling, Kerrie, Dr ; Eriksen, Ruth, Dr ; Beard, Jason, Mr ; Crawford, Christine, Dr
Viewed: [[ro.stat.viewed]] Cited: [[ro.stat.cited]] Accessed: [[ro.stat.accessed]]
ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=https://metadata.imas.utas.edu.au/geonetwork/srv/eng/catalog.search#/metadata/42a88891-570f-4def-b4d5-07ccf7bba269&rft.title=Pigment sampling in the coastal waters of south eastern Tasmania&rft.identifier=https://metadata.imas.utas.edu.au/geonetwork/srv/eng/catalog.search#/metadata/42a88891-570f-4def-b4d5-07ccf7bba269&rft.description=Water samples for the analysis of pigments using High Performance Liquid Chromatography (HPLC) were collected only in the first 12 months of the sampling program. Pigment analysis is used to estimate algal community composition and concentration. Pigments which relate specifically to an algal class are termed marker or diagnostic pigments. Some of these diagnostic pigments are found exclusively in one algal class (e.g. prasinoxanthin in prasinophytes), while others are the principal pigments of one class, but are also found in other classes (e.g. fucoxanthin in diatoms and some haptophytes; 19′-butanoyloxyfucoxanthin in chrysophytes and some haptophytes). The presence or absence of these diagnostic pigments can provide a simple guide to the composition of a phytoplankton community, including identifying classes of small flagellates that cannot be determined by light microscopy techniques. There was general similarity in pigment composition between all sites, with a presence of diatoms (as indicated by fucoxanthin), haptophytes (hex-fucoxanthin), prasinophytes (prasinoxanthan), cryptophytes (alloxanthan), cyanophytes (zeaxanthan) and green algae (chl-b) in nearly all monthly samples at all sites. The green algae could be in the form of euglenophytes or prasinophytes; the absence of the pigment lutein in all samples indicates that chlorophytes are not present in Storm Bay, at least at the sites sampled.Maintenance and Update Frequency: notPlannedStatement: An integrated water column sample (12 m) using a weighted hose was collected for phytoplankton speciation and pigment analysis from February 2010. Prior to this, samples were collected from 1 m below the surface. Following the decision to include the integrated sampler, the sampling regime was revised in the following way. The contents of four sampling tube collections were mixed together and sub-sampled: duplicate 1 L samples for pigments were kept cold and dark until processing in the laboratory on return to shore. Water samples were also collected, using a 6 L or 8 L Niskin bottle, from 0.5 – 1 m below the surface, at 10 m depth, and within 5 m of the seabed. At site 3 an intermediate sample from 50 m was also collected. One to two litres of sample water was filtered through a 25 mm glass fibre filter (Whatman GF/F) under subdued lighting, and the filter was then stored in liquid nitrogen until analysis. To extract the pigments, the filters were cut into small pieces and covered with 100% acetone (3 mL) in a 10 mL centrifuge tube. The samples were vortexed for about 30 seconds and then sonicated in an ice-water bath for 15 minutes in the dark. The samples were kept in the dark at 4°C for approximately 15 hours. After this time 200 mL water was added to the acetone such that the extract mixture was 90:10 acetone:water (vol:vol) and sonicated once more in an ice-water bath for 15 minutes. The extracts were quantitatively transferred to a clean centrifuge tube and centrifuged to remove the filter paper. The final extract was filtered through a 0.2 µm membrane filter (Advantec MFS) prior to analysis by HPLC using a Waters–Alliance high performance liquid chromatography system, comprising a 2695XE separations module with column heater and refrigerated auto sampler and a 2996 photo-diode array detector. Immediately prior to injection the sample extract was mixed with a buffer solution (90:10, 28 mM tetrabutyl ammonium acetate, pH 6.5 methanol) within the sample loop. After injection, pigments were separated using a Zorbax Eclipse XDB-C8 stainless steel 150 mm x 4.6 mm ID column with 3.5 µm particle size (Agilent Technologies) and a binary gradient elution procedure. The flow rate was 1.1 mL min-1 and the column temperature was 55 oC. The separated pigments were detected at 436 nm and identified against standard spectra using Waters Empower software. Concentrations of chlorophyll a, chlorophyll b and ,-carotene in sample chromatograms were determined from standards (Sigma, USA) while all other pigment concentrations were determined from standards (DHI, Denmark).&rft.creator=Swadling, Kerrie, Dr &rft.creator=Eriksen, Ruth, Dr &rft.creator=Beard, Jason, Mr &rft.creator=Crawford, Christine, Dr &rft.date=2018&rft.coverage=westlimit=147.362548828; southlimit=-43.3548230459; eastlimit=147.71685791; northlimit=-43.0123609615&rft.coverage=westlimit=147.362548828; southlimit=-43.3548230459; eastlimit=147.71685791; northlimit=-43.0123609615&rft.coverage=uplimit=90; downlimit=0&rft.coverage=uplimit=90; downlimit=0&rft_rights=Creative Commons Attribution 4.0 International License http://creativecommons.org/licenses/by/4.0/&rft_rights=Swadling, K.M., Eriksen, R.S., Beard, J.M. and Crawford, C.M. (2018) Phytoplankton sampling in the coastal waters of south eastern Tasmania. Institute for Marine and Antarctic Studies, University of Tasmania. Data accessed at http://metadata.imas.utas.edu.au/geonetwork/srv/en/metadata.show?uuid=42a88891-570f-4def-b4d5-07ccf7bba269 on (access date).&rft_rights=Please contact Kerrie Swadling (Principal Investigator) if you wish to use the data.&rft_rights=The data described in this record are the intellectual property of the University of Tasmania through the Institute for Marine and Antarctic Studies. Please contact Kerrie Swadling (Principal Investigator) if you wish to use the data.&rft_subject=biota&rft_subject=EARTH SCIENCE | AGRICULTURE | AGRICULTURAL AQUATIC SCIENCES | AQUACULTURE&rft_subject=EARTH SCIENCE | TERRESTRIAL HYDROSPHERE | WATER QUALITY/WATER CHEMISTRY&rft_subject=EARTH SCIENCE | OCEANS | OCEAN CIRCULATION | OCEAN CURRENTS&rft_subject=EARTH SCIENCE | BIOLOGICAL CLASSIFICATION | PROTISTS | FLAGELLATES | DINOFLAGELLATES&rft_subject=EARTH SCIENCE | OCEANS | OCEAN CHEMISTRY | PIGMENTS | CHLOROPHYLL&rft_subject=Storm Bay&rft_subject=Marine and Estuarine Ecology (incl. Marine Ichthyology)&rft_subject=BIOLOGICAL SCIENCES&rft_subject=ECOLOGY&rft_subject=Biological Oceanography&rft_subject=EARTH SCIENCES&rft_subject=OCEANOGRAPHY&rft_subject=Temperate Reef&rft_subject=research vessel&rft_subject=Downwelling vector irradiance as photons (PAR wavelengths) in the water body&rft_subject=Sea-floor depth below surface of the water body&rft_subject=Secchi depth&rft_subject=Concentration of total pigment per unit volume of the water body&rft_subject=Pigment description&rft_subject=LI-COR LI-192 PAR sensor&rft.type=dataset&rft.language=English Access the data
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Swadling, K.M., Eriksen, R.S., Beard, J.M. and Crawford, C.M. (2018) Phytoplankton sampling in the coastal waters of south eastern Tasmania. Institute for Marine and Antarctic Studies, University of Tasmania. Data accessed at http://metadata.imas.utas.edu.au/geonetwork/srv/en/metadata.show?uuid=42a88891-570f-4def-b4d5-07ccf7bba269 on (access date).

Please contact Kerrie Swadling (Principal Investigator) if you wish to use the data.

The data described in this record are the intellectual property of the University of Tasmania through the Institute for Marine and Antarctic Studies.

Please contact Kerrie Swadling (Principal Investigator) if you wish to use the data.

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Water samples for the analysis of pigments using High Performance Liquid Chromatography (HPLC) were collected only in the first 12 months of the sampling program. Pigment analysis is used to estimate algal community composition and concentration. Pigments which relate specifically to an algal class are termed marker or diagnostic pigments. Some of these diagnostic pigments are found exclusively in one algal class (e.g. prasinoxanthin in prasinophytes), while others are the principal pigments of one class, but are also found in other classes (e.g. fucoxanthin in diatoms and some haptophytes; 19′-butanoyloxyfucoxanthin in chrysophytes and some haptophytes). The presence or absence of these diagnostic pigments can provide a simple guide to the composition of a phytoplankton community, including identifying classes of small flagellates that cannot be determined by light microscopy techniques. There was general similarity in pigment composition between all sites, with a presence of diatoms (as indicated by fucoxanthin), haptophytes (hex-fucoxanthin), prasinophytes (prasinoxanthan), cryptophytes (alloxanthan), cyanophytes (zeaxanthan) and green algae (chl-b) in nearly all monthly samples at all sites. The green algae could be in the form of euglenophytes or prasinophytes; the absence of the pigment lutein in all samples indicates that chlorophytes are not present in Storm Bay, at least at the sites sampled.

Lineage

Maintenance and Update Frequency: notPlanned
Statement: An integrated water column sample (12 m) using a weighted hose was collected for phytoplankton speciation and pigment analysis from February 2010. Prior to this, samples were collected from 1 m below the surface. Following the decision to include the integrated sampler, the sampling regime was revised in the following way. The contents of four sampling tube collections were mixed together and sub-sampled: duplicate 1 L samples for pigments were kept cold and dark until processing in the laboratory on return to shore. Water samples were also collected, using a 6 L or 8 L Niskin bottle, from 0.5 – 1 m below the surface, at 10 m depth, and within 5 m of the seabed. At site 3 an intermediate sample from 50 m was also collected. One to two litres of sample water was filtered through a 25 mm glass fibre filter (Whatman GF/F) under subdued lighting, and the filter was then stored in liquid nitrogen until analysis. To extract the pigments, the filters were cut into small pieces and covered with 100% acetone (3 mL) in a 10 mL centrifuge tube. The samples were vortexed for about 30 seconds and then sonicated in an ice-water bath for 15 minutes in the dark. The samples were kept in the dark at 4°C for approximately 15 hours. After this time 200 mL water was added to the acetone such that the extract mixture was 90:10 acetone:water (vol:vol) and sonicated once more in an ice-water bath for 15 minutes. The extracts were quantitatively transferred to a clean centrifuge tube and centrifuged to remove the filter paper. The final extract was filtered through a 0.2 µm membrane filter (Advantec MFS) prior to analysis by HPLC using a Waters–Alliance high performance liquid chromatography system, comprising a 2695XE separations module with column heater and refrigerated auto sampler and a 2996 photo-diode array detector. Immediately prior to injection the sample extract was mixed with a buffer solution (90:10, 28 mM tetrabutyl ammonium acetate, pH 6.5 methanol) within the sample loop. After injection, pigments were separated using a Zorbax Eclipse XDB-C8 stainless steel 150 mm x 4.6 mm ID column with 3.5 µm particle size (Agilent Technologies) and a binary gradient elution procedure. The flow rate was 1.1 mL min-1 and the column temperature was 55 oC. The separated pigments were detected at 436 nm and identified against standard spectra using Waters Empower software. Concentrations of chlorophyll a, chlorophyll b and ,-carotene in sample chromatograms were determined from standards (Sigma, USA) while all other pigment concentrations were determined from standards (DHI, Denmark).

Notes

Credit
Fisheries Research and Development Corporation (FRDC)

Created: 2018-06-25

Data time period: 2009-11-01 to 2015-04-30

This dataset is part of a larger collection

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147.71686,-43.01236 147.71686,-43.35482 147.36255,-43.35482 147.36255,-43.01236 147.71686,-43.01236

147.539703369,-43.1835920037

text: westlimit=147.362548828; southlimit=-43.3548230459; eastlimit=147.71685791; northlimit=-43.0123609615

text: uplimit=90; downlimit=0

Subjects
Biological Sciences | Biological Oceanography | Concentration of total pigment per unit volume of the water body | Downwelling vector irradiance as photons (PAR wavelengths) in the water body | EARTH SCIENCE | AGRICULTURE | AGRICULTURAL AQUATIC SCIENCES | AQUACULTURE | EARTH SCIENCE | BIOLOGICAL CLASSIFICATION | PROTISTS | FLAGELLATES | DINOFLAGELLATES | EARTH SCIENCE | OCEANS | OCEAN CHEMISTRY | PIGMENTS | CHLOROPHYLL | EARTH SCIENCE | OCEANS | OCEAN CIRCULATION | OCEAN CURRENTS | EARTH SCIENCE | TERRESTRIAL HYDROSPHERE | WATER QUALITY/WATER CHEMISTRY | Earth Sciences | Ecology | LI-COR LI-192 PAR sensor | Marine and Estuarine Ecology (Incl. Marine Ichthyology) | Oceanography | Pigment description | Sea-floor depth below surface of the water body | Secchi depth | Storm Bay | Temperate Reef | biota | research vessel |

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Other Information
(DATA ACCESS - Pigment sampling [direct download])

url : https://geoserver.imas.utas.edu.au/geoserver/wfs?version=1.0.0&request=GetFeature&typeName=imas:ECP_GEOSERVER_PIGMENT&outputFormat=csv

(PUBLICATION - Salmon Sub-program: Marine currents, nutrients and plankton in the coastal waters of south eastern Tasmania and responses to changing weather patterns.)

url : https://data.imas.utas.edu.au/attachments/3b002636-f1b2-441d-a135-f043df3c8c15/2014-031-DLD.pdf

MAP - Pigment sampling locations (imas:ECP_GEOSERVER_PIGMENT)

url : https://geoserver.imas.utas.edu.au/geoserver/wms

This OGC WFS service returns the data in subsettable CSV format. (imas:ECP_GEOSERVER_PIGMENT)

url : https://geoserver.imas.utas.edu.au/geoserver/wfs

(View and download this data through the interactive IMAS Data Portal.)

url : https://data.imas.utas.edu.au/portal/search?uuid=42a88891-570f-4def-b4d5-07ccf7bba269

global : 1ac5a95c-af8c-4eac-a81f-dec562ab44ab

Identifiers
  • global : 42a88891-570f-4def-b4d5-07ccf7bba269