Transcript Goals for Team Micro

(on the Wecoma)
Wecoma
Cruise
Schedule
Wecoma Cruise Schedule (week 1)
Wecoma Cruise Schedule (week 2)
Wecoma Cruise Schedule (week 3)
Wecoma
Cruise
Coastal
Lines
CTD profiles (all stations)
Water samples
Sediment samples
* Sediment samples can also
be collected on Strawberry
Hill and Cape Meares lines
Water sample analyses
• DNA & RNA samples (30 L per sample)
– Community fingerprinting
– Transcriptomics
• CARD-FISH filter preparation (0.05 L)
• Chemistry (5 L)
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Dissolved Inorganic Nutrients: NO3+NO2, NO2, NH4, PO4
Dissolved Organic Carbon
Particulate Organic Carbon and Nitrogen
Chlorophyll a
Suspended Particle Mass in estuary and plume only
• Bacterial Production (0.1 L)
• Bacterial and Total Respiration (5 L)
• Bacterial Abundance (0.02)
Sediment analyses
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Community fingerprinting
Transcriptomics
Membrane lipid analysis
Characterization of geochemical gradients
Wecoma Cruise Scientific Personnel
Name
Levine, Murray
Waldorf, Walt
Risien, Craig
Wet Labs Person
Crump, Byron
Apple, Jude
Green, Joanna
Fortunato, Caroline
NEED PERSON
Sheehan, Carolyn
Murphy, Daniel
NEED PERSON
NEED PERSON
NEED PERSON
Hubbard, Dale
Tratnyek person
O’Gorman, Dave
Newell, Sonya
Open Berth
Open Berth
Open Berth
Inst.
OSU
OSU
OSU
Watch
Day
Day
Day
Day
Day
Day
Day
Day
Day
Day
Day
14
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X
X
X
X
15
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31
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UMCES
UMCES
UMCES
UMCES
OHSU
OHSU
OHSU
Acti vity
mooring
mooring
mooring
mooring
Chief Sci
water
water
water
water
water
water
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OSU
OSU
OSU
OHSU
OSU
OSU
CTD
CTD
coring
coring
Mar Tech
Mar Tech
Day
Night
Day
Day
Day
Night
X
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O
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Loading: Aug 13
• Mooring equipment (Murray Levine, Walt Waldorf,
Craig Risien, Wet Labs person)
• Coring equipment (Dale Hubbard)
• CTD setup & sensor installation (Dave O’Gorman,
Sonia Newell, Michael Wilkin)
• DNA/RNA filtering station (Daniel Murphy, Carolyn
Sheehan, MAYBE NEED PERSON?)
• Nutrients, POC/N, chlorophyll filtering stations
(Carolyn Fortunato, NEED PERSON)
• Bacterial production & respiration stations (Jude
Apple)
Leg 1: Aug 14-15 (mooring)
• Mooring placement (Murray Levine, Walt Waldorf,
Craig Risien, Wet Labs person)
• CTD daytime (Dave O’Gorman, NEED PERSON)
• CTD nighttime (Sonya Newell, NEED PERSON)
• Practice water sample collection and processing
– Practice DNA/RNA processing (Daniel Murphy, Carolyn
Sheehan, MAYBE NEED PERSON?)
– Practice POC/N filtration, nutrients (Carolyn Fortunato)
– Practice chlorophyll filtrations (NEED PERSON)
– Practice bacterial productions and respirations (Jude Apple)
• 0 empty berths
Leg 2: Aug 15-23 (Coast & plume)
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CTD daytime (Dave O’Gorman, NEED PERSON)
CTD nighttime (Sonya Newell, NEED PERSON)
Water sample collection (everyone)
DNA/RNA processing (Daniel Murphy, Carolyn
Sheehan, MAYBE NEED PERSON?)
POC/N filtration, nutrients (Carolyn Fortunato)
Chlorophyll filtrations (NEED PERSON)
Bacterial production and respiration (Jude Apple)
2 empty berths
Leg 3: Aug 23-31 (Estuary & plume)
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CTD daytime (Dave O’Gorman, NEED PERSON)
CTD nighttime (Sonya Newell, NEED PERSON)
Water sample collection (everyone)
DNA/RNA processing (NEED PERSON, Carolyn
Sheehan, MAYBE NEED PERSON?)
POC/N filtration, nutrients (Carolyn Fortunato)
Chlorophyll filtrations (NEED PERSON)
Bacterial productions and respirations (Joanna Green)
4 empty berths
Issue 1: Post-Cruise
• Need Shore-side Assistance with sample transport someone to meet the ship
– DNA/RNA samples - Transport to OHSU in coolers of dry ice.
– POC/N, Chlorophyll, TDN/TDP, DOC, CARD-FISH, SPM Transport to OHSU in coolers of dry ice.
– Nutrient samples - Transport to OSU in coolers of dry ice.
• Shipping to Maryland - need to figure out how to do
this
• Radioisotope - OSU rad safety will meet ship and mail
samples to Maryland.
Issue 2: Communications
• E-mail with shipboard address via Quick
pidgeon messenger service
• Internet - expensive, discouraged
• Ship-to-ship communication?
• Telephone?
• Cell Phones?
Issue 3: Limited Expertise
• Scientific Leadership
– 1 PI (Crump)
– 1 post-doc (Apple, 1/2 of cruise)
• Technical expertise
– CTD?
Issue 4: Site selection
• Use Corie output to pre-select sampling
stations
• Coastal sites - span upwelling fronts or other
transition zones
• Plume - span the plume front (2-4 times in 2
different 2-day periods
• Estuary - sample surface waters at specific
salinities, identify with surface flow-through
system
Issue 5: Estuary operations
• Estuary operations (3 days)
– Goal - 3 river-ocean transects across salinity
gradient while Barnes samples ETMs
– 10 to 15 samples per transect
– Only sample during day
– Cannot sample at peak tides
• Can we predict the salinity field in the estuary
to estimate when and where to sample?
• What do we do at night?
Cruise goals
• Mooring placement at station NH-10 along the
Newport Hydroline.
• Occupy a grid of stations over the Oregon and
Washington continental shelf and slope to map
hydrographic, bio-optical, biological and chemical
parameters.
– Identify and characterize gradients
– Relate gradients to patterns in microbial activity, community
composition, and genetic expression
– Combine these data with ADCP measurements of
subsurface velocity to explore biophysical interactions.
• Make continuous measurements of surface water
chemistry for higher resolution mapping.
Micro cruise goals
• Collect water samples for DNA- and RNA-based
microbial community analyses across environmental
gradients in pelagic environments of the Columbia
River estuary, the Columbia River plume, and along
established sampling lines along the Oregon and
Washington coasts.
• Collect sediment samples with the multicorer at
select sites along the Newport Hydroline and the
Columbia River Line to characterize surface sediment
microbial groups of special interest such as
Crenarchaeota or Anammox bacteria.
Questions
• How are planktonic & benthic microbial
diversity and activity distributed across riverestuary-coastal ecosystems?
• What gradients influence microbial diversity,
activity & gene expression?
• How does diversity relate to temporal stability
in an environment? (i.e., at what point does a
transition zone become a stable
environment?)
Goals
• Use nowcast/forecast system to locate
environmental gradients and select
sampling sites.
• Use ship to ship communication to
coordinate ETM sampling.
Coastal Margin Science: Microbial
Communities in Productive Coastal Margins
• Determine how microbial populations form
across the physical and chemical gradients of
the Columbia River river-to-ocean system and
to uncover the microbial-mediated activities
therein.
• Central theme of cruises
• Too many samples? Cruise too long?
Coastal Margin Science: Ecosystem
Dynamics, Climate and Water Use
• Describe physical characteristics of the
estuary and plume
– Are these cruises contributing to this goal?
• Provide guidance for microbial sampling
– In the works
• Ecosystem dynamics, biological productivity,
air-sea carbon fluxes
– Not well addressed. No surface mapping of O2,
CO2, and pigments. No primary production. No
zooplankton sampling.
Enabling Technologies: Sensors
• No sensors being tested (yet)
• Nucleic acid hybridization array
– Cruise provides data for array development
• Airborne remote sensing
– Collecting data during cruise
Enabling Technologies: Information and
Visualization