January 2, 2001                                 R/PMEL
  
  
  
  
  
  MEMORANDUM FOR:    Rear Admiral Nicholas A. Prahl, NOAA
                     Director, Marine Operations Center
  
  FROM:              Eddie N. Bernard
                     Director
  
  SUBJECT:           Final Cruise Instructions: MF01-01 Leg1
                     NOAA Ship Miller Freeman
                     FOCI Cruise
                     January 28 - February 5, 2001
  
  
  Final cruise instructions for NOAA Ship Miller Freeman's FOCI cruise MF01-01 Leg1 are
  attached for your endorsement and distribution.  Please include the following addressees in
  your distribution:
  
       R/OSSx4 - Commander Fred Rossmann, NOAA
  
  
  Attachment
  
  cc:
  
  R/PMEL             - Hadden
  MOP   - Wright
  MF    - CO
  
  
  
  
  
  
  
  
  
  
  
  
  
  
                  FINAL CRUISE INSTRUCTIONS
                             FOCI
             Miller Freeman Cruise MF-01-01Leg 1
                 January 28-February 5, 2001 
                Morgan Busby, Chief Scientist 
            NOAA Alaska Fisheries Science Center 
                   7600 Sand Point Way, NE 
                  Seattle, Washington 98115 
                               
                               
                               
                               
                               
                               
                               
                               
                               
                               
                               
                        ENDORSEMENTS:
                               
                               
            ____________________________________ 
     RADM Nicholas Prahl, Director Pacific Marine Center 
                      Seattle, WA 98102
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  
  /s/ Eddie N. Bernard                                      /s/ James M. Coe                                                      
  Dr. Eddie N. Bernard, Director   Dr. James M. Coe, Science and Research Director
  Pacific Marine Environmental Laboratory    Alaska Fisheries Science Center
  Seattle, WA  98115          Seattle, WA  98115
  
  
  
                  FINAL CRUISE INSTRUCTIONS
                   NOAA Ship MILLER FREEMAN
                               
                  Cruise No:  MF01-01, Leg 1
                       FOCI No:  1MF01
                               
                         December 20, 2000
  
  
  Applicability: These instructions, with FOCI Standard Operating Instructions for NOAA Ship MILLER
  FREEMAN dated October 12, 2000 present complete information for this cruise.
  
  Area:
  Northern Gulf of Alaska
  
  Itinerary:
  Depart Kodiak, AK 1200 January 28, 2001 TNG
  Arrive Dutch Harbor, AK 1200 February 5, 2001 TNG
  
  Participating organizations:
  NOAA - Alaska Fisheries Science Center  (AFSC)
  NOAA - Pacific Marine Environmental Laboratory (PMEL)
  
  CRUISE DESCRIPTION:
  
  Fisheries-Oceanography Coordinated Investigations (FOCI) is an effort by NOAA and associated
  academic scientists.   At present, FOCI consists of a Shelikof Strait (western Gulf of Alaska) walleye
  pollock project, and a NOAA Coastal Ocean Program project: Southeast Bering Sea Carrying
  Capacity.  FOCI also supports associated projects, such as the Arctic Research Initiative, and U.S.
  GLOBEC, that address scientific issues related to FOCI.  FOCI's goal is to understand the effects of
  abiotic and biotic variability on ecosystems of the North Pacific Ocean and Bering Sea in order to
  discern the physical and biological processes that determine recruitment variability of commercially
  valuable finfish and shellfish stocks in Alaskan waters.
  
  CRUISE OBJECTIVES:
  
  We will be conducting bottom trawl sampling on the outer continental shelf and upper slope in the Gulf
  of Alaska beginning near Kodiak Island and ending near Sanak Island to collect ripe adult arrowtooth
  flounder (ATF).  We will also be deploying deep bongo plankton tows to collect their eggs. This work is
  needed to establish the appearance of arrowtooth flounder eggs in the plankton, so they can be
  identified with confidence in samples.  Data on physical characteristics of water in the area will also be
  collected. 
  
  
  1.0. PERSONNEL
  
  1.1. Chief Scientist:
  Busby, Morgan                    M/USA                    NOAA/AFS
                                                            C
  (206) 526-4113
  morgan.busby@noaa.gov
  
  The Chief Scientist has the authority to revise or alter the technical portion of the instructions as work
  progresses provided that, after consultation with the Commanding Officer, it is ascertained that the
  proposed changes will not: (1) jeopardize the safety of personnel or the ship; (2) exceed the overall time
  allotted for the project; (3) result in undue additional expenses; (4) alter the general intent of these
  project instructions.
  
  
  
  1.2  Participating Scientists:  
  Blood, Deborah              F/USA                    NOAA/AFSC
  Chilton, Elizabeth          F/USA                    NOAA/AFSC
  Floering, William           M/USA                    NOAA/PMEL
  Matarese, Ann               F/USA                    NOAA/AFSC
  Muto, Fumihito              M/JAPAN             Hokkaido University
  
  1.3  NOAA Pacific Marine Center Operations Contact:
  Larry Mordock
  NOAA/Marine Operations Center-Pacific (MOP/1)
  1801 Fairview Ave. East
  Seattle, WA  98102-3767
  (206) 553 - 4764
  Larry.Mordock@noaa.gov
  
  1.4  Program Contacts:
  Dr. Jeffrey Napp
  AFSC
  7600 Sand Point Way NE
  Seattle, WA  98115
  (206) 526-4148
  jeff.napp@noaa.gov
  
  2.0. OPERATIONS
  
  A standard oceanographic watch will be utilized which consists of a winch operator, a scientific staff of
  two and a Survey Tech on deck. Operations will be conducted 24 hours a day.  A fishing crew will be
  required to assist with bottom trawls which will be conducted in daytime and nighttime. 
  
  2.1. SUMMARY OF ACTIVITIES:
  Ship will proceed to the vicinity of line A, station 1 (appendices 1 and 2), and locate trawlable bottom at
  a depth of 200 m to deploy the first bongo tow and bottom trawl.  This sampling will be repeated at two
  stations along a line moving offshore at depths of 400 and 600 m.  Five additional lines (B-F) consisting
  of three stations of 200, 400, and 600 m depth are planned to be occupied during the survey.  
  Whenever ATF eggs or ripe adults are found, a CTD cast with bottles will be deployed to collect data on
  the physical properties of water at the bottom and water for holding live eggs.  We will then attempt to
  fertilize eggs from gravid females with sperm from ripe males aboard ship.  Live eggs will be held in
  gallon jars placed in a constant temperature referigerator at 3-4 C until the end of the cruise.  If ripe
  female and male ATF are not collected, a sample of up to 50 adult ATF will be lengthed and dissected
  to determine sex and estimate maturity state.  Bottom trawl and bongo sampling will continue until
  time allotted for the survey expires regardless of whether or not ripe adult ATF or suspected ATF eggs
  are found.  A representative of the RACE Division, Alaska Fisheries Science Center, in Seattle, WA will
  contact the Miller Freeman by Inmarsat if ripe adult ATF are encountered in the Alaska commercial
  fishery and reported by the Observer Program.  In this event, operations will be moved to the locality
  reported, if within the time constraints of the cruise.
  
  2.2   PROCEDURES FOR OPERATIONS:
  The following are operations to be conducted on this cruise.  The procedures for these operations are
  listed in the FOCI SOI.  Operations not addressed in the SOI and changes to standard procedures are
  addressed below.  
  
  Bottom trawl 
  MARMAP bongo tow  (SOI 2.2.2)
  CTD/Water samples   (SOI 2.2.1)
  EK500 monitoring  (SOI 2.2.12)
  
  A poly nor'eastern bottom trawl with roller gear will be used to collect live adult ATF to spawn on board
  ship to obtain live fertilized eggs.  After deployment and settling of the net on bottom, it will be towed for
  15 minutes at a speed of 1.5 m/sec.  Location and duration of  trawls, however, may be altered if
  bottom conditions will not allow a complete haul.  ATF will be the only species processed from the
  catch.   In the event of a large catch, only subsamples of ATF will be processed.  Eggs will be stripped
  from gravid ATF females and mixed with milt from ripe males and then counted and placed in gallon jars
  and held in a constant temperature refrigerator at 3-4 C until the end of the cruise.  Niskin bottles (10
  liter) will be deployed to collect water at the bottom for holding and transporting eggs.  Bongo tows
  using the 60 cm array will be conducted at each station.  Bongo tows will be deployed to within 10 m of
  the bottom to a maximum depth of 500 m.  From each bongo tow, one sample will be examined at sea
  for the presence of possible ATF eggs and the other will be preserved and processed ashore.  At the
  end of the cruise, any live eggs collected will placed in thermoses and coolers for transport by air to
  Seattle.
  
  3.0. FACILITIES AND EQUIPMENT
  
  The following systems and their associated support services are essential to the cruise.  Sufficient
  consumables, back-up units, and on-site spares and technical support must be in place to assure that
  operational interruptions are minimal.  All measurement instruments are expected to have current
  calibrations, and all pertinent calibration information shall be included in the data package.  
  
  3.1  Equipment and Capabilities to be Provided by the Ship
  
  Oceanographic winch with slip rings and 3-conductor cable terminated for CTD,
  
  Wire-angle indicator and readout for oceanographic winch,
  
  Oceanographic winch for bongo net (and other nets when used) with slip rings and 3-conductor cable
  terminated for the SeaCat,
  
  Sea-Bird 911 plus CTD system with stand (back up system)
  (Each CTD system should include  underwater CTD,  weights, and pinger and there should be one deck
  unit and tape recorder for the two systems),
  
  For CTD field corrections:  AUTOSAL salinometer,
  
  Sea-Bird SBE-19 Seacat system (backup system),
  
  Meter block for plankton tows,
  
  Wire speed indicators and readout for quarterdeck,
  
  Refrigerator for live fish eggs,
  
  Blast freezer for fish specimens,
  
  Simrad EQ-50 echo sounder ,
  
  JRC JFV-200R color sounder recorder,
  
  Use of Pentium PC in DataPlot for data analysis, 
  
  SCS (Shipboard Computer System),
  
  Furuno net sounder,
  
  Stern platform removed for trawl ramp use, 
  Laboratory space with exhaust hood, sink, lab tables and storage space,
  
  Sea-water hoses and nozzles to wash nets (quarterdeck and aft deck),
  
  Sorting table,
  
  Adequate deck lighting for night-time operations,
  
  Navigational equipment including GPS and radar ,
  
  Safety harnesses for working on quarter deck and fantail,
  
  3.2  Equipment to be Provided by the Project
  
  Sea-Bird 911 plus CTD system
  
  Sea-Bird SBE-19 Seacat system (primary system), 
  
  PMEL PC with SEASOFT software for CTD data collection and processing, 
  
  Fluorometer, light meter, and chlorophyll absorbance meter (ChlAM) to be mounted on CTD, 
  
  CTD stand modified for attachment of fluorometer, 
  
  Conductivity and temperature sensor package to provide dual sensors on the primary CTD, 
  
  CTD rosette sampler, 
  
  IAPSO water,
  
  60-cm bongo sampling arrays, 
  
  Poly Nor'eastern bottom trawl with roller gear with doors,
  
  Spare wire angle indicator,  
  
  Miscellaneous scientific sampling and processing equipment , 
  
  Sorting tables and baskets for processing trawl catches,  
  
  Motion compensating scale,
  
  Discrete Sample Data Base software and forms, 
  
  Microscope for examining, sorting, and measuring fish eggs, 
  
  Thermoses and coolers for transporting live eggs.
  
  
  3.3.  Ship's Computer System (SCS)
  The ship's Scientific Computer System (SCS) shall operate throughout the cruise, acquiring and
  logging data from navigation, meteorological, oceanographic, and fisheries sensors.  See FOCI
  Standard Operating Instructions for specific requirements. 
  
  
  
  4.0  DATA AND REPORTS
  
  Data disposition, responsibilities and data requirements are listed in the FOCI Standard Operating
  Instructions.
  
  
  
  5.0  ADDITIONAL INVESTIGATIONS AND PROJECTS
  
  5.3  Piggyback projects: 
  At the beginning of the cruise, an oceanographic mooring located in Chiniak Bay will be retreived and
  necessary instruments serviced or replaced, and then redeployed for the Kodiak NMFS Laboratory. 
  When time allows, fin clips and or/tissue samples will be collected from sculpins (family Cottidae) and
  frozen or preserved in  preserved in 95% ethanol for a study of the molecular phylogeny of this family of
  fishes.  Carcasses of the sampled fish will be labeled and frozen or preserved in 10% formalin.  This
  sampling is being conducted for Dr. Fumihito Muto, Laboratory of Marine Biodiversity, Hokkaido
  University, Hakodate, Japan.  In addition, we will be collecting data from Pacific ocean perch (Sebastes
  alutus), dusky rockfish (S. ciliatus) and northern rockfish (S. polyspinus) for an age at maturity study in
  the Gulf of Alaska.  Fish will be selected from each haul using stratified random sampling based on two
  individuals per 1 cm length interval for each sex of each species.  Fork length, somatic weight, gonad
  weight and macro-maturity stage will be recorded for each fish.  Otoliths and gonads will be collected
  from these fish.  The gonad samples will be preserved in 10% neutral buffered formalin.  Digital photos
  of gonads may be taken of certain maturity stages for future comparison with microscopically
  determined maturity stages of the gonads.  This sampling is being conducted for Ms. Elizabeth Chilton,
  Alaska Fisheries Science Center, Kodiak Laboratory.
  
  
  6.0  MISCELLANEOUS
  
  6.5.  Hazardous Materials:
  The Chief Scientist shall be responsible for complying with NC Instruction 6280A, Hazardous Waste;
  policy, guidance, and training, dated February 4, 1991, paragraph 7.g and paragraph 9. By federal law,
  the ship may not sail without a complete inventory of MSDS, and appropriate neutralizing agents,
  buffers, and/or absorbents in amounts adequate to address spills of a size equal to the amount aboard.
  
  The following hazardous materials will be provided and controlled by the scientists with the Chief
  Scientist assuming responsibility for the safe handling of such substances:
  
  Ethyl Alcohol (Ethanol)
  
  Formaldehyde
  
  Stockards solution
  
  
   7.0  COMMUNICATIONS
  
  7.4  Important phone numbers, fax numbers and e-mail addresses:
  
  AFSC/RACE Fax:   (206) 526-6723
  
  MILLER FREEMAN COMSAT (government account numbers): These are much cheaper than Inmarsat
  direct numbers and should always be used first.
  
                              800-678-0872, after voice prompt dial 330-394-113,
  after tone dial customer ID# (Voice)
                              800-678-0872, after voice prompt dial 761-267-348,
  after tone dial customer ID# (Fax)
  
                              Inmarsat (direct numbers)
                              011-872-330-394-113 (voice)
                              011-872-761-267-348 (fax)
  
  CELLULAR: 206-660-7167
  KODIAK ROAMER: 907-528-7626
  DUTCH HARBOR ROAMER: 907-391-7626
         (First dial the roamer, wait for dial tone, then dial cellular number.)
  
  AFSC person: Firstname.lastname@noaa.gov
  PMC radio room:   Radio.Room@noaa.gov
  Direct to ship:   noaa.ship.Miller.Freeman@noaa.gov
             (include the person's name in the subject field)
  
  
  8.0 APPENDICES
  
  Appendix 1.  Approximate beginning positions for sampling lines.
  
  
  Line
  DecDeg
  DecMin
  
  
  A
  57.972
  150.037
  
  
  B
  57.238
  151.317
  
  
  C
  56.531
  151.948
  
  
  D
  55.675
  155.317
  
  
  E
  F
  54.466
  54.000
  159.150
  163.000
  
                              
  Appendix  2.  Map showing line starting points (attached).