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Moore C.C. = CMORE Hale Moore Conference Center
Week 1: MICROBES AS DRIVERS OF BIOGEOCHEMICAL CYCLES
- Visiting faculty: D. Bronk, S. Chisholm, P. Gasol, D. Repeta, A. White
- Local Faculty: D. Böttjer, M. Church, D. Karl, M. Rappé, G. Steward
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Saturday, May 26 thru Monday, May 28 |
Students arrive and check into Frear Hall at the University of Hawai‘i at Mānoa |
UH Mānoa |
Tuesday, May 29 |
Introduction / Orientation |
C-MORE Hale |
0830-0915 |
Matt Church: Welcome (5MB .ppt) |
Moore C.C |
0915-1045 |
Dave Karl: “Microbial Oceanography: Its Scope, Challenges and Opportunities” (42MB .pptx) |
Moore C.C |
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Readings (PDFs):
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1045-1100 |
Break |
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1100-1200 |
BioSafety (Steve Case) |
Moore C.C. |
1200-1300 |
Lunch (brown-bag) |
MSB 307 |
1300-1415 |
Lab Safety (Hans Nielsen) |
Moore C.C. |
1415-1430 |
Break |
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1430-1630 |
Rad Safety (Irene Sakamoto) |
Moore C.C. |
1630-1800 |
Welcome Mixer |
C-MORE Hale |
Wednesday, May 30 |
Daily Theme: “Elemental Cycling in the Sea” |
C-MORE Hale |
0900-1015 |
Dan Repeta: “The ocean carbon cycle” (10MB .pptx) |
Moore C.C |
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Readings (PDFs):
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1015-1045 |
Break |
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1045-1200 |
Debbie Bronk: “Nitrogen cycling in the ocean” (6MB .ppt) |
Moore C.C |
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Readings (PDFs):
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1200-1400 |
Lunch (brown-bag) |
MSB 307 |
1400-1515 |
Dave Karl: “Phosphorus in the Sea: New Views of an Old Cycle” (60MB .ppx) |
Moore C.C |
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Readings (PDFs):
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1515-1545 |
Break |
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1545-1700 |
Matt Church: “Cruise planning/information” |
Moore C.C. |
Thursday, May 31 |
Daily Theme: “Primary Production and Nutrient Cycling ” |
C-MORE Hale |
0900-1015 |
Angelicque White: “Remote sensing of primary productivity” (13MB. pptx) |
Moore C.C |
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Readings (PDFs):
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1015-1045 |
Break |
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1045-1200 |
Pep Gasol: “Bacterial production, growth efficiencies, leucine conversion factors and the energy limitation of oceanic bacteria” (10MB .pdf) |
Moore C.C |
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Readings (PDFs):
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1200-1400 |
Lunch (brown-bag) |
MSB 307 |
1400-1515 |
Dan Repeta: “Substrate specificity in microbial carbon utilization” (112MB .ppt) |
Moore C.C |
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Readings (PDFs):
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1515-1545 |
Break |
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1545-1700 |
Debbie Bronk: “DON sources: methods and processes” (14MB .ppt) |
Moore C.C |
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1800 |
Paradise Cove Luau (optional attendance)
Debbie Bronk is coordinating; please RSVP to Debbie if you plan to attend. |
Paradise Cove |
Friday, June 01 |
Daily Theme: “Detection of microbes and particles” |
C-MORE Hale |
0900-1015 |
Sallie Chisholm: “Phytoplankton Size and the multiple discoveries of Prochlorococcus” (26MB .pdf) |
Moore C.C |
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Readings (PDFs):
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1015-1045 |
Break |
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1045-1200 |
Angelicque White: “Nitrogen fixation in the Gulf of California: A case study in the many ways we detect phytoplankton in the ocean” (16MB .pptx) |
Moore C.C |
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Readings (PDFs):
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1200-1400 |
Lunch (brown-bag) |
MSB 307 |
1400-1515 |
Pep Gasol: “Flow cytometry to detect heterotrophs and their physiological status” (20MB .pdf) |
Moore C.C |
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Readings (PDFs):
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1515-1545 |
Break |
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1545-1630 |
Grieg Steward: “Introduction to molecular methods in microbial ecology” |
Moore C.C |
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1630-1715 |
Matt Church: “Introduction to Station ALOHA” |
Moore C.C. |
Saturday, June 02
0830-1400 |
Symposium 1:
“Organic Matter Cycling in the Sea”
Moderated by Dave Karl
For more information, download the flyer PDF.
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CMORE Hale Moore Conference Center |
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0830 |
Coffee |
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900-1000 |
Dan Repeta: “The composition of dissolved organic matter — how is it determined and what can it tell us?” (8MB .ppt) |
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1000-1100 |
Debbie Bronk: “DON bioavailability & approaches to study N uptake” (18MB .pptx) |
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1100-1130 |
Break |
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1130-1230 |
Angelicque White: “Dissolved organic phosphorus utilization” (25MB .pptx)
Readings (PDFs):
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1230-1330 |
Pep Gasol: “Group-specific approach to describe the role of bacteria on organic matter cycling” (17 MB .pdf)
Readings (PDFs):
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1330-1400 |
Wrap up discussion |
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1400-1600 |
Late lunch provided |
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Sunday, June 03 |
Hanauma Bay snorkeling with Ken |
Free Day |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
Week 2: MICROBIAL OCEANOGRAPHY: GENOMES TO BIOMES
- Visiting Faculty: E. Allen, S. Chisholm, E. DeLong, N. Krypides, J. Zehr
- Local Faculty: D. Böttjer, M. Church, D. Karl, M. Rappé, G. Steward
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Monday, June 04 |
Daily Theme: “Student Research Talks” |
Moore C.C. |
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0900-1015 |
Student research talks |
Moore C.C. |
1015-1045 |
Break |
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1045-1200 |
Student research talks |
Moore C.C. |
1200-1330 |
Lunch (brown-bag) |
MSB 307 |
1330-1500 |
Student research talks |
Moore C.C. |
1500-1530 |
Break |
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1530-1700 |
Cruise planning meeting |
Moore C.C. |
Tuesday, June 05 |
Daily Theme: “Introduction to marine microbial genomics” |
C-MORE Hale |
0900-1015 |
Ed DeLong: “Introduction: Marine microbes and genomics” (40MB .ppt) |
Moore C.C. |
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Readings (PDFs):
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1015-1045 |
Break |
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1045-1200 |
Jon Zehr: “Ecology of marine N2 fixation: use of genes and genomics” (22MB .pptx) |
Moore C.C. |
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1200-1330 |
Faculty brownbag lunch: Zehr & DeLong faculty introductory chat |
MSB 307 |
1330-1500 |
Nikos Kyrpides: “Annotation of microbial genomes” (Part 1 9MB .pptx Part 2 4MB .pptx) |
Moore C.C. |
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1500-1530 |
Break |
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1530-1700 |
Eric Allen: “Genome assembly: genomics & metagenomics” (19MB .pptx) |
Moore C.C. |
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1800 |
Group Dinner (to be organized by students) |
TBD |
Wednesday, June 06 |
Daily Theme: “Comparative Genomics — Theory and applications” |
C-MORE Hale |
0900-1015 |
Sallie Chisholm: “Genomics of the oceans most abundant phototroph and its phage partners” (29MB .pdf) |
Moore C.C |
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Readings (PDFs):
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1015-1045 |
Break |
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1045-1200 |
Jon Zehr: “Solving the mystery of an enigmatic N-fixing cyanobacterium” (29MB .pptx) |
Moore C.C. |
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1200-1330 |
Faculty brownbag lunch: Kyrpides & Allen faculty introductory chat |
MSB 307 |
1330-1700 |
Lectures & Computer Lab I: “Genomic and metagenomic web-based analytical tools” |
Moore C.C. |
1330–1500 |
Nikos Kyrpides: “Introduction to IMG and IMG/M ”
Lab: “Logging in and Surfing around IMG”
(Part 1 10MB .pptx;Part 2 6MB .pptx) |
Moore C.C. |
1530-1700 |
Eric Allen: “Introduction to CAMERA” (21MB .pptx)
Lab: “Logging in and Surfing around CAMERA” |
Moore C.C. |
Thursday, June 07 |
Daily Theme: “Metagenomics & metaranscriptomics |
C-MORE Hale |
0900-1015 |
Eric Allen: “Microbial metagenomics in extreme environments” (41MB .pptx) |
Moore C.C. |
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1015-1030 |
Break |
1030 -1200 |
Ed DeLong: “Marine microbial metatranscriptomics” (32MB .pptx) |
Moore C.C |
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Readings (PDFs):
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1200-1330 |
Lunch |
MSB 307 |
1330-1700 |
Computer Lab II “Genomic and metagenomic analysis using IMG, IMG/M and CAMERA”
Nikos Kyrpides: “Annotating a new microbial genome using IMG”
Eric Allen: “Analyzing metagenomic datasets using CAMERA” |
Moore C.C. |
Friday, June 08 |
Daily Theme: “Metagenomics & metaranscriptomics (con’t)” |
C-MORE Hale |
0900-1200 |
Students working independently on genome/metagenome analyses |
C-MORE Hale |
1200-1400 |
Lunch |
MSB 307 |
1400-1600 |
Regroup to discuss genome analyses |
Moore C.C. |
1600-1700 |
Matt Church: “Introduction to Station ALOHA” (15MB .pptx) |
Moore C.C. |
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Saturday, June 09
0830-1400 |
Symposium 2:
“Marine bacteria and cyanobacteria — genotypes, phenotypes, and ecology”
Moderated by Grieg Steward
For more information, download the flyer PDF.
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CMORE Hale Moore Conference Center |
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0830 |
Coffee |
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900-1000 |
Sallie Chisholm: “The power of Diversity: What Prochlorococcus can teach us about life” (49MB .pptx)
Readings (PDFs):
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1000-1100 |
John Waterbury: “Ecology of marine cyanobacteria” (32MB .ppt) |
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1100-1130 |
Break |
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1130-1230 |
Eric Allen: “Marine microbial secondary lipids: from biomes to biotechnology” (9MB .pptx) |
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1230-1330 |
Ed DeLong: “Microbial community structure, function, and dynamics: An ‘omics’ perspective” (41MB .pptx) |
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1330-1400 |
Wrap up discussion |
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1400-1600 |
Late lunch reception |
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Sunday, June 10
0830-1500 |
Loading Research Vessel Kilo Moana |
Snug Harbor |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
Week 3 & 4: RESEARCH CRUISE IN THE SUBTROPICAL NORTH PACIFIC OCEAN
- Faculty: K. Björkman, D. Böttjer, M. Church, M. Rappé, J. Waterbury
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Monday, June 11 – Wednesday, June 20 |
RESEARCH CRUISE |
R/V Kilo Moana |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
Week 4: LABORATORY AND GENOME ANALYSES |
Wednesday, June 20 |
Return to Honolulu |
R/V Kilo Moana |
0800 |
Return to Snug Harbor, offload research vessel |
Snug Harbor |
1100-1200 |
Return to UH Mānoa campus; students check into Frear Hall |
UH Mānoa |
1400-1700 |
UH laboratory analyses |
C-MORE Hale |
Thursday, June 21
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
Friday, June 22
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
Saturday, June 23 |
Daily Theme: “UH faculty research talks” |
C-MORE Hale |
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0900-1000 |
Daniela Böttjer: "Diazotroph activity and community structure at Station ALOHA under different CO2 conditions" (47MB .pptx) |
Moore C.C. |
1000-1100 |
Matt Church: “Dynamics of nitrogen cycling microorganisms in the open sea” (11MB .pptx) |
Moore C.C. |
1100-1130 |
Break |
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1130-1230 |
Dave Karl: “Elements of Microbial Oceanography” (32MB .pptx) |
Moore C.C. |
1200-1330 |
Lunch |
Outside
C-MORE Hale |
1330-1430 |
Karin Björkman: “Phosphorus in the Oligotrophic North Pacific Subtropical Gyre” (27MB .pptx) |
Moore C.C. |
1430-1530 |
Grieg Steward: “Viruses Rule the Sea” (10MB PDF) |
Moore C.C. |
1530-1600 |
Break |
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1600-1700 |
Mike Rappé: “The structure of bacterial communities in the NPSG” (45MB .pptx) |
Moore C.C. |
Sunday, June 24 |
Free Day for students to explore O‘ahu |
Free Day |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
Week 5: LABORATORY AND GENOME ANALYSES |
Monday, June 25
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
Tuesday, June 26
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
Wednesday, June 27
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
Thursday, June 28
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
Friday, June 29
0900-1700 |
Shark’s Cove snorkeling with Ken |
Free Day |
Saturday, June 30
0900-1700 |
UH laboratory analyses |
C-MORE Hale |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
Week 6 (part 1): MICROBIAL OCEANOGRAPHY IN THE 21ST CENTURY
- Visiting Faculty: S. Chisholm, M. Follows, K. Johnson, O. Schofield
- Local Faculty: D. Böttjer, M. Church, D. Karl, M. Rappé, G. Steward
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Sunday, July 01 |
Daily Theme: “Ocean biogeochemistry: from observations to models” |
C-MORE Hale |
0900-1015 |
Mick Follows: “Physical circulation of the ocean and nutrient supply to the euphotic zone” (173MB .pptx) |
Moore C.C. |
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1015-1030 |
Break |
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1030-1200 |
Oscar Schofield: “Emerging assets and capabilities for observing ocean dynamics” (150MB PDF)
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Moore C.C. |
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1200-1330 |
Lunch (brown-bag) |
MSB 307 |
1330-1445 |
Ken Johnson: “Observing microbial processes at the global scale” (29MB .pptx) |
Moore C.C |
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Readings (PDFs):
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1500-1530 |
Break |
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1445-1700 |
Mick Follows: Hands on Ocean Data View tutorial
Students and Faculty: Synthesis of cruise data |
Moore C.C. |
Monday, July 02 |
Daily Theme: “Oceanography: Predictions, projections, and the human dimension” |
C-MORE Hale |
0900-1015 |
Sallie Chisholm: “From Synthetic Biology to Geoengineering: Where is the biosphere headed?” (19MB .pptx) |
Moore C.C |
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Readings (PDFs):
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1015-1030 |
Break |
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1030-1200 |
Ken Johnson: “Iron: the other limiting nutrient” (24MB .pptx) |
Moore C.C |
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Readings (PDFs):
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Moore C.C. |
1200-1330 |
Lunch (brown bag) |
MSB 307 |
1330-1445 |
Mick Follows: “Models of ocean biogeochemistry and ecology: Do we have predictive capability?” (155MB .pptx) |
Moore C.C. |
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1445-1500 |
Break |
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1500-1615 |
Oscar Schofield: “Hot days in polar seas and trended changes in the melting polar seas” (300MB PDF) |
Moore C.C. |
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1615-1730 |
Students and Faculty: Synthesis of cruise data |
Moore C.C. |
Tuesday, July 03 |
Daily Theme: “Detecting plankton biomass, physiology, and metabolism” |
C-MORE Hale |
0900-1015 |
Ken Johnson: “Observing ocean metabolism from profiling floats” (11MB .pptx) |
Moore C.C. |
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Readings (PDFs):
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1015-1030 |
Break |
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1030-1200 |
Oscar Schofield: “Techniques for measuring plankton biomass and physiology” (27MB .pptx) |
Moore C.C. |
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1200-1330 |
Lunch (brown bag) |
MSB 307 |
1330-1445 |
Mick Follows: “Models of microbial physiology: A potted history” |
Moore C.C. |
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1445-1700 |
Mick Follows: Hands-on microbial modeling tutorial: "Resource competition and the paradox of the plankton” |
Moore C.C. |
1700 |
BBQ at Kaimana Beach |
Kaimana Beach |
Wednesday, July 04
Independence Day |
Free Day to explore O‘ahu |
Free Day |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
Week 6 (con’t): SYNTHESIS AND INTEGRATION |
Thursday, July 05
0900-1700 |
Synthesis of cruise/genome data, preparing final presentations |
C-MORE Hale |
Friday, July 06 |
Symposium and End of Course |
C-MORE Hale |
1000-1200 |
Student Research Symposium (52MB .pptx)
Summer course farewell video (154MB .wmv opens in a new window)
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Moore C.C. |
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1200-1330 |
Lunch |
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1330-1430 |
Course evaluations |
Moore C.C. |
1730-2000 |
Farewell Gala – End of course |
Waikiki Aquarium |
Saturday, July 07 |
Free day to explore O‘ahu |
Free Day |
Sunday, July 08 |
Students check out of Frear Hall |
UH Mānoa |
[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6a | Week 6b ] [ Symposium 1 | Symposium 2 ]
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