Jump to: [ Week 1 | Week 2 | Week 3 | Week 4 | Week 5 ] [ Student Research Symposium and Final Presentations ] |
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Week 1: The Ocean as a Habitat
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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 |
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Tuesday, May 28 |
Welcome and laboratory safety training (Lab_lecture_v2 8MB .ppt) |
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0830–0915 |
Welcome (3MB .ppt)
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0915–1030 |
David Karl: An Introduction to Microbial Oceanography (47MB .ppt)
Readings (PDFs):
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1030–1045 |
Coffee break |
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1045–1145 |
Lab safety training |
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1145–1315 |
Lunch |
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1315–1415 |
Biosafety training |
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1415–1430 |
Break |
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1430–1630 |
Radiation safety training |
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1630– |
Welcome Mixer |
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Wednesday, May 29 |
Processes and patterns in microbial carbon and nutrient cycles |
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0900–1015 |
John Cullen: Light, nutrients, and primary productivity (10MB PDF) Readings (PDFs): |
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1015-1030 |
Coffee break |
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1030–1145 |
Dan Repeta: The marine carbon cycle: pools, inventories, fluxes (2MB .ppt) Readings (PDFs):
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1145-1330 |
Lunchtime Brown Bags (Campus Center Room 203A) |
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1330–1445 |
David Karl: Ocean nutrient cycling: Distributions, processes, and fluxes (39MB .pptx) Readings (PDFs):
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1445–1600 |
Ginger Armbrust: Earth's history, evolution and the emergence of eukaryotic phytoplankton |
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1600–1615 |
Break |
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1615–1730 |
Ken Johnson: Observing ocean biogeochemistry in the 21st century with robotic systems: patterns and processes of microbial nutrient cycling, production and remineralization, Part 1 (30MB .pptx) Readings (PDFs): |
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Thursday, May 30 |
Plankton productivity, diversity, and biogeochemistry (Part I) |
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0900–1015 |
John Cullen: Measures and models of ocean productivity (12MB PDF) |
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1015–1030 |
Coffee break |
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1030–1145 |
Ginger Armbrust: Functional and taxonomic diversity of phytoplankton |
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1200–1330 |
Lunchtime Brown Bags (Campus Center Room 203A) |
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1330–1445 |
Ken Johnson: Observing ocean biogeochemistry in the 21st century with robotic systems: patterns and processes of microbial nutrient cycling, production and remineralization, Part 2 |
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1445–1500 |
Break |
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1500–1615 |
Dan Repeta: Substrate specificity in microbial carbon utilization (77MB .ppt) |
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1615–1700 |
Cruise planning |
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Friday, May 31 |
Plankton productivity, diversity, and biogeochemistry (Part II) |
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0900–1015 |
Dan Repeta: Dissolved organics matter: Distributions, concentrations, reactivity (6MB .ppt)
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1015–1030 |
Coffee break |
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1030–1145 |
John Cullen: Behavior, physiology and the niche of marine phytoplankton (26MB PDF) |
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1145–1330 |
Lunchtime Brown Bags (Campus Center Room 203A) |
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1330–1445 |
Ginger Armbrust: The influence of symbioses and interactions between organisms on nutrient utilization in the sea |
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1445–1500 |
Break |
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1500–1615 |
Ken Johnson: Nitrogen cycling in low oxygen regions: how do autonomous, sustained observations factor into the debate on the role of classical denitrification versus anammox (13MB .pptx) Readings (PDFs):
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1615–1730 |
“Stupid questions only” |
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Saturday, June 01 |
Student Research Symposium
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0900–1015 |
Student research talks |
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1015–1030 |
Coffee break |
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1030–1200 |
Student research talks |
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1200–1315 |
Lunch (provided) |
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1315–1600 |
Student research talks |
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1600 |
Reception |
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Sunday, June 02 |
Free Day to explore O‘ahu |
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[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 ] [ Student Research Symposium and Final Presentations ] Week 2: Genomes to Biomes
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Monday, June 03 |
Faculty Research Talks |
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0900–0945 |
Mike Rappé: Local faculty research talk: Planktonic oceanic bacteria: Who are the abundant groups? (76MB .pptx) |
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0945–1030 |
Grieg Steward: Local faculty research talk |
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1030–1045 |
Coffee break |
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1045–1130 |
Daniela Böttjer: Lecture: Diazotroph responses to elevated pCO2 at Station ALOHA (41MB .pptx) |
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1130–1215 |
Matt Church: Local faculty research talk Readings (PDFs):
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1215–1330 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1330–1430 |
Benedetto Barone: Lecture: Optical methods for biological oceanography (11MB PDF) |
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1430–1445 |
Break |
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1445–1700 |
Cruise planning meeting |
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Tuesday, June 04 |
Introduction to Microbial Genomics |
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0900–1015 |
Ed DeLong: Lecture: Introduction to marine microbial ‘omics (26MB .pptx) Readings (PDFs):
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1015–1030 |
Coffee Break |
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1030–1200 |
Elizabeth Costello: Lecture: General ecological principles in microbial systems (109MB Keynote) Readings (PDFs) in order:
Web sites about QIIME:: |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1515 |
Eric Allen: Lecture: Genome assembly: genomics & metagenomics (26MB .pptx) Readings (PDFs): |
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1515–1530 |
Break |
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1530–1700 |
Nikos Kyrpides: Lecture: Annotation of microbial genomes (16MB .pptx) |
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Wednesday, June 05 |
Metagenomics and Transcriptomics |
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0900–1015 |
Mike Rappé: Lecture: High throughput culturing & genomics of planktonic oligotrophic marine bacteria (36MB .pptx) |
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1015–1030 |
Coffee Break |
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1030–1200 |
Eric Allen: Lecture: Microbial metagenomics in extreme environments (36MB .pptx) |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1515 |
Kyrpides & Allen: Lecture: Introduction to IMG and IMG/M, and CAMERA (lecture and lab) |
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1515–1530 |
Break |
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1530–1700 |
Elizabeth Costello: Lecture and Lab: Introduction to QIIME Reading (PDF): |
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Thursday, June 06 |
Comparative Genomics |
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0900–1015 |
Elizabeth Costello: Lecture: Dynamics of host-associated microbial communities through the lens of massively parallel rRNA sequence comparisons |
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1015–1030 |
Coffee Break |
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1030–1200 |
Ed DeLong: Lecture: Dynamics of planktonic microbial communities through the lens of metatranscriptomic analysis (20MB .pptx) |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1515 |
Lab: Microbial genome & community analyses (IMG, CAMERA QIIME) |
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1515–1530 |
Break |
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1530–1700 |
Lab: Microbial genome & community analyses (IMG, CAMERA QIIME) |
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Friday, June 07 |
Genome Analyses |
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0900–1015 |
Scott Gifford: Lecture: Omics & microbial ecology of coastal ecosystems (26MB .pptx) Readings (PDFs): |
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1015–1030 |
Coffee Break |
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1030–1200 |
Ed DeLong: Lecture: Integrating ‘omics, biogeochemistry and ecology: marine oxygen minimum zones, a case study (41MB .pptx) |
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1200–1330 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1515 |
Lab: Microbial genome & community analyses (IMG, CAMERA QIIME) |
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1530–1700 |
Lab: Microbial genome & community analyses (IMG, CAMERA QIIME) |
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Saturday, June 08 |
Cruise Planning |
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Half day |
Cruise planning discussion (lunch provided) |
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Sunday, June 09 |
Free Day to explore O‘ahu |
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[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 ] [ Student Research Symposium and Final Presentations ] Weeks 3 and 4: Research Cruise (and Laboratory Analyses) |
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Monday, June 10 |
Snug Harbor: Loading Kilo Moana for research cruise |
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Tuesday, June 11 thru |
Research cruise to Station ALOHA |
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Friday, June 21 |
Return to Snug Harbor, offload ship and check into dorms |
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Saturday, June 22 |
Laboratory analyses |
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Sunday, June 23 |
Laboratory analyses |
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[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 ] [ Student Research Symposium and Final Presentations ] Week 5: Laboratory Analyses |
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Monday, June 24 |
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0900–1200 |
Laboratory analyses |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1700 |
Laboratory analyses |
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Tuesday, June 25 |
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0900–1200 |
Laboratory analyses |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1700 |
Laboratory analyses |
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Wednesday, June 26 |
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0900–1200 |
Laboratory analyses |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1700 |
Laboratory analyses |
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Thursday, June 27 |
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0900–1015 |
Student break out groups working on data analyses |
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1015–1030 |
Break |
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1030–1200 |
Student break out groups on data analyses |
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1200–1400 |
Lunchtime Brown Bags (Campus Center Room 203E) |
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1400–1700 |
Student break out groups — Assembling presentation |
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Friday, June 28 |
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0900–1030 |
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1030–1100 |
Break |
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1100–1200 |
Student evaluations |
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1200–1400 |
Lunch (Campus Center Room 203E) |
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1400–1700 |
Student evaluations, lab check out |
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1800–2100 |
Farewell Gala at 3660 On the Rise |
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[ Top of Page | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 ] [ Student Research Symposium and Final Presentations ] |