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Annotation Presentation Week 10

Annotation Presentation Week 10. Lab Reports. Wrapping up IMG-ACT Genome Annotation. Online notebook should be completed for all 3 genes Final reports are comprised of the imgACT online reports (one for each gene) and a team summary of the project

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Annotation Presentation Week 10

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  1. Annotation Presentation Week 10 Lab Reports

  2. Wrapping up IMG-ACT Genome Annotation • Online notebook should be completed for all 3 genes • Final reportsare comprised of the imgACT online reports (one for each gene) and a team summary of the project • Each student on the team should complete the online reports for all 3 assigned genes. The reports must be printed out and turned in with your team project summary & cover page. • Each team should collectively summarize the results of their annotation project. The summary must be printed out and one copy turned in to your T.A., together with individual reports for each gene. • DUE DATES

  3. Wrapping up IMG-ACT Genome Annotation Provide a COVER PAGE for your report: Include your team name as well as the full names (and UIDs) of studentteam members. Include a LIST of the pathways or cell structures assigned to your team.(some teams have only one while others have two). Include a LIST of the gene OIDs that were annotated as part of this report.

  4. Online Reports Access REPORT from team coursework page. “Click” on the link under step name column.

  5. Online Reports For each module,enter requested results in report(from notebook). Note that this formatis compatible for eventual upload to IMG database.

  6. Online Reports Skip Module 9 – we did not annotate RNA molecules Note: Surmised from the analysis of data from ALL modules. CLICK when finished

  7. Online Reports PRINTING your report: Delete “edit” from URL then press [Enter]

  8. Online Reports • Notice entry boxes have been removed. • Select [Print] from drop-down menu. • Include hard copy with team report.

  9. ABC Transport Systems in Planctomyces limnophilus DSM 3776 Corresponding gene in P. limnophilus Team Project Summary Include a graphical representation of your pathway or cellular structure, highlighting genes annotated by team, as well as a summary table EX: CELLULAR STRUCTURE Reference Gene Reference Organism Gene OID (P. limnophilus) Proposed Gene Annotation Rhodopirellula baltica ABC-type nitrate/sulfonate/bicarbonate Transport system, periplasmic component SSuA 2500607282 Rhodopirellula baltica ABC-type nitrate/sulfonate/bicarbonate Transport system, permease component SSuC 2500607283 Escherichia coli ATCC 8739 ABC-type nitrate/sulfonate/bicarbonate Transport system, ATPase component SSuB 2500607284

  10. Corresponding gene in P. limnophilus Team Project Summary EX: PATHWAY Reference Organism Gene OID (P. limnophilus) EC Number Proposed Gene Annotation Rhodopirellula baltica 1.7.99.4 2500607069 narB; nitrate reductase catalytic subunit Rhodopirellula baltica 1.7.1.4 2500606476 nitrite reductase (NAD(P)H) large subunit Rhodopirellula baltica 6.3.1.2 2500609751 glutamine synthetase

  11. Team Project Summary Provide a 2-3 page DESCRIPTIVE SUMMARY: (1) TEAM: Based on gene content, what parts of the pathway or cellular structurethat your team annotated appears to be functional (i.e., all components present inP. limnophilus genome)? What components are missing from various steps orcell structures? Propose an experiment to hunt for missing genes**. The experimentmay be computationally-based or one performed in the wet laboratory – be creative!(No more than 5-6 sentences) (2) INDIVIDUAL: For each assigned gene, provide a BRIEF summary of some of the key results that enabled you to conclude that the functional annotation isaccurate as well as any interesting or surprising results that you encountered whileannotating your genes. (No more than 3-4 sentences per gene) **NOTE: For those lab sections in which multiple teams shared one pathway or structure, you should SHARE results – a gene isn’t missing if it was assigned to someone else.

  12. Assemble report & turn in to your T.A. Team BRUIN Josie Bruin (555-555-555) Joe Bruin (444-555-666) Jackie Bruin (333-222-888) Jerry Bruin (111-222-333) Assigned pathway: Nitrogen Metabolism Annotated Gene OIDs: 2500607069 2500609843 2500606476 2500609395 2500607068 2500607098 2500609751 2500607755 2500607482 2500606816 2500606639 2500606269

  13. Finally, take post-annotation survey Cookies must be enabled for survey to work properly.

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