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

– 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

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.

Wrapping up IMG-ACT Genome Annotation

Online Reports

Access REPORT fromteam coursework page.“Click” on the link understep name column.

For each module,enter requestedresults in report(from notebook).

Note that this formatis compatible for

eventual upload toIMG database.

Online Reports

CLICKwhen

finished

Note: Surmised from the analysis of data from ALL modules.

Skip Module 9 – we did not annotate RNA molecules

Online Reports

PRINTING your report: Delete “edit” from URL then press [Enter]

Online Reports

Online Reports

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

Team Project SummaryInclude a graphical representation of your pathway or cellular structure,

highlighting genes annotated by team, as well as a summary table

EX: CELLULAR STRUCTURE

ReferenceGene

ReferenceOrganism

Gene OID(P. limnophilus) Proposed Gene Annotation

2500607282ABC-type nitrate/sulfonate/bicarbonateTransport system, periplasmic component

SSuARhodopirellulabaltica

SSuC

SSuB

Rhodopirellulabaltica

2500607283ABC-type nitrate/sulfonate/bicarbonateTransport system, permease component

2500607284ABC-type nitrate/sulfonate/bicarbonateTransport system, ATPase component

Escherichia coliATCC 8739

Corresponding gene in P. limnophilus

ABC Transport Systems inPlanctomyces limnophilus DSM 3776

Team Project Summary

EX: PATHWAY

EC NumberReferenceOrganism

Gene OID(P. limnophilus) Proposed Gene Annotation

2500607069 narB; nitrate reductase catalytic subunit1.7.99.4Rhodopirellulabaltica

Corresponding gene in P. limnophilus

2500606476 nitrite reductase (NAD(P)H) large subunit1.7.1.4Rhodopirellulabaltica

2500609751 glutamine synthetase6.3.1.2Rhodopirellulabaltica

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 ofthe 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.

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 25006098432500606476 25006093952500607068 25006070982500609751 25006077552500607482 25006068162500606639 2500606269

Assemble report & turn in to your T.A.

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