<div><div><span style="font-size:13px">A batch culture (1.5L) of <em>Trichodesmium erythraeum</em> sp. IMS101 was grown in a 27°C incubator with a 14:10 light cycle that ramps up and down mimicking dawn and dusk. Sampling occurred every 1-3 hours with concentrated sampling at dawn and dusk. 70mL of the culture was sterically subsampled and collected on 0.2mm Supor filters, then frozen at -80°C. 10mL was collected and filtered on combusted GFF filters for CHN analysis.</span></div>
<div> </div>
<div><span style="font-size:13px">Proteins were extracted in sodium dodecyl sulfate and digested in gel similar to Saito et al., 2014 (Science). Peptides were analyzed by LC-MS/MS on a Thermo Orbitrap Fusion using LC x LC/MS chromatography with high and low pH reversed phase chromatography.</span></div></div>
<div><div>Diel proteomes of cultured <em>Trichodesmium erythraeum</em> sp. IMS101 from laboratory experiments conducted in November of 2018.</div>
<div> </div>
<div>The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE [1] partner repository with the dataset identifier PXD016332 and 10.6019/PXD016332 but are not yet public.</div>
<div> </div>
<div> Project Name: Trichodesmium erythraeum sp. IMS101 Diel proteomes</div>
<div> Project accession: PXD016332</div>
<div> Project DOI: 10.6019/PXD016332</div>
<div> </div>
<div>The format of these data in the BCO-DMO data system is tabular. For a version formatted as a matrix, see the "Data Files" section.</div></div>
Diel proteomes Trichodesmium IMS101
<div><div><span style="font-size:13px">Peptide to spectrum matching was performed in SEQUEST implemented in Proteome Discoverer 2.2 using the <em>Trichodesmium erythraem</em> sp. IMS101 genome. Statistical validation was performed at the 1% protein and peptide FD levels calculated in Scaffold (Proteome Software).</span></div>
<div> </div>
<div><span style="font-size:13px">BCO-DMO Data Manager Processing Notes:</span></div>
<div><span style="font-size:13px">* originally submitted file "dielproteindata.csv" in matrix format added to "Data Files" section.</span></div>
<div><span style="font-size:13px">* a tabular version of dielproteindata.csv was created and imported into the BCO-DMO data system. Data was unpivoted to transform from the matrix into a table with columns for hours_post_dawn,cnratio,relative_protein_abundance.</span></div>
<div><span style="font-size:13px">* added a conventional header with dataset name, PI name, version date</span></div>
<div><span style="font-size:13px">* modified parameter names to conform with BCO-DMO naming conventions (spaces, +, and - changed to underscores). Units in parentheses removed and added to Parameter Description metadata section.</span></div>
<div><span style="font-size:13px">* blank values in this dataset are displayed as "nd" for "no data." nd is the default missing data identifier in the BCO-DMO system</span></div></div>
783873
Diel proteomes Trichodesmium IMS101
2019-12-10T12:10:43-05:00
2019-12-10T12:10:43-05:00
2023-07-07T16:10:26-04:00
urn:bcodmo:dataset:783873
Diel proteomes of cultured Trichodesmium erythraeum sp. IMS101 from laboratory experiments conducted in November of 2018
Diel proteomes of cultured Trichodesmium erythraeum sp. IMS101 from laboratory experiments conducted in November of 2018.
false
Saito, M. (2020) Diel proteomes of cultured Trichodesmium erythraeum sp. IMS101 from laboratory experiments conducted in November of 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2019-12-10 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.783873.1 [access date]
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diel proteins
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2019-12-10
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