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Thalassiosira weissflogii CCMP1010


Principle Investigator(s) Bethany Jenkins
External sample IDCCMP1010_NitrateLimitation
NCGR Sample IDMMETSP0901_2
Sample accession numberCAM_SMPL_002732
Assembly accession numberCAM_ASM_000550
Combined Assembly NameThalassiosira-weissflogii-CCMP1010
Prelim. NCBI Taxon ID67004
18S rRNA
Importance of organism and transcriptomesPrevious transcriptome work with T. pseudonana has shown that the expression of different suites of genes varies in response to fluctuations in nutrient regimes (Mock et al. 2008; Dhyrman, Jenkins, Ryearson, Saito, unpublished data). We feel that the suite of variables we are proposing will give the most complete transcriptome display from this organism by covering not only a response to limitations of major nutrients (nitrogen and silica) but also an important micronutrient (iron). There is already a fully sequenced genome with a significant amount of transcriptome data from similar physiological conditions of a species that is a coastal isolate within the same genus (Mock et al. 2008; Dhyrman, Jenkins, Ryearson, Saito, unpublished data), T. pseudonana 1335, that will be very useful for comparison with this oceanic isolate.
Additional citations and referencesMock, T. et al. Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses. P Natl Acad Sci Usa 105, 1579-1584 (2008).
Environmental Data
Primary citation for organism's characterization, if availablevon Dassow, P., Petersen, T. W., Chepurnov, V. A. & Armbrust, E. V. Inter- and intraspecific relationships between nuclear DNA content and cell size in selected members of the centric diatom genus Thalassiosira (Bacillariophyceae). J Phycol 44, 335-349 (2008).
Collection date01-DEC-69
Sample material (e.g. "seawater," "sediment," etc.)seawater
Habitatmarine habitat
Experimental Data
Date of experiment05-JUL-11
Growth mediumf/2 amended seawater
Modifications to growth mediumf/2 for all nutrients except iron, which was added at 400nM and nitrate, which was not added to the media (but was probably between 0 and 88.2 uM as the culture was started with a 1:10 dilution of a replete culture
Temperature (ºC)14
Salinty (psu)35
Light (µmol photons / m2 / sec)120
Day portion of day:night cycle in hours14
Night portion of day:night cycle in hours10
Nitrate (μmol/L)88.2
Phosphate (μmol/L)36.2
Silicate (μmol/L)106
Total Fe (nmol/L)400
Trace elements (total) (nmol/L)1093.8
Investigation typeEukaryotes
Other experimental metadata availableSampled at midpoint of light cycle. Trace elements: 39.3 nM Cu; 26 nM Mo; 76.5 nM Zn; 42 nM Co; 910 nM Mn; EDTA = 11.7 uM