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| Status |
Public on Sep 16, 2013 |
| Title |
Steady-state samples of Methanococcus maripaludis MM901:del_mtd (MMP0372) |
| Organism |
Methanococcus maripaludis S2 |
| Experiment type |
Expression profiling by genome tiling array
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| Summary |
Effects of mtd (MMP0372) on physiology and regulation of methanogenesis in Methanococcus maripaludis
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| Overall design |
The strain was grown by continuous culture in a one-liter fermenter (New Brunswick Scientific, Edison, NJ) at 37°C (FEMS Microbiol Lett 238: 85-91, 2004). Medium and gas compositions were modified from those for non-limiting conditions (BMC Microbiol 9: 149, 2009). The standard gassing regime was 110 mL/min H2, 40 mL/min CO2, 35 mL/min Ar, and 15 mL/min H2S/Ar mixture (1:99). Hydrogen limited condition was 20 mL/min H2. After the OD increased above 0.6 (24 h), the medium flow was turned on at 0.083 L/h. Medium was either phosphate limiting (0.12 mM K2HPO4) or phosphate excess (0.8 mM K2HPO4). Culture samples (1.5 mL) were rapidly removed from the vessels by syringe and cell pellets collected by microcentrifugation, immediately frozen in an ethanol-dry ice bath, and stored at -80°C. Total RNA from each sample was compared against a reference RNA pool that was generated in bulk from a mid-log phase culture of MM901. Total RNA from samples and reference were directly labeled with Cy3 or Cy5, and were hybridized to the tiling array. After hybridization and washing according to array manufacturer's instructions, the arrays were scanned by Microarray Scanner (Agilent Technologies, Santa Clara, CA). Dye-flip experiments were done for each sample.
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| Contributor(s) |
Yoon S, Burn J, Pan M, Leigh JA, Baliga NS |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Nov 07, 2012 |
| Last update date |
Sep 19, 2013 |
| Contact name |
Sung Ho Yoon |
| Organization name |
Konkuk University
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| Department |
Department of Bioscience and Biotechnology
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| Street address |
120 Neungdong-ro, Gwangjin-gu
|
| City |
Seoul |
| ZIP/Postal code |
05029 |
| Country |
South Korea |
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| Platforms (1) |
| GPL15063 |
Agilent-029364 ISB Mmp 60K 60mer tiling array |
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| Samples (4)
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| GSM1032818 |
MM901:mtd H2-limiting(20 mL/min) P-excess(0.8 mM K2PO4) rep1 |
| GSM1032819 |
MM901:mtd H2-limiting(20 mL/min) P-excess(0.8 mM K2PO4) rep2 |
| GSM1032820 |
MM901:mtd H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) rep1 |
| GSM1032821 |
MM901:mtd H2-excess(110 mL/min) P-limiting(0.12 mM K2PO4) rep2 |
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| Relations |
| BioProject |
PRJNA179319 |
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