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| Status |
Public on Oct 01, 2011 |
| Title |
L. plantarum grown in a variety of different fermentation conditions |
| Organism |
Lactiplantibacillus plantarum |
| Experiment type |
Expression profiling by array
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| Summary |
Lactobacillus plantarum WCFS1 was differentially fermented in 29 different fermentations according to a factorial, combinatorial scheme that included variations in growth temperature (28 or 37C), NaCl concentration (0 or 0.3M), pH (5.2, 5.8, 6.4), as well as oxygen (N2 or air) and amino acid availability (1.1 or 2x concentration).
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| Overall design |
Samples were hybridized in a star design using five samples in the center all connected to each other. The remaining samples were linked (evenly distributed) to the samples in the inner circle in a loop design with additional links (shortcuts) to the center sample. All samples were hybridized in duplicate (at minimum) using each of the two dyes (Cy3/Cy5) at least once per sample.
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| Contributor(s) |
Bron PA, Wels M, Bongers R, Wiersma A, Overmars L, Marco M, Kleerebezem M |
| Citation(s) |
22802930 |
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| Submission date |
Jul 31, 2011 |
| Last update date |
Feb 13, 2020 |
| Contact name |
Michiel Wels |
| E-mail(s) |
michiel.wels@nizo.com
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| Organization name |
NIZO food research
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| Street address |
Kernhemseweg 2
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| City |
Ede |
| ZIP/Postal code |
6718 ZB |
| Country |
Netherlands |
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| Platforms (1) |
| GPL13984 |
Lactobacillus plantarum WCFS1 15K 60-mer array, Version 3.1, our ID LPAG3.1_8 |
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| Samples (56)
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| GSM769590 |
F01 : 0M NaCl,2*AA, 37C,pH5.2,N2 over F02 : 0.3M NaCl,2*AA, 37C,pH5.2,N2 |
| GSM769591 |
F04 : 0.3M NaCl,1.1*AA, 37C,pH5.2,O2 over F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769592 |
F02 : 0.3M NaCl,2*AA, 37C,pH5.2,N2 over F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 (slide1-2_1.txt) |
| GSM769593 |
F05 : 0M NaCl,2*AA, 28C,pH5.2,O2 over F04 : 0.3M NaCl,1.1*AA, 37C,pH5.2,O2 |
| GSM769594 |
F03 : 0M NaCl,1.1*AA, 37C,pH5.2,O2 over F02 : 0.3M NaCl,2*AA, 37C,pH5.2,N2 |
| GSM769595 |
F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 over F01 : 0M NaCl,2*AA, 37C,pH5.2,N2 |
| GSM769596 |
F03 : 0M NaCl,1.1*AA, 37C,pH5.2,O2 over F04 : 0.3M NaCl,1.1*AA, 37C,pH5.2,O2 |
| GSM769597 |
F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 over F03 : 0M NaCl,1.1*AA, 37C,pH5.2,O2 |
| GSM769598 |
F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 over F05 : 0M NaCl,2*AA, 28C,pH5.2,O2 |
| GSM769599 |
F09 : 0.3M NaCl,1.1*AA, 28C,pH5.2,N2 over F10 : 0M NaCl,2*AA, 37C,pH6.4,O2 (slide2-1_2.txt) |
| GSM769600 |
F07 : 0.3M NaCl,2*AA, 28C,pH5.2,O2 over F08 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769601 |
F10 : 0M NaCl,2*AA, 37C,pH6.4,O2 over F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 |
| GSM769602 |
F08 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 over F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 |
| GSM769603 |
F11 : 0.3M NaCl,2*AA, 37C,pH6.4,O2 over F10 : 0M NaCl,2*AA, 37C,pH6.4,O2 |
| GSM769604 |
F09 : 0.3M NaCl,1.1*AA, 28C,pH5.2,N2 over F08 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769605 |
F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F07 : 0.3M NaCl,2*AA, 28C,pH5.2,O2 |
| GSM769606 |
F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F09 : 0.3M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769607 |
F15 : 0M NaCl,2*AA, 28C,pH6.4,N2 over F14 : 0.3M NaCl,1.1*AA, 37C,pH6.4,N2 (slide3-1_2.txt) |
| GSM769608 |
F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F11 : 0.3M NaCl,2*AA, 37C,pH6.4,O2 |
| GSM769609 |
F15 : 0M NaCl,2*AA, 28C,pH6.4,N2 over F16 : 0.3M NaCl,2*AA, 28C,pH6.4,N2 |
| GSM769610 |
F13 : 0M NaCl,1.1*AA, 37C,pH6.4,N2 over F14 : 0.3M NaCl,1.1*AA, 37C,pH6.4,N2 |
| GSM769611 |
F16 : 0.3M NaCl,2*AA, 28C,pH6.4,N2 over F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769612 |
F14 : 0.3M NaCl,1.1*AA, 37C,pH6.4,N2 over F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769613 |
F17 : 0M NaCl,1.1*AA, 28C,pH6.4,O2 over F16 : 0.3M NaCl,2*AA, 28C,pH6.4,N2 |
| GSM769614 |
F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 over F13 : 0M NaCl,1.1*AA, 37C,pH6.4,N2 |
| GSM769615 |
F20 : 0M NaCl,2*AA, 37C,pH5.8,N2 over F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769616 |
F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 over F15 : 0M NaCl,2*AA, 28C,pH6.4,N2 |
| GSM769617 |
F21 : 0.3M NaCl,2*AA, 37C,pH5.8,N2 over F20 : 0M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769618 |
F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 over F17 : 0M NaCl,1.1*AA, 28C,pH6.4,O2 |
| GSM769619 |
F21 : 0.3M NaCl,2*AA, 37C,pH5.8,N2 over F22 : 0M NaCl,1.1*AA, 37C,pH5.8,O2 |
| GSM769620 |
F19 : 0.3M NaCl,1.1*AA, 28C,pH6.4,O2 over F20 : 0M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769621 |
F22 : 0M NaCl,1.1*AA, 37C,pH5.8,O2 over F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769622 |
F23 : 0.3M NaCl,1.1*AA, 37C,pH5.8,O2 over F22 : 0M NaCl,1.1*AA, 37C,pH5.8,O2 |
| GSM769623 |
F25 : 0M NaCl,2*AA, 28C,pH5.8,O2 over F26 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769624 |
F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 over F19 : 0.3M NaCl,1.1*AA, 28C,pH6.4,O2 |
| GSM769625 |
F26 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 over F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769626 |
F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 over F21 : 0.3M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769627 |
F27 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F26 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769628 |
F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 over F23 : 0.3M NaCl,1.1*AA, 37C,pH5.8,O2 |
| GSM769629 |
F27 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F28 : 0.3M NaCl,1.1*AA, 28C,pH5.8,N2 |
| GSM769630 |
F28 : 0.3M NaCl,1.1*AA, 28C,pH5.8,N2 over F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769631 |
F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 over F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769632 |
F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 over F25 : 0M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769633 |
F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 over F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769634 |
F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 over F27 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 |
| GSM769635 |
F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 over F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769636 |
F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 over F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 |
| GSM769637 |
F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 over F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 |
| GSM769638 |
F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 over F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769639 |
F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 over F29 : 0M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769640 |
F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 |
| GSM769641 |
F02 : 0.3M NaCl,2*AA, 37C,pH5.2,N2 over F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 (slide7-2_2.txt) |
| GSM769642 |
F12 : 0M NaCl,1.1*AA, 28C,pH5.8,N2 over F24 : 0M NaCl,1.1*AA, 28C,pH5.2,N2 |
| GSM769643 |
F09 : 0.3M NaCl,1.1*AA, 28C,pH5.2,N2 over F10 : 0M NaCl,2*AA, 37C,pH6.4,O2 (slide7-3_2.txt) |
| GSM769644 |
F06 : 0.3M NaCl,2*AA, 28C,pH5.8,O2 over F18 : 0M NaCl,2*AA, 37C,pH5.8,N2 |
| GSM769645 |
F15 : 0M NaCl,2*AA, 28C,pH6.4,N2 over F14 : 0.3M NaCl,1.1*AA, 37C,pH6.4,N2 (slide7-4_2.txt) |
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| Relations |
| BioProject |
PRJNA144721 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE31076_RAW.tar |
13.0 Mb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
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