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| Status |
Public on Jul 15, 2019 |
| Title |
Dynamic Gene Network Analysis of Caco-2 Cell Response to Shiga Toxin-Producing Escherichia coli-Associated Hemolytic–Uremic Syndrome |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
A dynamic network approach was conducted to investigate the differential Caco-2 response to two STEC isolates - EH41, isolated from a HUS patient in Australia, and Ec472/01, isolated from bovine feces in Brazil - along in vitro enterocyte-bacteria interaction. The genomic analysis was based on temporal gene co-expression analysis (GCN) data in order to gain a better understanding on the molecular mechanisms underlying the capacity to cause HUS. The GCN topological analyses for Caco-2/EH41 group revealed loss of the scale-free status after one hour of interaction, persistence of this condition along the second hour and establishment of a new gene hierarchy thereafter. These events resemble the gene network mechanism of health-disease transition. The new established network represents an adaptive cell response to the pathogen and not the return to a “normal” state. Conversely, the networks for Caco-2/Ec472 group showed a slow and progressive loss of the scale-free status without its restoration at the end of the time interval here studied. These results contribute for a better understanding of the molecular mechanism involved in STEC pathogenicity associated to HUS.
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| Overall design |
The transcriptomic profiles of Caco-2 cells during interaction with STEC strain EH41 were obtained. The time-series adopted equal intervals of 7.5 minutes along 3 hours. We performed a sliding-window analysis to investigate temporal gene co-expression network (GCN) variation along 3 hours of enterocyte-bactria interaction.
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| Contributor(s) |
Iamashita P, Bando SY, Silva FN, da F Costa L, Abe CM, Bertonha FB, Guth BE, Fujita A, Moreira-Filho CA |
| Citation(s) |
31288487 |
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| Submission date |
Oct 02, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Carlos Alberto Moreira-Filho |
| E-mail(s) |
carlos.moreira@hc.fm.usp.br
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| Phone |
55-11-3061-8449
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| Organization name |
Faculdade de Medicina da Universidade de Sao Paulo
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| Department |
Departments of Pediatrics
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| Lab |
LIM36
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| Street address |
Av. Dr. Eneas Carvalho de Aguiar 647
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| City |
Sao Paulo |
| State/province |
SP |
| ZIP/Postal code |
05403-900 |
| Country |
Brazil |
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| Platforms (1) |
| GPL13497 |
Agilent-026652 Whole Human Genome Microarray 4x44K v2 (Probe Name version) |
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| Samples (25)
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| GSM2801412 |
Caco-2 after STEC EH41 interaction, time 0 |
| GSM2801413 |
Caco-2 after STEC EH41 interaction, time 1 |
| GSM2801414 |
Caco-2 after STEC EH41 interaction, time 2 |
| GSM2801415 |
Caco-2 after STEC EH41 interaction, time 3 |
| GSM2801416 |
Caco-2 after STEC EH41 interaction, time 4 |
| GSM2801417 |
Caco-2 after STEC EH41 interaction, time 5 |
| GSM2801418 |
Caco-2 after STEC EH41 interaction, time 6 |
| GSM2801419 |
Caco-2 after STEC EH41 interaction, time 7 |
| GSM2801420 |
Caco-2 after STEC EH41 interaction, time 8 |
| GSM2801421 |
Caco-2 after STEC EH41 interaction, time 9 |
| GSM2801422 |
Caco-2 after STEC EH41 interaction, time 10 |
| GSM2801423 |
Caco-2 after STEC EH41 interaction, time 11 |
| GSM2801424 |
Caco-2 after STEC EH41 interaction, time 12 |
| GSM2801425 |
Caco-2 after STEC EH41 interaction, time 13 |
| GSM2801426 |
Caco-2 after STEC EH41 interaction, time 14 |
| GSM2801427 |
Caco-2 after STEC EH41 interaction, time 15 |
| GSM2801428 |
Caco-2 after STEC EH41 interaction, time 16 |
| GSM2801429 |
Caco-2 after STEC EH41 interaction, time 17 |
| GSM2801430 |
Caco-2 after STEC EH41 interaction, time 18 |
| GSM2801431 |
Caco-2 after STEC EH41 interaction, time 19 |
| GSM2801432 |
Caco-2 after STEC EH41 interaction, time 20 |
| GSM2801433 |
Caco-2 after STEC EH41 interaction, time 21 |
| GSM2801434 |
Caco-2 after STEC EH41 interaction, time 22 |
| GSM2801435 |
Caco-2 after STEC EH41 interaction, time 23 |
| GSM2801436 |
Caco-2 after STEC EH41 interaction, time 24 |
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| This SubSeries is part of SuperSeries: |
| GSE104492 |
Dynamic gene network analysis of Caco-2 cell response to Shiga toxin-producing Escherichia coli-associated hemolytic-uremic syndrome |
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| Relations |
| BioProject |
PRJNA412855 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE104489_RAW.tar |
222.9 Mb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
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