Open Access Research article

Divergent responses to peptidoglycans derived from different E. coli serotypes influence inflammatory outcome in trout, Oncorhynchus mykiss, macrophages

Sebastian Boltaña1, Felipe Reyes-Lopez2, Davinia Morera1, Frederick Goetz3 and Simon A MacKenzie1*

Author Affiliations

1 Institute of Biotechnology and Biomedicine, Universitat Autónoma de Barcelona, 08193 Barcelona, Spain

2 Departamento de Biologia, Universidad de Santiago de Chile, Santiago de Chile, Chile

3 Great Lakes WATER Institute, 600 E. Greenfield Ave., Milwaukee, WI 53204, USA

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BMC Genomics 2011, 12:34  doi:10.1186/1471-2164-12-34

Published: 14 January 2011

Additional files

Additional file 1:

Specific primers used for quantitative qRT-PCR (sequence and accession number).

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Additional file 2:

Comparison of expression data for selected transcripts obtained from microarray analyses and qRT-PCR validation. The results are presented as fold change relative to 18S abundance and mean ± std deviation.

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Additional file 3:

Description of PGN (O111;B4) regulated transcripts/genes over the control (all cDNAs on the array) at early stage (1 h)

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Additional file 4:

Description of PGN (O111;B4) regulated transcripts/genes over the control (all cDNAs on the array) at median stage (6 h). xls

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Additional file 5:

Description of PGN (O111;B4) regulated transcripts/genes over the control (all cDNAs on the array) at late stage (12 h). xls

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Additional file 6:

Description of PGN (K12) regulated transcripts/genes over the control (all cDNAs on the array) at early stage (1 h).

Format: XLS Size: 46KB Download file

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Additional file 7:

Description of PGN (K12) regulated transcripts/genes over the control (all cDNAs on the array) at median stage (6 h).

Format: XLS Size: 31KB Download file

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Additional file 8:

Description of PGN (K12) regulated transcripts/genes over the control (all cDNAs on the array) at late stage (12 h).

Format: XLS Size: 51KB Download file

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Additional file 9:

Quantitative summary of transcripts/genes differentially expressed over the control in both treatment and stages.

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Additional file 10:

Relationship between intensity and magnitude of transcriptomic response in up (a) and down (b) regulated genes at different time stages during the PGNs challenge. The horizontal abscises (magnitude) show the number of transcripts grouped in biological processes expressed in both treatments as: Antigen presentation, Cell adhesion and proliferation, Cytokines and Chemokines, Cellullar defense response, MAPK/ERK, Inflammatory response, Cell homeostasis, Transcription. The vertical abscises (intensity) show fold change mean (FC: intensity) of the transcripts grouped in each biological process. The black circle and the blue slope represented the fit generated by the intensity and magnitude of the transcriptomic response under PGN-O111:B4 treatment. The white circle and the red slope represented the fit generated by the intensity and magnitude of the transcriptomic response under PGN-K12 treatment. Transcriptomic profiles were highly ranked dependent upon PGN-type (two-way ANCOVA on transcriptomic magnitudes of respective intensities α = 0.05; n = 68).

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Additional file 11:

Summary of ANCOVA analysis for common slope of regression and adjusted means examining differences in intensity and magnitude of the transcriptomic response at different times (1, 6 and 12 h; n = 68)

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Additional file 12:

Summary of multiple comparisons of two way ANOVAS.

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