Open Access Research article

Post-transcriptional regulation in the myo1Δ mutant of Saccharomyces cerevisiae

Marielis E Rivera-Ruiz1, José F Rodríguez-Quiñones12, Pearl Akamine1 and José R Rodríguez-Medina1*

Author Affiliations

1 Department of Biochemistry, School of Medicine, Medical Sciences Campus, University of Puerto Rico, P.O. Box 365067, San Juan, PR 00936-5067, U.S.A

2 Department of Medicine, Center for Aging, Tulane University, New Orleans, LA, U.S.A

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BMC Genomics 2010, 11:690  doi:10.1186/1471-2164-11-690

Published: 2 December 2010

Additional files

Additional file 1:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of 25 biological process categories referenced by Osprey: Network Visualization System and used for GSEA in this study.

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Additional file 2:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Positive control experiment conducted with mRNA extracted from eIF4Ep immunoprecipitated protein fractions. Agarose gel electrophoresis of RT-PCR products is shown. Experiments yielded positive RT-PCR signals for all the mRNA primer pairs that were tested.

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Additional file 3:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Positive control experiment conducted with equivalent amounts (0.1 μg) of the input total RNA extracted from cell lysates prior to the immunoprecipitation step. Total RNA was amplified by RT-PCR with each primer pair and RT-PCR products were resolved on 2% agarose gels shown. The results demonstrate positive amplification for all the mRNA primer pairs that were tested.

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Additional file 4:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of post-transcriptionally regulated mRNAs (p≤0.01) in myo1Δ strains divided according to biological process categories. All differentially expressed genes are identified with their corresponding GO annotations, log2-transformed fold change ratios, and p-values.

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Additional file 5:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of co-regulated genes that exhibited regulation in both global expression [6] and post-transcriptional expression studies. These co-regulated genes have been identified with their corresponding GO annotations, log2-transformed fold change ratios, and p-values.

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Additional file 6:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of differentially regulated mRNAs related to cell wall biogenesis in myo1Δ strains at the post-transcriptional level with log2-transformed fold change ratios (p≤ 0.01).

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Additional file 7:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of genes regulated by transcription or degradation [from Supplementary file 1, reference 6] that were regulated ≥ 2-fold (p ≤ 0.01) in myo1Δ and ESR [9].

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Additional file 8:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of co-regulated genes derived from Supplementary Table S2 that were regulated ≥ 2-fold (p ≤ 0.01) in myo1Δ and ESR [9].

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Additional file 9:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Significantly regulated ribosome-associated mRNAs (p ≤ 0.01) regulated exclusively by translation in myo1Δ and ESR [10].

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Additional file 10:

Rivera-Ruiz, Rodríguez-Quiñones, Akamine, and Rodríguez-Medina. Table of genes regulated by transcription or degradation ≥ 2-fold (p ≤ 0.01) in myo1Δ and ESR [9] sorted according to biological process and cluster frequency.

Format: XLSX Size: 72KB Download file

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