Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients
An increasing number of studies suggest the implication of microRNAs (miRNAs) in colorectal (CRC) carcinogenesis and disease progression. Nevertheless, the basic mechanism is not yet clear. We determined plasma miRNA expression levels using Agilent microarray technology followed by overlapping with...
| Main Authors: | , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2020-03-01
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| Series: | Cancers |
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| Online Access: | https://www.mdpi.com/2072-6694/12/4/843 |
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| author | Roxana Cojocneanu Cornelia Braicu Lajos Raduly Ancuta Jurj Oana Zanoaga Lorand Magdo Alexandru Irimie Mihai-Stefan Muresan Calin Ionescu Mircea Grigorescu Ioana Berindan-Neagoe |
| author_facet | Roxana Cojocneanu Cornelia Braicu Lajos Raduly Ancuta Jurj Oana Zanoaga Lorand Magdo Alexandru Irimie Mihai-Stefan Muresan Calin Ionescu Mircea Grigorescu Ioana Berindan-Neagoe |
| author_sort | Roxana Cojocneanu |
| collection | DOAJ |
| description | An increasing number of studies suggest the implication of microRNAs (miRNAs) in colorectal (CRC) carcinogenesis and disease progression. Nevertheless, the basic mechanism is not yet clear. We determined plasma miRNA expression levels using Agilent microarray technology followed by overlapping with The Cancer Genome Atlas (TCGA) tissue data and a qRT-PCR validation step and analysis of the altered miRNA signatures to emphasize new mechanistic insights. For TGCA dataset, we identified 156 altered miRNAs (79 downregulated and 77 upregulated) in colorectal tissue samples versus normal tissue. The microarray experiment is based on 16 control samples, 38 CRC plasma samples from colorectal cancer patients who have not undergone chemotherapy, and 17 chemo-treated samples. In the case of the analysis of CRC cancer versus healthy control we identified 359 altered miRNAs (214 downregulated and 60 upregulated), considering as the cutoff value a fold-change of ±1.5 and <i>p</i> < 0.01. An additional microarray analysis was performed on plasma from untreated colorectal cancer (<i>n</i> = 38) and chemotherapy-treated colorectal cancer patients (<i>n</i> = 17), which revealed 15 downregulated miRNAs and 53 upregulated miRNAs, demonstrating that the plasma miRNA pattern is affected by chemotherapy and emphasizing important regulators of drug resistance mechanisms. For the validation of the microarray data, we selected a panel of 4 miRNAs from the common miRNA signatures for colon and rectal cancer (miR-642b-3p, miR-195-5p and miR-4741). At the tissue level, the expression levels were in agreement with those observed in colorectal plasma. miR-1228-3p, the top upregulated miRNA in CRC, was chosen to be validated on tissue and plasma samples, as it was demonstrated to be downregulated at tissue level in our patient cohort. This was confirmed by TCGA data and was one example of ta ranscript that has a different expression level between tumor tissue and plasma. Developing more efficient investigation methods will help explain the mechanisms responsible for miRNAs released in biofluids, which is the most upregulated transcript in colorectal plasma samples and which can function as a prediction tool within the oncological field. |
| first_indexed | 2024-03-10T20:46:28Z |
| format | Article |
| id | doaj.art-fbbe93309be244098e46bcb0f44d64cd |
| institution | Directory Open Access Journal |
| issn | 2072-6694 |
| language | English |
| last_indexed | 2024-03-10T20:46:28Z |
| publishDate | 2020-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Cancers |
| spelling | doaj.art-fbbe93309be244098e46bcb0f44d64cd2023-11-19T20:18:19ZengMDPI AGCancers2072-66942020-03-0112484310.3390/cancers12040843Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer PatientsRoxana Cojocneanu0Cornelia Braicu1Lajos Raduly2Ancuta Jurj3Oana Zanoaga4Lorand Magdo5Alexandru Irimie6Mihai-Stefan Muresan7Calin Ionescu8Mircea Grigorescu9Ioana Berindan-Neagoe10Research Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaResearch Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaResearch Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaResearch Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaResearch Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaResearch Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaDepartment of Surgery, The Oncology Institute “Prof. Dr. Ion Chiricuta”, 400015 Cluj-Napoca, Romania5th Surgical Department, Municipal Hospital, 400139 Cluj-Napoca, Romania5th Surgical Department, Municipal Hospital, 400139 Cluj-Napoca, RomaniaGastroenterology and Hepatology Department, 3rd Medical Clinic, Iuliu Hatieganu University of Medicine and Pharmacy, 400162 Cluj-Napoca, RomaniaResearch Center for Functional Genomics and Translational Medicine, Iuliu Hatieganu University of Medicine and Pharmacy, 23 Marinescu Street, 400015 Cluj-Napoca, RomaniaAn increasing number of studies suggest the implication of microRNAs (miRNAs) in colorectal (CRC) carcinogenesis and disease progression. Nevertheless, the basic mechanism is not yet clear. We determined plasma miRNA expression levels using Agilent microarray technology followed by overlapping with The Cancer Genome Atlas (TCGA) tissue data and a qRT-PCR validation step and analysis of the altered miRNA signatures to emphasize new mechanistic insights. For TGCA dataset, we identified 156 altered miRNAs (79 downregulated and 77 upregulated) in colorectal tissue samples versus normal tissue. The microarray experiment is based on 16 control samples, 38 CRC plasma samples from colorectal cancer patients who have not undergone chemotherapy, and 17 chemo-treated samples. In the case of the analysis of CRC cancer versus healthy control we identified 359 altered miRNAs (214 downregulated and 60 upregulated), considering as the cutoff value a fold-change of ±1.5 and <i>p</i> < 0.01. An additional microarray analysis was performed on plasma from untreated colorectal cancer (<i>n</i> = 38) and chemotherapy-treated colorectal cancer patients (<i>n</i> = 17), which revealed 15 downregulated miRNAs and 53 upregulated miRNAs, demonstrating that the plasma miRNA pattern is affected by chemotherapy and emphasizing important regulators of drug resistance mechanisms. For the validation of the microarray data, we selected a panel of 4 miRNAs from the common miRNA signatures for colon and rectal cancer (miR-642b-3p, miR-195-5p and miR-4741). At the tissue level, the expression levels were in agreement with those observed in colorectal plasma. miR-1228-3p, the top upregulated miRNA in CRC, was chosen to be validated on tissue and plasma samples, as it was demonstrated to be downregulated at tissue level in our patient cohort. This was confirmed by TCGA data and was one example of ta ranscript that has a different expression level between tumor tissue and plasma. Developing more efficient investigation methods will help explain the mechanisms responsible for miRNAs released in biofluids, which is the most upregulated transcript in colorectal plasma samples and which can function as a prediction tool within the oncological field.https://www.mdpi.com/2072-6694/12/4/843colorectal cancerplasmamicroarraymiRNAbiomarker |
| spellingShingle | Roxana Cojocneanu Cornelia Braicu Lajos Raduly Ancuta Jurj Oana Zanoaga Lorand Magdo Alexandru Irimie Mihai-Stefan Muresan Calin Ionescu Mircea Grigorescu Ioana Berindan-Neagoe Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients Cancers colorectal cancer plasma microarray miRNA biomarker |
| title | Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients |
| title_full | Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients |
| title_fullStr | Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients |
| title_full_unstemmed | Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients |
| title_short | Plasma and Tissue Specific miRNA Expression Pattern and Functional Analysis Associated to Colorectal Cancer Patients |
| title_sort | plasma and tissue specific mirna expression pattern and functional analysis associated to colorectal cancer patients |
| topic | colorectal cancer plasma microarray miRNA biomarker |
| url | https://www.mdpi.com/2072-6694/12/4/843 |
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