Comparable genomic copy number aberrations differ across astrocytoma malignancy grades

Pećina-Šlaus, Nives and Kafka, Anja and Gotovac Jerčić, Kristina and Logara, Monika and Bukovac, Anja and Bakarić, Robert and Borovečki, Fran (2019) Comparable genomic copy number aberrations differ across astrocytoma malignancy grades. International Journal of Molecular Sciences, 20 (5). p. 1251. ISSN 1422-0067

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Abstract

A collection of intracranial astrocytomas of different malignancy grades was analyzed for copy number aberrations (CNA) in order to identify regions that are driving cancer pathogenesis. Astrocytomas were analyzed by Array Comparative Genomic Hybridization (aCGH) and bioinformatics utilizing a Bioconductor package, Genomic Identification of Significant Targets in Cancer (GISTIC) 2.0.23 and DAVID software. Altogether, 1438 CNA were found of which losses prevailed. On our total sample, significant deletions affected 14 chromosomal regions, out of which deletions at 17p13.2, 9p21.3, 13q12.11, 22q12.3 remained significant even at 0.05 q-value. When divided into malignancy groups, the regions identified as significantly deleted in high grades were: 9p21.3; 17p13.2; 10q24.2; 14q21.3; 1p36.11 and 13q12.11, while amplified were: 3q28; 12q13.3 and 21q22.3. Low grades comprised significant deletions at 3p14.3; 11p15.4; 15q15.1; 16q22.1; 20q11.22 and 22q12.3 indicating their involvement in early stages of tumorigenesis. Significantly enriched pathways were: PI3K-Akt, Cytokine-cytokine receptor, the nucleotide-binding oligomerization domain (NOD)–like receptor, Jak-STAT, retinoic acid-inducible gene (RIG)-I-like receptor and Toll-like receptor pathways. HPV and herpex simplex infection and inflammation pathways were also represented. The present study brings new data to astrocytoma research amplifying the wide spectrum of changes that could help us identify the regions critical for tumorigenesis.

Item Type: Article
Additional Information: © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
MeSH: Adult ; Aged ; Astrocytoma/genetics ; Astrocytoma/pathology ; Carcinogenesis/genetics ; Carcinogenesis/pathology ; Chromosome Aberrations ; Comparative Genomic Hybridization/methods ; DNA Copy Number Variations/genetics ; Female ; Humans ; Male ; Middle Aged ; Phosphatidylinositol 3-Kinases/genetics ; Proto-Oncogene Proteins c-akt/genetics ; Signal Transduction/genetics ; Young Adult
Departments: Hrvatski institut za istraživanje mozga
Katedra za medicinsku biologiju
Katedra za neurologiju
Depositing User: Kristina Berketa
Status: Published
Creators:
CreatorsEmail
Pećina-Šlaus, NivesUNSPECIFIED
Kafka, AnjaUNSPECIFIED
Gotovac Jerčić, KristinaUNSPECIFIED
Logara, MonikaUNSPECIFIED
Bukovac, AnjaUNSPECIFIED
Bakarić, RobertUNSPECIFIED
Borovečki, FranUNSPECIFIED
Date: 12 March 2019
Date Deposited: 07 Nov 2019 09:22
Last Modified: 07 Nov 2019 09:22
Subjects: /
Projects:
Project titleProject leaderProject ref.Funder
Experimental and clinical research of hypoxic-ischemic damage in perinatal and adult brainEuropean Regional Development FundGA KK01.1.1.01.0007European Union
Related URLs:
URI: http://medlib.mef.hr/id/eprint/3484

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