An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes

Prostate cancer (PCa) in dogs is a highly malignant disease akin to its human counterpart. In contrast to the situation in humans, multi-gene approaches facilitating risk stratification of canine PCa are barely established. The aims of this study were the characterization of the transcriptional land...

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Autores principales:	Heike Thiemeyer, Leila Taher, Jan Torben Schille, Eva-Maria Packeiser, Lisa K. Harder, Marion Hewicker-Trautwein, Bertram Brenig, Ekkehard Schütz, Julia Beck, Ingo Nolte, Hugo Murua Escobar
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	canine prostate cancer RNA-Sequencing whole transcriptome analysis candidate biomarker genes animal model molecular diagnostics Biology (General) QH301-705.5 Chemistry QD1-999
Acceso en línea:	https://doaj.org/article/1d53b455aeab4aa2a873fbb0640d6ac9
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spelling	oai:doaj.org-article:1d53b455aeab4aa2a873fbb0640d6ac92021-11-11T16:58:07ZAn RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes10.3390/ijms2221114811422-00671661-6596https://doaj.org/article/1d53b455aeab4aa2a873fbb0640d6ac92021-10-01T00:00:00Zhttps://www.mdpi.com/1422-0067/22/21/11481https://doaj.org/toc/1661-6596https://doaj.org/toc/1422-0067Prostate cancer (PCa) in dogs is a highly malignant disease akin to its human counterpart. In contrast to the situation in humans, multi-gene approaches facilitating risk stratification of canine PCa are barely established. The aims of this study were the characterization of the transcriptional landscape of canine PCa and the identification of diagnostic, prognostic and/or therapeutic biomarkers through a multi-step screening approach. RNA-Sequencing of ten malignant tissues and fine-needle aspirations (FNA), and 14 nonmalignant tissues and FNAs was performed to find differentially expressed genes (DEGs) and deregulated pathways. The 4098 observed DEGs were involved in 49 pathways. These 49 pathways could be grouped into five superpathways summarizing the hallmarks of canine PCa: (i) inflammatory response and cytokines; (ii) regulation of the immune system and cell death; (iii) cell surface and PI3K signaling; (iv) cell cycle; and (v) phagosome and autophagy. Among the highly deregulated, moderately to strongly expressed DEGs that were members of one or more superpathways, 169 DEGs were listed in relevant databases and/or the literature and included members of the PCa pathway, oncogenes, prostate-specific genes, and druggable genes. These genes are novel and promising candidate diagnostic, prognostic and/or therapeutic canine PCa biomarkers.Heike ThiemeyerLeila TaherJan Torben SchilleEva-Maria PackeiserLisa K. HarderMarion Hewicker-TrautweinBertram BrenigEkkehard SchützJulia BeckIngo NolteHugo Murua EscobarMDPI AGarticlecanine prostate cancerRNA-Sequencingwhole transcriptome analysiscandidate biomarker genesanimal modelmolecular diagnosticsBiology (General)QH301-705.5ChemistryQD1-999ENInternational Journal of Molecular Sciences, Vol 22, Iss 11481, p 11481 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	canine prostate cancer RNA-Sequencing whole transcriptome analysis candidate biomarker genes animal model molecular diagnostics Biology (General) QH301-705.5 Chemistry QD1-999
spellingShingle	canine prostate cancer RNA-Sequencing whole transcriptome analysis candidate biomarker genes animal model molecular diagnostics Biology (General) QH301-705.5 Chemistry QD1-999 Heike Thiemeyer Leila Taher Jan Torben Schille Eva-Maria Packeiser Lisa K. Harder Marion Hewicker-Trautwein Bertram Brenig Ekkehard Schütz Julia Beck Ingo Nolte Hugo Murua Escobar An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes
description	Prostate cancer (PCa) in dogs is a highly malignant disease akin to its human counterpart. In contrast to the situation in humans, multi-gene approaches facilitating risk stratification of canine PCa are barely established. The aims of this study were the characterization of the transcriptional landscape of canine PCa and the identification of diagnostic, prognostic and/or therapeutic biomarkers through a multi-step screening approach. RNA-Sequencing of ten malignant tissues and fine-needle aspirations (FNA), and 14 nonmalignant tissues and FNAs was performed to find differentially expressed genes (DEGs) and deregulated pathways. The 4098 observed DEGs were involved in 49 pathways. These 49 pathways could be grouped into five superpathways summarizing the hallmarks of canine PCa: (i) inflammatory response and cytokines; (ii) regulation of the immune system and cell death; (iii) cell surface and PI3K signaling; (iv) cell cycle; and (v) phagosome and autophagy. Among the highly deregulated, moderately to strongly expressed DEGs that were members of one or more superpathways, 169 DEGs were listed in relevant databases and/or the literature and included members of the PCa pathway, oncogenes, prostate-specific genes, and druggable genes. These genes are novel and promising candidate diagnostic, prognostic and/or therapeutic canine PCa biomarkers.
format	article
author	Heike Thiemeyer Leila Taher Jan Torben Schille Eva-Maria Packeiser Lisa K. Harder Marion Hewicker-Trautwein Bertram Brenig Ekkehard Schütz Julia Beck Ingo Nolte Hugo Murua Escobar
author_facet	Heike Thiemeyer Leila Taher Jan Torben Schille Eva-Maria Packeiser Lisa K. Harder Marion Hewicker-Trautwein Bertram Brenig Ekkehard Schütz Julia Beck Ingo Nolte Hugo Murua Escobar
author_sort	Heike Thiemeyer
title	An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes
title_short	An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes
title_full	An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes
title_fullStr	An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes
title_full_unstemmed	An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes
title_sort	rna-seq-based framework for characterizing canine prostate cancer and prioritizing clinically relevant biomarker candidate genes
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/1d53b455aeab4aa2a873fbb0640d6ac9
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An RNA-Seq-Based Framework for Characterizing Canine Prostate Cancer and Prioritizing Clinically Relevant Biomarker Candidate Genes

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