A Transcriptome Analysis of mRNAs and Long Non-Coding RNAs in Patients with Parkinson’s Disease

Parkinson’s disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy burden on the healthcare system. Clinical symptoms include the progressive loss of dopaminergic neurons in the substantia nigra of the midbrain...

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Vydané v:	International journal of molecular sciences Ročník 23; číslo 3; s. 1535
Hlavní autori:	Salemi, Michele, Lanza, Giuseppe, Mogavero, Maria Paola, Cosentino, Filomena I. I., Borgione, Eugenia, Iorio, Roberta, Ventola, Giovanna Maria, Marchese, Giovanna, Salluzzo, Maria Grazia, Ravo, Maria, Ferri, Raffaele
Médium:	Journal Article
Jazyk:	English
Vydavateľské údaje:	Switzerland MDPI AG 28.01.2022 MDPI
Predmet:	Aged Aged, 80 and over Alzheimer's disease Case-Control Studies Cytokines Female Gene expression Gene Expression Profiling - methods Gene loci Gene Regulatory Networks High-Throughput Nucleotide Sequencing Humans Lupus Male Middle Aged Nervous system Parkinson Disease - genetics Parkinson's disease Pathogenesis Proteins RNA polymerase RNA, Long Noncoding - genetics Sequence Analysis, RNA Transfer RNA RNA sequencing inverse comorbidity transcriptome analysis long non-coding RNAs mRNAs Parkinson’s disease
ISSN:	1422-0067, 1661-6596, 1422-0067
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Abstract	Parkinson’s disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy burden on the healthcare system. Clinical symptoms include the progressive loss of dopaminergic neurons in the substantia nigra of the midbrain, which leads to striatal dopamine deficiency and, subsequently, causes motor dysfunction. Certainly, the study of the transcriptome of the various RNAs plays a crucial role in the study of this neurodegenerative disease. In fact, the aim of this study was to evaluate the transcriptome in a cohort of subjects with PD compared with a control cohort. In particular we focused on mRNAs and long non-coding RNAs (lncRNA), using the Illumina NextSeq 550 DX System. Differential expression analysis revealed 716 transcripts with padj ≤ 0.05; among these, 630 were mRNA (coding protein), lncRNA, and MT_tRNA. Ingenuity pathway analysis (IPA, Qiagen) was used to perform the functional and pathway analysis. The highest statistically significant pathways were: IL-15 signaling, B cell receptor signaling, systemic lupus erythematosus in B cell signaling pathway, communication between innate and adaptive immune cells, and melatonin degradation II. Our findings further reinforce the important roles of mitochondria and lncRNA in PD and, in parallel, further support the concept of inverse comorbidity between PD and some cancers.
AbstractList	Parkinson's disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy burden on the healthcare system. Clinical symptoms include the progressive loss of dopaminergic neurons in the substantia nigra of the midbrain, which leads to striatal dopamine deficiency and, subsequently, causes motor dysfunction. Certainly, the study of the transcriptome of the various RNAs plays a crucial role in the study of this neurodegenerative disease. In fact, the aim of this study was to evaluate the transcriptome in a cohort of subjects with PD compared with a control cohort. In particular we focused on mRNAs and long non-coding RNAs (lncRNA), using the Illumina NextSeq 550 DX System. Differential expression analysis revealed 716 transcripts with padj ≤ 0.05; among these, 630 were mRNA (coding protein), lncRNA, and MT_tRNA. Ingenuity pathway analysis (IPA, Qiagen) was used to perform the functional and pathway analysis. The highest statistically significant pathways were: IL-15 signaling, B cell receptor signaling, systemic lupus erythematosus in B cell signaling pathway, communication between innate and adaptive immune cells, and melatonin degradation II. Our findings further reinforce the important roles of mitochondria and lncRNA in PD and, in parallel, further support the concept of inverse comorbidity between PD and some cancers.Parkinson's disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy burden on the healthcare system. Clinical symptoms include the progressive loss of dopaminergic neurons in the substantia nigra of the midbrain, which leads to striatal dopamine deficiency and, subsequently, causes motor dysfunction. Certainly, the study of the transcriptome of the various RNAs plays a crucial role in the study of this neurodegenerative disease. In fact, the aim of this study was to evaluate the transcriptome in a cohort of subjects with PD compared with a control cohort. In particular we focused on mRNAs and long non-coding RNAs (lncRNA), using the Illumina NextSeq 550 DX System. Differential expression analysis revealed 716 transcripts with padj ≤ 0.05; among these, 630 were mRNA (coding protein), lncRNA, and MT_tRNA. Ingenuity pathway analysis (IPA, Qiagen) was used to perform the functional and pathway analysis. The highest statistically significant pathways were: IL-15 signaling, B cell receptor signaling, systemic lupus erythematosus in B cell signaling pathway, communication between innate and adaptive immune cells, and melatonin degradation II. Our findings further reinforce the important roles of mitochondria and lncRNA in PD and, in parallel, further support the concept of inverse comorbidity between PD and some cancers. Parkinson's disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy burden on the healthcare system. Clinical symptoms include the progressive loss of dopaminergic neurons in the substantia nigra of the midbrain, which leads to striatal dopamine deficiency and, subsequently, causes motor dysfunction. Certainly, the study of the transcriptome of the various RNAs plays a crucial role in the study of this neurodegenerative disease. In fact, the aim of this study was to evaluate the transcriptome in a cohort of subjects with PD compared with a control cohort. In particular we focused on mRNAs and long non-coding RNAs (lncRNA), using the Illumina NextSeq 550 DX System. Differential expression analysis revealed 716 transcripts with padj ≤ 0.05; among these, 630 were mRNA (coding protein), lncRNA, and MT_tRNA. Ingenuity pathway analysis (IPA, Qiagen) was used to perform the functional and pathway analysis. The highest statistically significant pathways were: IL-15 signaling, B cell receptor signaling, systemic lupus erythematosus in B cell signaling pathway, communication between innate and adaptive immune cells, and melatonin degradation II. Our findings further reinforce the important roles of mitochondria and lncRNA in PD and, in parallel, further support the concept of inverse comorbidity between PD and some cancers.
Author	Lanza, Giuseppe Ravo, Maria Ventola, Giovanna Maria Borgione, Eugenia Salluzzo, Maria Grazia Cosentino, Filomena I. I. Salemi, Michele Marchese, Giovanna Iorio, Roberta Mogavero, Maria Paola Ferri, Raffaele
AuthorAffiliation	5 Genome Research Center for Health—CRGS, 84081 Baronissi, Italy 1 Oasi Research Institute-IRCCS, 94018 Troina, Italy; glanza@oasi.en.it (G.L.); fcosentino@oasi.en.it (F.I.I.C.); eborgione@oasi.en.it (E.B.); msalluzzo@oasi.en.it (M.G.S.); rferri@oasi.en.it (R.F.) 4 Genomix4Life Srl, 84081 Baronissi, Italy; roberta.iorio@genomix4life.com (R.I.); giovanna.ventola@genomix4life.com (G.M.V.); giovanna.marchese@genomix4life.com (G.M.); maria.ravo@genomix4life.com (M.R.) 2 Department of Surgery and Medical-Surgical Specialties, University of Catania, 95123 Catania, Italy 3 Istituti Clinici Scientifici Maugeri, IRCCS, 27100 Pavia, Italy; paola_mogavero@libero.it
AuthorAffiliation_xml	– name: 2 Department of Surgery and Medical-Surgical Specialties, University of Catania, 95123 Catania, Italy – name: 4 Genomix4Life Srl, 84081 Baronissi, Italy; roberta.iorio@genomix4life.com (R.I.); giovanna.ventola@genomix4life.com (G.M.V.); giovanna.marchese@genomix4life.com (G.M.); maria.ravo@genomix4life.com (M.R.) – name: 1 Oasi Research Institute-IRCCS, 94018 Troina, Italy; glanza@oasi.en.it (G.L.); fcosentino@oasi.en.it (F.I.I.C.); eborgione@oasi.en.it (E.B.); msalluzzo@oasi.en.it (M.G.S.); rferri@oasi.en.it (R.F.) – name: 5 Genome Research Center for Health—CRGS, 84081 Baronissi, Italy – name: 3 Istituti Clinici Scientifici Maugeri, IRCCS, 27100 Pavia, Italy; paola_mogavero@libero.it
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Snippet	Parkinson’s disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy... Parkinson's disease (PD) is the second most common neurodegenerative disorder. The number of cases of PD is expected to double by 2030, representing a heavy...
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SubjectTerms	Aged Aged, 80 and over Alzheimer's disease Case-Control Studies Cytokines Female Gene expression Gene Expression Profiling - methods Gene loci Gene Regulatory Networks High-Throughput Nucleotide Sequencing Humans Lupus Male Middle Aged Nervous system Parkinson Disease - genetics Parkinson's disease Pathogenesis Proteins RNA polymerase RNA, Long Noncoding - genetics Sequence Analysis, RNA Transfer RNA
Title	A Transcriptome Analysis of mRNAs and Long Non-Coding RNAs in Patients with Parkinson’s Disease
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