Metabolite- protein interaction (MPI) network analysis of obsessive- compulsive disorder (OCD) from reported metabolites

Azodi, Mona Zamanian; Mortazavi-Tabatabaei, Seyed Abdolreza; Mansouri, Vahid; Vafaee, Reza

doi:10.22631/ajhms.2016.43223

Cited by 5 publications

(4 citation statements)

References 13 publications

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“…4 ). The size of the nodes indicates the number of interactions of each gene with other DEG genes, therefore, any changes in gene expression of proteins with high interactions in a network may result in deep dysfunction of the interactome system ( Zamanian-Azodi et al., 2016 ). Genes such as aldehyde dehydrogenase-2 ( ALDH2 ), aldehyde dehydrogenase-1 family member A1 ( ALDH1A1 ), enoyl-CoA delta isomerase-2 ( ECI2 ), acyl-CoA synthetase-1 ( ACSL1 ), enoyl-CoA hydratase and 3-hydroxyacyl CoA dehydrogenase ( EHHADH ), acyl-CoA synthetase bubblegum family member-1 ( ACSBG1 ), and acyl-CoA oxidase-2 ( ACOX2 ) show the highest interaction with other DEG, and could indicate their importance related to the negative responses observed in the infected chickens.…”

Section: Resultsmentioning

confidence: 99%

Necrotic enteritis challenge regulates peroxisome proliferator-1 activated receptors signaling and β-oxidation pathways in broiler chickens

et al. 2021

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Necrotic enteritis (NE) is an important enteric disease in poultry and has become a major concern in poultry production in the post-antibiotic era. The infection with NE can damage the intestinal mucosa of the birds leading to impaired health and, thus, productivity. To gain a better understanding of how NE impacts the gut function of infected broilers, global mRNA sequencing (RNA-seq) was performed in the jejunum tissue of NE challenged and non-challenged broilers to identify the pathways and genes affected by this disease. Briefly, to induce NE, birds in the challenge group were inoculated with 1 mL of Eimeria species on day 9 followed by 1 mL of approximately 10 8 CFU/mL of a NetB producing Clostridium perfringens on days 14 and 15. On day 16, 2 birds in each treatment were randomly selected and euthanized and the whole intestinal tract was evaluated for lesion scores. Duodenum tissue samples from one of the euthanized birds of each replicate ( n = 4) was used for histology, and the jejunum tissue for RNA extraction. RNA-seq analysis was performed with an Illumina RNA HiSeq 2000 sequencer. The differentially expressed genes (DEG) were identified and functional analysis was performed in DAVID to find protein–protein interactions (PPI). At a false discovery rate threshold <0.05, a total of 377 DEG (207 upregulated and 170 downregulated) DEG were identified. Pathway enrichment analysis revealed that DEG were considerably enriched in peroxisome proliferator-activated receptors (PPAR) signaling ( P < 0.01) and β-oxidation pathways ( P < 0.05). The DEG were mostly related to fatty acid metabolism and degradation (cluster of differentiation 36 [ CD36 ], acyl-CoA synthetase bubblegum family member-1 [ ACSBG1 ] , fatty acid-binding protein-1 and -2 [ FABP1 ] and [ FABP2 ]; and acyl-coenzyme A synthetase-1 [ ACSL1 ]), bile acid production and transportation (acyl-CoA oxidase-2 [ ACOX2 ], apical sodium–bile acid transporter [ ASBT ]) and essential genes in the immune system (interferon-, [ IFN-γ ], LCK proto-oncogene, Src family tyrosine kinase [ LCK ], zeta chain of T cell receptor associated protein kinase 70 kDa [ ZAP70 ], and aconitate decarboxylase 1 [ ACOD1 ]). Our data revealed that pathways related to fatty acid digestion were significantly compromised which thereby could have affected metabolic and immune responses in NE infected birds.

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Section: Resultsmentioning

confidence: 99%

Necrotic enteritis challenge regulates peroxisome proliferator-1 activated receptors signaling and β-oxidation pathways in broiler chickens

et al. 2021

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“…Moreover, one of the important binding proteins in TTR network is insulin. Insulin was previously recognized as one of the key proteins interacting with the identified metabolites of OCD ( Zamanian-Azodi, Mortazavi Tabatabaei, Mansouri, & Vafaee, 2016 ). This finding may provide additional validation of the possible contribution of insulin in OCD pathophysiology.…”

Section: Discussionmentioning

confidence: 99%

Introducing Transthyretin as a Differentially Expressed Protein in Washing Subtype of Obsessive-Compulsive Disorder

et al. 2018

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Introduction:Obsessive-Compulsive Disorder (OCD) as one of the important mental problems is valuable topic for proteomic research studies to better understand the underlying mechanisms of this disorder.Methods:In this paper, gel-based proteomic was used to investigate the proteome profile of 16 female patients with OCD, washing subtype before and after treatment with fluoxetine and comparing them with 20 healthy female controls.Results:One of the abnormally expressed protein spots in this study was introduced and examined for protein-protein interaction network analysis via Cytoscape and its plug-ins. Transthyretin (TTR) protein showed significant expression changes (fold change=1.7, P<0.05). While the expression level of TTR is significantly decreased in OCD patients before any treatments, the trend is partially normalized after treatment with fluoxetine in positive responders. Furthermore, TTR interaction profile shows that the proteins interacting with this protein may get affected as this protein expression trend changes in OCD patients.Conclusion:TTR can be considered for further studies to be validated as a potential biomarker for OCD.

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“…Therefore, we are still very far from understanding and elucidating the complex network of interactions taking place in living organisms . In the cell, biological functions are not exerted by single individual proteins, but by transient complexes they form, interacting each other or with other molecules such as nucleic acids − and metabolites. , Thus, the study of proteins and their interactions is essential to understand their roles within the cell and to elucidate the organization of functional networks.…”

Section: Introductionmentioning

confidence: 99%

Protein–DNA/RNA Interactions: An Overview of Investigation Methods in the -Omics Era

et al. 2021

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The fields of application of functional proteomics are not limited to the study of protein–protein interactions; they also extend to those involving protein complexes that bind DNA or RNA. These interactions affect fundamental processes such as replication, transcription, and repair in the case of DNA, as well as transport, translation, splicing, and silencing in the case of RNA. Analytical or preparative experimental approaches, both in vivo and in vitro, have been developed to isolate and identify DNA/RNA binding proteins by exploiting the advantage of the affinity shown by these proteins toward a specific oligonucleotide sequence. The present review proposes an overview of the approaches most commonly employed in proteomics applications for the identification of nucleic acid-binding proteins, such as affinity purification (AP) protocols, EMSA, chromatin purification methods, and CRISPR-based chromatin affinity purification, which are generally associated with mass spectrometry methodologies for the unbiased protein identification.

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Metabolite- protein interaction (MPI) network analysis of obsessive- compulsive disorder (OCD) from reported metabolites

Cited by 5 publications

References 13 publications

Necrotic enteritis challenge regulates peroxisome proliferator-1 activated receptors signaling and β-oxidation pathways in broiler chickens

Necrotic enteritis challenge regulates peroxisome proliferator-1 activated receptors signaling and β-oxidation pathways in broiler chickens

Introducing Transthyretin as a Differentially Expressed Protein in Washing Subtype of Obsessive-Compulsive Disorder

Protein–DNA/RNA Interactions: An Overview of Investigation Methods in the -Omics Era

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