| Literature DB >> 26187737 |
Soudabeh Sabetian1, Mohd Shahir Shamsir2.
Abstract
BACKGROUND: Sperm-egg interaction defect is a significant cause of in-vitro fertilization failure for infertile cases. Numerous molecular interactions in the form of protein-protein interactions mediate the sperm-egg membrane interaction process. Recent studies have demonstrated that in addition to experimental techniques, computational methods, namely protein interaction network approach, can address protein-protein interactions between human sperm and egg. Up to now, no drugs have been detected to treat sperm-egg interaction disorder, and the initial step in drug discovery research is finding out essential proteins or drug targets for a biological process. The main purpose of this study is to identify putative drug targets for human sperm-egg interaction deficiency and consider if the detected essential proteins are targets for any known drugs using protein-protein interaction network and ingenuity pathway analysis.Entities:
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Year: 2015 PMID: 26187737 PMCID: PMC4506605 DOI: 10.1186/s12918-015-0186-7
Source DB: PubMed Journal: BMC Syst Biol ISSN: 1752-0509
Fig. 1Sperm-Egg Protein Interaction Network. The intersection (overlapping) network between sperm and oocyte PIN was calculated using a network modification plugin (compare two networks) in Cytoscape 2.8. From these proteins, 106 proteins that contain a signal sequence and/or transmembrane domain were extracted. The created protein network consists of 106 nodes and 1484 interactions
The high confident PPI in sperm-egg interaction network
| Type of interactions | Proteins | PPI |
|---|---|---|
| High confident PPI (>0.700) based on STRING scores | 96 | 362 |
| High confident physical interactions (≥0.431) based on MI scores | 90 | 186 |
After extracting the high confident PPIs, there were two networks: the network with high confident PPI based on STRING scores that includes 96 proteins and 362 interactions and the physical interaction network with 90 proteins and 186 interactions
Fig. 2The Sperm-Egg Interaction Network with High Confident PPI Based on STRING Scores and MI Scores. Two created networks with high confident PPIs were merged to achieve a union network. The retrieved network includes 106 nodes and 415 edges
Fig. 3Histogram of Distribution of the Shortest Path. The shortest paths analysis of the network demonstrated that any two randomly selected nodes on the network were connected by 3.4 links. The results show that the nodes of the network were very closely linked and were similar to other deals of human protein networks
Fig. 4Color Filtered Sperm-Egg Interaction Network by Degree from 1–33. The degree tells us how many links a node has to other nodes. The high degree nodes as hub nodes play important roles in the survival of correlations within a biological network. If the hub nodes are attacked in a network, the network can be broken into pieces
The high degree nodes with evaluated BC and CC in sperm-egg protein network
| Gene name | Protein family | Degree | BC | CC |
|---|---|---|---|---|
| ITGB1 | Integrins | 33 | 0.2 | 0.5 |
| FN1 | Fibronectin | 30 | 0.1 | 0.5 |
| EGFR | Epidermal growth factor receptors | 26 | 0.2 | 0.5 |
| ITGA3 | Integrins | 25 | 0.03 | 0.5 |
| ITGAV | 24 | 0.03 | 0.5 | |
| ITGB3 | 23 | 0.02 | 0.5 | |
| COL1A1 | Collagens | 22 | 0.02 | 0.5 |
| CD9 | Tetraspanins | 21 | 0.1 | 0.5 |
| ITGB4 | Integrins | 20 | 0.04 | 0.5 |
| ITGA5 | 19 | 0.04 | 0.5 | |
| ITGB8 | 18 | 0.01 | 0.4 | |
| ITGB5 | 17 | 0.01 | 0.4 | |
| ITGA2 | 17 | 0.01 | 0.4 |
Half of the maximum degree and BC of the network were used as the critical point of high degree and high BC nodes and in order to check topological centrality of hubs and bottlenecks in the network, CC values of the protein set were measured. The proteins from integrin, fibronectin, epidermal growth factor receptor, collagens and tetraspanin protein families are hub nodes that have a large BC
BC betweennes centrality, CC closeness centrality
Fig. 5Different Types of Integrins [27]. The mouse oocytes can be expressed in diverse integrins as indicated by analysis of integrin subunit expression, i.e. ITGA9-ITGB1, laminin-binding family collagen-binding family and Arg-Gly-Asp (RGD)-binding family (such as, vitronectin, fibronectin)
Known drug targets and drugs for the candidate protein in sperm-egg protein interaction Network
| Protein name | Drugs | Degree |
|---|---|---|
| FN1 | Ocriplasmin | 30 |
| EGFR | Cetuximab, AEE 788, panitumumab, BMS-599626, varlitinib, XL647, afatinib, sapitinib, cetuximab/irinotecan, erlotinib/gemcitabine, lapatinib/letrozole, canertinib, gefitinib, neratinib, PD 153035, lapatinib, vandetanib, erlotinib | 25 |
| ITGAV | Abciximab, CNTO 95, cilengitide | 24 |
| ITGB3 | Abciximab, TP 9201, cilengitide, tirofiban | 23 |
| COL1A1 | Collagenase clostridium histolyticum | 22 |
| ITGB5 | Cilengitide | 17 |
The identified drug targets were arranged based on their degree in the sperm-egg interaction network from high to low. The known drugs for the targets were found using IPA
Hypothetical effects of the targets’ drugs on treatment of sperm-egg interaction defects
| Protein name | Role in sperm-egg interaction | Expression level/infertile vs fertile | Hypothetical role of drugs | Drug name/effect | Suggest for further study on sperm-egg interaction |
|---|---|---|---|---|---|
| FN1 | Interact with α5β1 in sperm and oocyte | ↑ [ | ↑ FN1 may defect sperm-egg interaction | Ocriplasmin/↓ | √ |
| EGFR | Interact with ZP3 | ↑ in breast cancer and there is a relationship between breast cancer and infertility [ | ↑ EGFR may defect sperm-egg interaction | Cetuximab, Panitumumab, Gefitinib, erlotinib hydrochloride/ ↓ | √ |
| COL1A1 | Interact with β1 in sperm and oocyte | × | Induces the binding sperm-egg interaction | Collagenase clostridium histolyticum/ pull apart | × |
| ITGAV, ITGB3, ITGB5 | Facilitates interaction between sperm and egg | ↑ in breast cancer [ | ↑ ITGAV, ITGB3, ITGB5 may defect sperm-egg interaction | Cilengitide/↓ | √ |
The roles of the mentioned drug targets on sperm-egg interaction and the hypothetical effects of the drugs on treatment of sperm-egg interaction defects have been represented in Table 4
↑ increase
↓ decrease