Preliminary Information of Iranian Lizard Leishmania Promastigote Transcriptome Sequencing by Next -Generation Sequencing (NGS) Method
Abstract
Background: A lizard Leishmania has been isolated from a lizard (Agama agilis) in Iran. Its genome sequence has not been determined, so far.
Methods: The study was done at Shahid Beheshti University of Medical Sciences, Tehran, Iran in 2017-2023. Leishmania promastigotes were cultured in RPMI1640 culture medium and collected at logarithmic phase by centrigugation. Parasite RNA was extracted by the Qiagene standard kit and its quantity and quality was determined and sequenced by NGS method with Illumina PE machine at BGI Company (China).
Results: The number of 8316 mRNA, 83 tRNA, 63 rRNA, 83 ncRNA, 5 snRNA, 1039 snoRNA, 36 region, and 3 repeat regions, 8343 CDS, 9597 Exon and 9292 Genes were identified in promastigote of Iranian lizard Leishmania.
Conclusion: Genomic elements of Iranian lizards Leishmania (with unique characteristics) were determined and identified by NGS system.
1. Moreira POL, Nogueira PM, Monte-Neto RL. Next-Generation Leishmanization: Revisiting Molecular Targets for Selecting Genetically Engineered Live-Attenuated Leishmania. Microorganisms. 2023; 11: 1043.
2. Mohebali M, Nadim A, Khamesipour A. An overview of leishmanization experience: A successful control measure and a tool to evaluate candidate vaccines. Acta Trop. 2019; 200:105173. doi: 10.1016/j.actatropica.2019; 105173.
3. Kazemi B, Tahvidar- Bideroni Gh, Hashemi Feshareki R, Javadian E. Isolation a lizard Leishmania promastigote from natural host in Iran. J Biol Sci. 2004; 4(5): 620-623.
4. Donyavi T, Bandehpour M, Kazemi B. Preparation of transgenic Iranian lizard Leishmania coding HIL-12 .Iran J Microbiol. 2017; 9(5): 305–311.
5. Mirzaahmadi S, Asaadi -Tehrani G, Bandehpour M, et al. Expression of recombinant human coagulation factor VII by the Lizard Leishmania expression system. J Biomed Biotechnol. 2011; 2011: 873874.
6. Jalali A, Bandehpour M, Chegeni, R, et al . Expression, Purification, and Evaluation of Anti-IL-2Rα Antibody Secreted by Leishmania tarentolae. Int J Pept Res Ther. 2021; 27(1): 301–307.
7. Taromchi AH, Kazemi B, Mahmazi S, Bandehpour M. Heterologous Expression of Human IL-29 (IFN-λ1) in Iranian Lizard Leishmania. Iran J Biotechnol. 2013; 11(3): 168-174.
8. Yadegari Z, Bandehpour M, Kazemi B, Sharifi-Sarasiabi Kh. Expression of Recombinant Human Amelogenin in Iranian Lizard Leishmania and Its Biological Function Assay. Iran J Public Health. 2015; 44(7): 987-996.
9. Ivens AC, Peacock CS, Worthey EA, et al. The genome of the kinetoplastid parasite, Leishmania major. Science. 2005; 309 (5733): 436-42.
10. Peacock CS, Seeger K, Harris D, MurphyL, Ruiz JC, Quail MA. Comparative genomic analysis of three Leishmania species that cause diverse human disease. Nat Genet. 2007; 39 (7): 839-47.
11. McDonagh PD, Peter J. Myler PJ, Stuart K. The unusual gene organization of Leishmania major chromosome 1 may reflect novel transcription processes. Nucleic Acids Res. 2000; 28(14): 2800–3.
12. Myler PJ, Audleman L, deVos T, et al. Leishmania major Friedlin chromosome 1 has an unusual distribution of protein-coding genes. Proc Natl Acad Sci U S A. 1999; 96(6): 2902-6.
13. Myler PJ, Sisk E. McDonagh PD, et al. Genomic org-anization and gene function in Leishmania. Bioche Soc Trans. 2000; 28(5): 527– 31.
14. Myler PJ, Beverley SM, Cruz AK, et al. The Leishmania genome project: new insights into gene organization and function. Med Microbiol Immunol. 2001; 190 (1-2): 9-12.
15. Gentil LG, Lasakosvitsch F, Silveira JF, Santos MR, Barbiéri CL. Analysis and chromosomal mapping of Leishmania (Leishmania) amazonensis amastigote expressed sequence tags. Mem Inst Oswaldo Cruz. 2007; 102(6): 707-11.
16. Fong D, Lee B. Beta tubulin gene of the parasitic protozoan Leishmania mexicana. Mol Biochem Parasitol. 1988; 31(1): 97-106.
17. Hejazi SH, Zia-Jahromi N, Bandehpour M, et al. Gene Cloning of Iranian Leishmania major Mannose-1-Phosphate Guanyltransferase. Iran J Parasitol. 2009; 4(3): 1-9.
18. Kheirandish F, Bandehpour M, Haghighi A, Mohebali M, Mahboudi F, Kazemi B. Molecular cloning, Expression and Enzymatic assay of Iranian Leishmania major pteridine reductase 1. Iran J Parasitol. 2008; 3 (2): 1-9.
19. Rasouli M, Zavaran Hoseini A, Kazemi B, Alborzi A, Kiany S. Expression of heat shock protein 70 of MCAN/IT/96/LON-49, a tool for diagnosis and future vaccine research. Iran J Immunol. 2009; 6(2): 75-86.
20. Kazemi B, Tohidi F, Bandehpour M, Yarian F. Molecular Cloning, Expression, and Enzymatic Assay of Pteridine Reductase 1 from Iranian Lizard Leishmania. Iran Biomed J. 2010; 14(3): 97-102.
21. Shaddel M, Oormazdi H, Akhlaghi L, Kazemi B, BandehpourM. Cloning of Leishmania major P4 Gene. Yahkhteh Medical Journal. 2008; 10(3): 201-4.
22. Lee MG, Van der Ploeg LH. Transcription of protein- coding genes in trypanosomes by RNA polymerase I. Annu Rev Microbiol. 1997; 51: 463-89.
23. Worthey EA, Martinez-Calvillo S, Schnaufer A, et al. Leishmania major chromosome 3 contains two long convergent polycistronic gene clusters separated by a tRNA gene. Nucleic Acids Res. 2003; 31(14): 4201–10.
24. Flinn HM, Smith DF. Genomic organization and expression of a differentially regulated gene family from Leishmania major. Nucleic Acids Res.1992; 20(4): 755-62.
25. Ma Y, Lee CJ, Park JS. Strategies for Optimizing the Production of Proteins and Peptides with Multiple Disulfide Bonds. Antibiotics (Basel). 2020; 9(9):541. doi:10.3390/antibiotics9090541
26. Rosano GL, Ceccarelli EA. Recombinant protein expression in Escherichia coli: advances and challenges. Front Microbiol. 2014; 5:172. | https://doi.org/10.3389/fmicb.2014.00172
27. Rosenzweig D, Smith D, Myler PJ, Olafson RW, Zilberstein D. Posttranslational modification of cellular proteins during Leishmania donovani differentiation. Proteomics. 2008; 8(9): 1843-50.
28. Hem S, Gherardini PF, Osorio y Fortéa J, et al. Identification of Leishmania-specific protein phosphorylation sites by LCESI- MS/MS and comparative genomics analyses. Proteomics. 2010; 10(21):3868-83.
29. Kaur J, Sundar S, Singh N. Molecular docking, structure-activity relationship and biological evaluation of the anticancer drug monastrol as a pteridine reductase inhibitor in a clinical isolate of Leishmania donovani. J Antimicrob Chemother. 2010; 65(8):1742-8.
30. Kumar P, Kumar A, Verma SS, et al. Leishmania donovani pteridine reductase 1: biochemical properties and structure-modeling studies. Exp Parasitol. 2008; 120(1):73-9.
31. Basile G, PeticcaM. Recombinant protein expression in Leishmania tarentolae. Mol Biotechnol. 2009; 43(3):273- 8.
32. Soleimani M, Mahboudi F, Davoudi N, et al. Expression of human tissue plasminogen activator in the trypanosomatid protozoan Leishmania tarentolae. Biotechnol Appl Biochem. 2007; 48(Pt 1): 55-61.
33. Hemayatkar M, Mahboudi F, Majidzadeh A K, et al. Increased expression of recombinant human tissue plasminogen activator in Leishmania tarentolae. Biotechnol J. 2010; 5(11):1198-206.
34. Dortay H, Roeber B. A highly efficient pipeline for protein expression in Leishmania tarentolae using infrared fluorescence protein as marker. Microbiol Cell Fact; 2010; 9: 29.
35. Sereno D, Lemesre JL. Axenically Cultured Amastigote Forms as an In Vitro Model for Investigation of Antileishmanial Agents. Antimicrob Agents Chemother. 1997; 41(5): 972–976.
36. Gupta S, Nishi. Visceral Leishmaniasis: Experimental models for drug discovery. Indian J Med Res. 2011; 133(1): 27-39.
37. Abdi Ghavidel A, Jajarmi V, Bandehpour M, Kazemi B. Polycistronic Expression of Multi-Subunit Complexes in the Eukaryotic Environment: A Narrative Review. Iran J Parasitol. 2022; 17(3): 286-295.
38. Abdi Ghavidel A, Aghamiri SH, Jajarmi V, Bandehpour M, Kazemi B. The Influence of Different Culture Media on the Growth and Recombinant Protein Production of Iranian Lizard Leishmania Promastigote. Iran J Parasitol. 2022; 17 (4)543-55.
2. Mohebali M, Nadim A, Khamesipour A. An overview of leishmanization experience: A successful control measure and a tool to evaluate candidate vaccines. Acta Trop. 2019; 200:105173. doi: 10.1016/j.actatropica.2019; 105173.
3. Kazemi B, Tahvidar- Bideroni Gh, Hashemi Feshareki R, Javadian E. Isolation a lizard Leishmania promastigote from natural host in Iran. J Biol Sci. 2004; 4(5): 620-623.
4. Donyavi T, Bandehpour M, Kazemi B. Preparation of transgenic Iranian lizard Leishmania coding HIL-12 .Iran J Microbiol. 2017; 9(5): 305–311.
5. Mirzaahmadi S, Asaadi -Tehrani G, Bandehpour M, et al. Expression of recombinant human coagulation factor VII by the Lizard Leishmania expression system. J Biomed Biotechnol. 2011; 2011: 873874.
6. Jalali A, Bandehpour M, Chegeni, R, et al . Expression, Purification, and Evaluation of Anti-IL-2Rα Antibody Secreted by Leishmania tarentolae. Int J Pept Res Ther. 2021; 27(1): 301–307.
7. Taromchi AH, Kazemi B, Mahmazi S, Bandehpour M. Heterologous Expression of Human IL-29 (IFN-λ1) in Iranian Lizard Leishmania. Iran J Biotechnol. 2013; 11(3): 168-174.
8. Yadegari Z, Bandehpour M, Kazemi B, Sharifi-Sarasiabi Kh. Expression of Recombinant Human Amelogenin in Iranian Lizard Leishmania and Its Biological Function Assay. Iran J Public Health. 2015; 44(7): 987-996.
9. Ivens AC, Peacock CS, Worthey EA, et al. The genome of the kinetoplastid parasite, Leishmania major. Science. 2005; 309 (5733): 436-42.
10. Peacock CS, Seeger K, Harris D, MurphyL, Ruiz JC, Quail MA. Comparative genomic analysis of three Leishmania species that cause diverse human disease. Nat Genet. 2007; 39 (7): 839-47.
11. McDonagh PD, Peter J. Myler PJ, Stuart K. The unusual gene organization of Leishmania major chromosome 1 may reflect novel transcription processes. Nucleic Acids Res. 2000; 28(14): 2800–3.
12. Myler PJ, Audleman L, deVos T, et al. Leishmania major Friedlin chromosome 1 has an unusual distribution of protein-coding genes. Proc Natl Acad Sci U S A. 1999; 96(6): 2902-6.
13. Myler PJ, Sisk E. McDonagh PD, et al. Genomic org-anization and gene function in Leishmania. Bioche Soc Trans. 2000; 28(5): 527– 31.
14. Myler PJ, Beverley SM, Cruz AK, et al. The Leishmania genome project: new insights into gene organization and function. Med Microbiol Immunol. 2001; 190 (1-2): 9-12.
15. Gentil LG, Lasakosvitsch F, Silveira JF, Santos MR, Barbiéri CL. Analysis and chromosomal mapping of Leishmania (Leishmania) amazonensis amastigote expressed sequence tags. Mem Inst Oswaldo Cruz. 2007; 102(6): 707-11.
16. Fong D, Lee B. Beta tubulin gene of the parasitic protozoan Leishmania mexicana. Mol Biochem Parasitol. 1988; 31(1): 97-106.
17. Hejazi SH, Zia-Jahromi N, Bandehpour M, et al. Gene Cloning of Iranian Leishmania major Mannose-1-Phosphate Guanyltransferase. Iran J Parasitol. 2009; 4(3): 1-9.
18. Kheirandish F, Bandehpour M, Haghighi A, Mohebali M, Mahboudi F, Kazemi B. Molecular cloning, Expression and Enzymatic assay of Iranian Leishmania major pteridine reductase 1. Iran J Parasitol. 2008; 3 (2): 1-9.
19. Rasouli M, Zavaran Hoseini A, Kazemi B, Alborzi A, Kiany S. Expression of heat shock protein 70 of MCAN/IT/96/LON-49, a tool for diagnosis and future vaccine research. Iran J Immunol. 2009; 6(2): 75-86.
20. Kazemi B, Tohidi F, Bandehpour M, Yarian F. Molecular Cloning, Expression, and Enzymatic Assay of Pteridine Reductase 1 from Iranian Lizard Leishmania. Iran Biomed J. 2010; 14(3): 97-102.
21. Shaddel M, Oormazdi H, Akhlaghi L, Kazemi B, BandehpourM. Cloning of Leishmania major P4 Gene. Yahkhteh Medical Journal. 2008; 10(3): 201-4.
22. Lee MG, Van der Ploeg LH. Transcription of protein- coding genes in trypanosomes by RNA polymerase I. Annu Rev Microbiol. 1997; 51: 463-89.
23. Worthey EA, Martinez-Calvillo S, Schnaufer A, et al. Leishmania major chromosome 3 contains two long convergent polycistronic gene clusters separated by a tRNA gene. Nucleic Acids Res. 2003; 31(14): 4201–10.
24. Flinn HM, Smith DF. Genomic organization and expression of a differentially regulated gene family from Leishmania major. Nucleic Acids Res.1992; 20(4): 755-62.
25. Ma Y, Lee CJ, Park JS. Strategies for Optimizing the Production of Proteins and Peptides with Multiple Disulfide Bonds. Antibiotics (Basel). 2020; 9(9):541. doi:10.3390/antibiotics9090541
26. Rosano GL, Ceccarelli EA. Recombinant protein expression in Escherichia coli: advances and challenges. Front Microbiol. 2014; 5:172. | https://doi.org/10.3389/fmicb.2014.00172
27. Rosenzweig D, Smith D, Myler PJ, Olafson RW, Zilberstein D. Posttranslational modification of cellular proteins during Leishmania donovani differentiation. Proteomics. 2008; 8(9): 1843-50.
28. Hem S, Gherardini PF, Osorio y Fortéa J, et al. Identification of Leishmania-specific protein phosphorylation sites by LCESI- MS/MS and comparative genomics analyses. Proteomics. 2010; 10(21):3868-83.
29. Kaur J, Sundar S, Singh N. Molecular docking, structure-activity relationship and biological evaluation of the anticancer drug monastrol as a pteridine reductase inhibitor in a clinical isolate of Leishmania donovani. J Antimicrob Chemother. 2010; 65(8):1742-8.
30. Kumar P, Kumar A, Verma SS, et al. Leishmania donovani pteridine reductase 1: biochemical properties and structure-modeling studies. Exp Parasitol. 2008; 120(1):73-9.
31. Basile G, PeticcaM. Recombinant protein expression in Leishmania tarentolae. Mol Biotechnol. 2009; 43(3):273- 8.
32. Soleimani M, Mahboudi F, Davoudi N, et al. Expression of human tissue plasminogen activator in the trypanosomatid protozoan Leishmania tarentolae. Biotechnol Appl Biochem. 2007; 48(Pt 1): 55-61.
33. Hemayatkar M, Mahboudi F, Majidzadeh A K, et al. Increased expression of recombinant human tissue plasminogen activator in Leishmania tarentolae. Biotechnol J. 2010; 5(11):1198-206.
34. Dortay H, Roeber B. A highly efficient pipeline for protein expression in Leishmania tarentolae using infrared fluorescence protein as marker. Microbiol Cell Fact; 2010; 9: 29.
35. Sereno D, Lemesre JL. Axenically Cultured Amastigote Forms as an In Vitro Model for Investigation of Antileishmanial Agents. Antimicrob Agents Chemother. 1997; 41(5): 972–976.
36. Gupta S, Nishi. Visceral Leishmaniasis: Experimental models for drug discovery. Indian J Med Res. 2011; 133(1): 27-39.
37. Abdi Ghavidel A, Jajarmi V, Bandehpour M, Kazemi B. Polycistronic Expression of Multi-Subunit Complexes in the Eukaryotic Environment: A Narrative Review. Iran J Parasitol. 2022; 17(3): 286-295.
38. Abdi Ghavidel A, Aghamiri SH, Jajarmi V, Bandehpour M, Kazemi B. The Influence of Different Culture Media on the Growth and Recombinant Protein Production of Iranian Lizard Leishmania Promastigote. Iran J Parasitol. 2022; 17 (4)543-55.
| Files | ||
| Issue | Vol 18 No 3 (2023) | |
| Section | Original Article(s) | |
| DOI | https://doi.org/10.18502/ijpa.v18i3.13759 | |
| Keywords | ||
| Lizard leishmania RNA sequencing Transcriptome Next generating sequencing | ||
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How to Cite
1.
Ehya F, Kalantari S, Bandehpour M, Kazemi B. Preliminary Information of Iranian Lizard Leishmania Promastigote Transcriptome Sequencing by Next -Generation Sequencing (NGS) Method. Iran J Parasitol. 2023;18(3):362-368.
