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Gaiya DD, Muhammad A, Aimola IA, Udu SK, Balarabe SA, Auta R, Ekpa E, Sheyin A. Potential of Onchocerca ochengi inosine-5'-monophosphate dehydrogenase (IMPDH) and guanosine-5'-monophosphate oxidoreductase (GMPR) as druggable and vaccine candidates: immunoinformatics screening. J Biomol Struct Dyn 2023; 41:14832-14848. [PMID: 36866624 DOI: 10.1080/07391102.2023.2184171] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Accepted: 02/18/2023] [Indexed: 03/04/2023]
Abstract
Onchocerciasis is a vector-borne disease caused by the filarial nematode Onchocerca volvulus, which is responsible for most of the visual impairments recorded in Africa, Asia and the Americas. It is known that O. volvulus has similar molecular and biological characteristics as Onchocerca ochengi in cattle. This study was designed to screen for immunogenic epitopes and binding pockets of O. ochengi IMPDH and GMPR ligands using immunoinformatic approaches. In this study, a total of 23 B cell epitopes for IMPDH and 7 B cell epitopes for GMPR were predicted using ABCpred tool, Bepipred 2.0 and Kolaskar and Tongaonkar methods. The CD4+ Th computational results showed 16 antigenic epitopes from IMPDH with strong binding affinity for DRB1_0301, DRB3_0101, DRB1_0103 and DRB1_1501 MHC II alleles while 8 antigenic epitopes from GMPR were predicted to bind DRB1_0101 and DRB1_0401 MHC II alleles, respectively. For the CD8+ CTLs analysis, 8 antigenic epitopes from IMPDH showed strong binding affinity to human leukocyte antigen HLA-A*26:01, HLA-A*03:01, HLA-A*24:02 and HLA-A*01:01 MHC I alleles while 2 antigenic epitopes from GMPR showed strong binding affinity to HLA-A*01:01 allele, respectively. The immunogenic B cell and T cell epitopes were further evaluated for antigenicity, non-alllergernicity, toxicity, IFN-gamma, IL4 and IL10. The docking score revealed favorable binding free energy with IMP and MYD scoring the highest binding affinity at -6.6 kcal/mol with IMPDH and -8.3 kcal/mol with GMPR. This study provides valuable insight on IMPDH and GMPR as potential drug targets and for the development of multiple epitope vaccine candidates.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Daniel Danladi Gaiya
- Biology Unit, Faculty of Science, Air Force Institute of Technology, Nigerian Air Force Base, Kawo, Kaduna State, Nigeria
| | - Aliyu Muhammad
- Department of Biochemistry, Faculty of Life Sciences, Ahmadu Bello University, Samaru Zaria, Kaduna State, Nigeria
| | - Idowu Asegame Aimola
- Department of Biochemistry, Faculty of Life Sciences, Ahmadu Bello University, Samaru Zaria, Kaduna State, Nigeria
| | - Stella Kuyet Udu
- Biology Unit, Faculty of Science, Air Force Institute of Technology, Nigerian Air Force Base, Kawo, Kaduna State, Nigeria
| | - Sallau Abdullahi Balarabe
- Department of Biochemistry, Faculty of Life Sciences, Ahmadu Bello University, Samaru Zaria, Kaduna State, Nigeria
| | - Richard Auta
- Department of Biochemistry, Faculty of Science, Kaduna State University, Kaduna, Kaduna State, Nigeria
| | - Emmanuel Ekpa
- Biology Unit, Faculty of Science, Air Force Institute of Technology, Nigerian Air Force Base, Kawo, Kaduna State, Nigeria
| | - Abraham Sheyin
- Department of Biochemistry, Faculty of Life Sciences, Ahmadu Bello University, Samaru Zaria, Kaduna State, Nigeria
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Yu M, Zhu Y, Li Y, Chen Z, Sha T, Li Z, Zhang F, Ding J. Design of a Novel Multi-Epitope Vaccine Against Echinococcus granulosus in Immunoinformatics. Front Immunol 2021; 12:668492. [PMID: 34456902 PMCID: PMC8388843 DOI: 10.3389/fimmu.2021.668492] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Accepted: 07/15/2021] [Indexed: 12/18/2022] Open
Abstract
All the time, echinococcosis is a global zoonotic disease which seriously endangers public health all over the world. In order to speed up the development process of anti-Echinococcus granulosus vaccine, at the same time, it can also save economic cost. In this study, immunoinformatics tools and molecular docking methods were used to predict and screen the antigen epitopes of Echinococcus granulosus, to design a multi-epitope vaccine containing B- and T-cell epitopes. The multi-epitope vaccine could activate B lymphocytes to produce specific antibodies theoretically, which could protect the human body against Echinococcus granulosus infection. It also could activate T lymphocytes and clear the infected parasites in the body. In this study, four CD8+ T-cell epitopes, three CD4+ T-cell epitopes and four B-cell epitopes of Protein EgTeg were identified by immunoinformatics methods. Meanwhile, three CD8+ T-cell epitopes, two CD4+ T-cell epitopes and four B-cell epitopes of Protein EgFABP1 were identified. We constructed the multi-epitope vaccine using linker proteins. The study based on the traditional methods of antigen epitope prediction, further optimized the prediction results combined with molecular docking technology and improved the precision and accuracy of the results. Finally, in vivo and in vitro experiments had verified that the vaccine designed in this study had good antigenicity and immunogenicity.
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MESH Headings
- Adolescent
- Adult
- Animals
- Antibodies, Helminth/blood
- Antigens, Helminth/immunology
- Antigens, Helminth/pharmacology
- B-Lymphocytes/immunology
- B-Lymphocytes/parasitology
- Cells, Cultured
- Computer-Aided Design
- Disease Models, Animal
- Drug Design
- Echinococcosis/blood
- Echinococcosis/immunology
- Echinococcosis/parasitology
- Echinococcosis/prevention & control
- Echinococcus granulosus/immunology
- Epitopes, B-Lymphocyte/immunology
- Epitopes, T-Lymphocyte/immunology
- Fatty Acid-Binding Proteins/immunology
- Fatty Acid-Binding Proteins/pharmacology
- Humans
- Immunity, Humoral
- Immunogenicity, Vaccine
- Lymphocyte Activation
- Mice, Inbred BALB C
- Middle Aged
- Molecular Docking Simulation
- T-Lymphocytes/immunology
- T-Lymphocytes/parasitology
- Vaccines, DNA/immunology
- Vaccines, DNA/pharmacology
- Vaccines, Subunit/immunology
- Vaccines, Subunit/pharmacology
- Young Adult
- Mice
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Affiliation(s)
- Mingkai Yu
- Department of Immunology, School of Basic Medical Sciences, Xinjiang Medical University, Urumqi, China
| | - Yuejie Zhu
- Reproductive Medicine Center, The First Affiliated Hospital of Xinjiang Medical University, Urumqi, China
| | - Yujiao Li
- Department of Blood Transfusion, The First Affiliated Hospital of Xinjiang Medical University, Urumqi, China
| | - Zhiqiang Chen
- Department of Immunology, School of Basic Medical Sciences, Xinjiang Medical University, Urumqi, China
| | - Tong Sha
- Department of Immunology, School of Basic Medical Sciences, Xinjiang Medical University, Urumqi, China
| | - Zhiwei Li
- Clinical Laboratory Center, Xinjiang Uygur Autonomous Region People's Hospital, Urumqi, China
| | - Fengbo Zhang
- Department of Clinical Laboratory, The First Affiliated Hospital of Xinjiang Medical University, Urumqi, China
- State Key Laboratory of Pathogenesis, Prevention, Treatment of Central Asian High Incidence Diseases, The First Affiliated Hospital of Xinjiang Medical University, Urumqi, China
| | - Jianbing Ding
- Department of Immunology, School of Basic Medical Sciences, Xinjiang Medical University, Urumqi, China
- State Key Laboratory of Pathogenesis, Prevention, Treatment of Central Asian High Incidence Diseases, The First Affiliated Hospital of Xinjiang Medical University, Urumqi, China
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Song PX, Yao SH, Yao Y, Zhou J, Li QF, Cao YH, He SY. Epitope Analysis and Efficacy Evaluation of Phosphatase 2C (PP2C) DNA Vaccine Against Toxoplasma gondii Infection. J Parasitol 2021; 106:513-521. [PMID: 32791522 DOI: 10.1645/18-210] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
Abstract
Toxoplasma gondii infects almost all warm-blooded animals and negatively affects the health of a wide range of these animals, including humans. Protein phosphatase 2C (PP2C) is a T. gondii protein secreted by rhoptry organelles during host cell invasion. However, very little is known about whether this protein can induce protective immunity against T. gondii. In this study, bioinformatics analysis of PP2C revealed some useful information in the context of anti-toxoplasmosis treatments and vaccine research. In addition, the PP2C gene was amplified, and a eukaryotic expression vector (pEGFP-PP2C) was successfully constructed to express PP2C. Finally, the constructed pEGFP-PP2C was injected into mice to evaluate whether it could induce immunoprotection. Compared with the control groups, we found that immunizations with the pEGFP-PP2C plasmid could elicit specific IgG antibodies and cytokines against T. gondii infection. The survival of mice immunized with the pEGFP-PP2C plasmid was significantly prolonged compared with that of the control group mice. Based on the ability of pEGFP-PP2C to induce specific immune responses against T. gondii, we propose that PP2C merits consideration as a potential vaccine candidate against toxoplasmosis.
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Affiliation(s)
- P X Song
- Department of Medicine, Quzhou College of Technology, Quzhou, Zhejiang 324000, People's Republic of China.,Department of Parasitology, Shandong University School of Basic Medicine, Jinan, Shandong 250012, People's Republic of China
| | - S H Yao
- Department of Medicine, Quzhou College of Technology, Quzhou, Zhejiang 324000, People's Republic of China
| | - Y Yao
- Department of Medical Test, Shandong Medical College, Linyi, Shandong 276000, People's Republic of China
| | - J Zhou
- Department of Orthopedics, The Second Xiangya Hospital, Central South University, Changsha, Hunan 410011, People's Republic of China
| | - Q F Li
- Department of Medicine, Quzhou College of Technology, Quzhou, Zhejiang 324000, People's Republic of China
| | - Y H Cao
- Department of Medicine, Quzhou College of Technology, Quzhou, Zhejiang 324000, People's Republic of China
| | - S Y He
- Department of Parasitology, Shandong University School of Basic Medicine, Jinan, Shandong 250012, People's Republic of China
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Dong D, Zhu Y, Aili Z, Chen Z, Ding J. Bioinformatics analysis of HPV-68 E6 and E7 oncoproteins for designing a therapeutic epitope vaccine against HPV infection. INFECTION GENETICS AND EVOLUTION 2020; 81:104266. [PMID: 32114254 DOI: 10.1016/j.meegid.2020.104266] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2019] [Revised: 02/23/2020] [Accepted: 02/26/2020] [Indexed: 10/24/2022]
Abstract
The incidence and mortality of cervical cancer, which mainly results from the infection of human papillomavirus (HPV) is significantly increasing in Xinjiang. According to the previous research, the incidence of HPV-68 in cervical cancer patients in Xinjiang is significantly higher than in other parts of China. HPV E6 and E7 oncoproteins play a crucial role in cervical cancer, and can be used as ideal targets for therapeutic vaccines. Therefore, we analyzed and identified the possible T-cell and B-cell dominant epitopes and various aspects of HPV-68 E6 and E7 oncoproteins, including the physicochemical properties, secondary and tertiary structures using a bioinformatic approach, which provided a basis for designing an effective HPV infection therapeutic vaccine. The results showed that E6 oncoproteins was an unstable and hydrophilic protein, while E7 oncoproteins was unstable and hydrophilic protein. The secondary structure of the E6 oncoproteins consisted of 45.57% alpha helixes, 14.56% extended strands, 4.43% beta turns and 35.44% random coils. The secondary structure of E7 oncoproteins consisted of 35.45% alpha helixes, 17.27% extended strands, 0.91% beta turns and 46.36% random coils. Moreover, our results identified 5 dominant T-cell epitopes and 6 dominant B-cell epitopes in the E6 oncoproteins structure and 5 dominant T-cell epitopes and 3 dominant B-cell epitopes in E7 oncoproteins. In conclusion, this study provides comprehensive biological information about the HPV-68 E6 and E7 oncoproteins, which will lay a theoretical foundation for multi-epitope vaccines against HPV infection.
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Affiliation(s)
- Di Dong
- Department of Gynecology, the First Affiliated Hospital of Xinjiang Medical University, Urumqi, Xinjiang 830054, China
| | - Yuejie Zhu
- Center of Reproductive Medicine, the First Affiliated Hospital of Xinjiang Medical University, Urumqi, Xinjiang 830054, China
| | - Zufeiya Aili
- Department of Gynecology, the First Affiliated Hospital of Xinjiang Medical University, Urumqi, Xinjiang 830054, China
| | - Zhifang Chen
- Department of Gynecology, the First Affiliated Hospital of Xinjiang Medical University, Urumqi, Xinjiang 830054, China.
| | - Jianbing Ding
- Department of Immunology, Xinjiang Medical University, Urumqi, Xinjiang 830011, China.
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Nourmohammadi H, Javanmardi E, Shams M, Shamsinia S, Nosrati MC, Yousefi A, Nemati T, Fatollahzadeh M, Ghasemi E, Kordi B, Majidiani H, Irannejad H. Multi-epitope vaccine against cystic echinococcosis using immunodominant epitopes from EgA31 and EgG1Y162 antigens. INFORMATICS IN MEDICINE UNLOCKED 2020. [DOI: 10.1016/j.imu.2020.100464] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
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Zhao X, Zhang F, Li Z, Wang H, An M, Li Y, Pang N, Ding J. Bioinformatics analysis of EgA31 and EgG1Y162 proteins for designing a multi-epitope vaccine against Echinococcus granulosus. INFECTION GENETICS AND EVOLUTION 2019; 73:98-108. [PMID: 31022474 DOI: 10.1016/j.meegid.2019.04.017] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Revised: 04/17/2019] [Accepted: 04/19/2019] [Indexed: 11/15/2022]
Affiliation(s)
- Xiao Zhao
- State Key Laboratory of Pathogenesis, Prevention, Treatment of Central Asian High Incidence Diseases, the First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China; College of Basic Medicine of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Fengbo Zhang
- State Key Laboratory of Pathogenesis, Prevention, Treatment of Central Asian High Incidence Diseases, the First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China; Department of Clinical Laboratory, the First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Zhiwei Li
- College of Basic Medicine of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Hongying Wang
- College of Basic Medicine of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Mengting An
- College of Basic Medicine of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Yujiao Li
- Department of Clinical Laboratory, the First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Nannan Pang
- Department of Clinical Laboratory, the First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China
| | - Jianbing Ding
- State Key Laboratory of Pathogenesis, Prevention, Treatment of Central Asian High Incidence Diseases, the First Affiliated Hospital of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China; College of Basic Medicine of Xinjiang Medical University, Urumqi 830011, Xinjiang, PR China.
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Structural Dynamics of Human Argonaute2 and Its Interaction with siRNAs Designed to Target Mutant tdp43. Adv Bioinformatics 2016; 2016:8792814. [PMID: 27110240 PMCID: PMC4824133 DOI: 10.1155/2016/8792814] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2015] [Revised: 01/31/2016] [Accepted: 02/02/2016] [Indexed: 12/14/2022] Open
Abstract
The human Argonaute2 protein (Ago2) is a key player in RNA interference pathway and small RNA recognition by Ago2 is the crucial step in siRNA mediated gene silencing mechanism. The present study highlights the structural and functional dynamics of human Ago2 and the interaction mechanism of Ago2 with a set of seven siRNAs for the first time. The human Ago2 protein adopts two conformations such as “open” and “close” during the simulation of 25 ns. One of the domains named as PAZ, which is responsible for anchoring the 3′-end of siRNA guide strand, is observed as a highly flexible region. The interaction between Ago2 and siRNA, analyzed using a set of siRNAs (targeting at positions 128, 251, 341, 383, 537, 1113, and 1115 of mRNA) designed to target tdp43 mutants causing Amyotrophic Lateral Sclerosis (ALS) disease, revealed the stable and strong recognition of siRNA by the Ago2 protein during dynamics. Among the studied siRNAs, the siRNA341 is identified as a potent siRNA to recognize Ago2 and hence could be used further as a possible siRNA candidate to target the mutant tdp43 protein for the treatment of ALS patients.
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Effects of AIBL on Oncomelania hupensis, the intermediate snail host of Schistosoma japonicum: an enzyme histochemical study. ASIAN PAC J TROP MED 2012. [PMID: 23199715 DOI: 10.1016/s1995-7645(12)60183-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
OBJECTIVE To explore the effect of AIBL on Oncomelania hupensis, the intermediate snail host of Schistosoma japonicum. METHODS The enzyme histochemical profiles of cholinesterase, cytochrome oxidase, lactate dehydrogenase, nitric oxide synthase, and succinate dehydrogenase in the soft tissues of Oncomelania hupensis, the intermediate host snail of Schistosoma japonicum, were analyzed before and after treatment with the active ingredient of Buddleia lindleyana (AIBL), a potent and safe plant molluscicide. RESULTS Treatment with AIBL induced a notable decrease in the activities of the five enzymes (P<0.01). CONCLUSIONS The results indicate that AIBL impairs the activities of the enzymes, thereby influencing the transfer of neurotransmitter and energy supply in Oncomelania hupensis and ultimately harming their various physiological functions, which are considered to cause death of the species.
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Performance of microhaematuria and proteinuria as measured by urine reagent strips in estimating intensity and prevalence of Schistosoma haematobium infection in Nigeria. ASIAN PAC J TROP MED 2012; 4:997-1000. [PMID: 22118038 DOI: 10.1016/s1995-7645(11)60233-2] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2011] [Revised: 07/15/2011] [Accepted: 12/20/2011] [Indexed: 11/24/2022] Open
Abstract
OBJECTIVE To assess if microhaematuria and proteinuria as measured by reagent strips could estimate intensity of Schistosoma haematobium (S. haematobium) infection in endemic areas and evaluate their screening performance among children in Benue State, Nigeria. METHODS A total of 1,124 urine samples were collected, screened for microhaematuria and proteinuria using reagent strips (Combi 9) and results were compared to filtration technique, the gold standard method. RESULTS A significant correlation was observed between microhaematuria (rho= 0.66, P<0.01), proteinuria (rho = 0.71, P<0.01) and intensity of S. haematobium eggs. Proteinuria had sensitivity of 95.7% and specificity of 67.2%, while microhaematuria had sensitivity of 64.8% and specificity of 89.6%. The proportion of false positive diagnoses was higher in proteinuria (19.2%) than microhaematuria (6.0%). CONCLUSIONS The findings suggest that use of urine reagent strips could potentially estimate intensity of S. haematobium infection and their performance to screen urinary schistosomiasis agreed with previous observations.
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Song J, He QF. Bioinformatics analysis of the structure and linear B–cell epitopes of aquaporin–3 from Schistosoma japonicum. ASIAN PAC J TROP MED 2012; 5:107-9. [DOI: 10.1016/s1995-7645(12)60005-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2011] [Revised: 11/15/2011] [Accepted: 01/15/2012] [Indexed: 11/29/2022] Open
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Wang W, Li Y, Li H, Xing Y, Qu G, Dai J, Liang Y. Immunodiagnostic efficacy of detection of Schistosoma japonicum human infections in China: a meta analysis. ASIAN PAC J TROP MED 2012; 5:15-23. [DOI: 10.1016/s1995-7645(11)60238-1] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2011] [Revised: 12/15/2011] [Accepted: 01/05/2012] [Indexed: 10/14/2022] Open
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12
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Wu Q, Zhou P, Qian S, Qin X, Fan Z, Fu Q, Zhan Z, Pei H. Cloning, expression, identification and bioinformatics analysis of Rv3265c gene from Mycobacterium tuberculosis in Escherichia coli. ASIAN PAC J TROP MED 2011; 4:266-70. [DOI: 10.1016/s1995-7645(11)60083-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2010] [Revised: 02/14/2011] [Accepted: 03/15/2011] [Indexed: 10/18/2022] Open
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