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Journal of Biomolecular Structure and Dynamics Volume 40, 2022 - Issue 22
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Research Articles

Immunoinformatic approach employing modeling and simulation to design a novel vaccine construct targeting MDR efflux pumps to confer wide protection against typhoidal Salmonella serovars

Soumya Ranjan Mahapatraa School of Biotechnology, Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, IndiaORCID Iconhttps://orcid.org/0000-0002-8927-458X
ORCID Icon,
Jyotirmayee Deya School of Biotechnology, Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, IndiaORCID Iconhttps://orcid.org/0000-0002-5543-7109
ORCID Icon,
Gajraj Singh Kushwahab KIIT-Technology Business Incubator (KIIT-TBI), Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, India;c Transcription Regulation Group, International Centre for Genetic Engineering and Biotechnology (ICGEB), New Delhi, India
,
Puspasree Puhand Science and Technology Department, Government of Odisha, Bhubaneswar, India
,
Nirmal Kumar Mohakude Kalinga Institute of Medical Sciences, KIIT, Deemed to Be University, Bhubaneswar, IndiaORCID Iconhttps://orcid.org/0000-0002-4949-3585
ORCID Icon,
Santosh Kumar Pandae Kalinga Institute of Medical Sciences, KIIT, Deemed to Be University, Bhubaneswar, India
,
S Lataf Kalinga Institute of Dental Sciences, KIIT Deemed to Be University, Bhubaneswar, India
,
Namrata Misraa School of Biotechnology, Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, India;b KIIT-Technology Business Incubator (KIIT-TBI), Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, IndiaCorrespondence[email protected]; [email protected]; [email protected]
ORCID Iconhttps://orcid.org/0000-0003-1813-6478
ORCID Icon &
Mrutyunjay Suara School of Biotechnology, Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, India;b KIIT-Technology Business Incubator (KIIT-TBI), Kalinga Institute of Industrial Technology (KIIT), Deemed to be University, Bhubaneswar, IndiaCorrespondence[email protected]; [email protected]; [email protected]
ORCID Iconhttps://orcid.org/0000-0003-4815-5477
ORCID Icon show all
Pages 11809-11821 | Received 29 Mar 2021, Accepted 01 Aug 2021, Published online: 31 Aug 2021

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Fei Zhu, Shiyang Ma, Haicheng Wen, Mingjun Rao, Peipei Zhang, Wenzhong Peng, Yanhui Cui, Hang Yang, Caixia Tan, Jie Chen & Pinhua Pan. (2023) Development of a novel circular mRNA vaccine of six protein combinations against Staphylococcus aureus. Journal of Biomolecular Structure and Dynamics 41:20, pages 10525-10545.
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Asad Ullah, Farah Ali Shahid, Mahboob Ul Haq, Muhammad Tahir ul Qamar, Muhammad Irfan, Bilal Shaker, Sajjad Ahmad, Faris Alrumaihi, Khaled S. Allemailem & Ahmad Almatroudi. (2023) An integrative reverse vaccinology, immunoinformatic, docking and simulation approaches towards designing of multi-epitopes based vaccine against monkeypox virus. Journal of Biomolecular Structure and Dynamics 41:16, pages 7821-7834.
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Muhammad Janees Imdad, Muhammad Naseem Khan, Hafiz Shahood Alam, Abdul Basit Khan, Zulfiqar Ali Mirani, Adnan Khan & Faraz Ahmed. (2023) Design and in silico analysis of mRNA vaccine construct against Salmonella. Journal of Biomolecular Structure and Dynamics 41:15, pages 7248-7264.
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Aayatti Mallick Gupta, SasthiCharan Mandal, Sukhendu Mandal & Jaydeb Chakrabarti. (2023) Immune escape facilitation by mutations of epitope residues in RdRp of SARS-CoV-2. Journal of Biomolecular Structure and Dynamics 41:8, pages 3542-3552.
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Ajit Kumar, Priyanka Sharma, Akanksha Arun & Laxman S. Meena. (2023) Development of peptide vaccine candidate using highly antigenic PE-PGRS family proteins to stimulate the host immune response against Mycobacterium tuberculosis H37Rv: an immuno-informatics approach. Journal of Biomolecular Structure and Dynamics 41:8, pages 3382-3404.
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Sreevidya S. Devi, Vandana Kardam, Kshatresh D. Dubey & Manish Dwivedi. (2023) Deciphering the immunogenic T-cell epitopes from spike protein of SARS-CoV-2 concerning the diverse population of India. Journal of Biomolecular Structure and Dynamics 41:7, pages 2713-2732.
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Chin Peng Lim, Boon Hui Kok, Hui Ting Lim, Candy Chuah, Badarulhisam Abdul Rahman, Abu Bakar Abdul Majeed, Michelle Wykes, Chiuan Herng Leow & Chiuan Yee Leow. (2023) Recent trends in next generation immunoinformatics harnessed for universal coronavirus vaccine design. Pathogens and Global Health 117:2, pages 134-151.
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Shania Vij, Reena Thakur & Praveen Rishi. (2022) Reverse engineering approach: a step towards a new era of vaccinology with special reference to Salmonella. Expert Review of Vaccines 21:12, pages 1763-1785.
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Taeyoung Park, Hyogyeong Hwang, Suhyeong Moon, Sang Gu Kang, Seunghyup Song, Young Hun Kim, Hanbi Kim, Eun-Ju Ko, Soon-Do Yoon, Sang-Moo Kang & Hye Suk Hwang. (2022) Vaccines against SARS-CoV-2 variants and future pandemics. Expert Review of Vaccines 21:10, pages 1363-1376.
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Jyotirmayee Dey, Soumya Ranjan Mahapatra, S Lata, Shubhransu Patro, Namrata Misra & Mrutyunjay Suar. (2022) Exploring Klebsiella pneumoniae capsule polysaccharide proteins to design multiepitope subunit vaccine to fight against pneumonia. Expert Review of Vaccines 21:4, pages 569-587.
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Jyotirmayee Dey, Soumya Ranjan Mahapatra, Pawan K Singh, Samudyata C. Prabhuswamimath, Namrata Misra & Mrutyunjay Suar. (2023) Designing of multi-epitope peptide vaccine against Acinetobacter baumannii through combined immunoinformatics and protein interaction–based approaches. Immunologic Research 71:4, pages 639-662.
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Subbarayudu Suthi, Deepika Gopi, Abhijit Chaudhary & Potukuchi Venkata Gurunadha Krishna Sarma. (2022) The Therapeutic Potential of 4-Methoxy-1-methyl-2-oxopyridine-3-carbamide (MMOXC) Derived from Ricinine on Macrophage Cell Lines Infected with Methicillin-Resistant Strains of Staphylococcus aureus. Applied Biochemistry and Biotechnology 195:5, pages 2843-2862.
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Rahul Chatterjee, Soumya Ranjan Mahapatra, Jyotirmayee Dey, Kiran Raj Takur, Vishakha Raina, Namrata Misra & Mrutyunjay Suar. (2023) An immunoinformatics and structural vaccinology study to design a multi‐epitope vaccine against Staphylococcus aureus infection . Journal of Molecular Recognition 36:4.
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Soumya Ranjan Mahapatra, Jyotirmayee Dey, T. Kiran Raj, Namrata Misra & Mrutyunjay Suar. (2023) Designing a Next-Generation Multiepitope-Based Vaccine against Staphylococcus aureus Using Reverse Vaccinology Approaches. Pathogens 12:3, pages 376.
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Sarfraz Ahmed, Muhammad Zeeshan Ahmed, Safa Rafique, Seham Eid Almasoudi, Mohibullah Shah, Nur Asyilla Che Jalil & Suvash Chandra Ojha. (2023) Recent Approaches for Downplaying Antibiotic Resistance: Molecular Mechanisms. BioMed Research International 2023, pages 1-27.
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Bharath Sai Gandhamaneni, HemaNandini Rajendran Krishnamoorthy, Shanthi Veerappapillai, Soumya R. Mohapatra & Ramanathan Karuppasamy. (2022) Envelope Glycoprotein based multi-epitope vaccine against a co-infection of Human Herpesvirus 5 and Human Herpesvirus 6 using in silico strategies. Glycoconjugate Journal 39:6, pages 711-724.
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HemaNandini Rajendran Krishnamoorthy & Ramanathan Karuppasamy. (2022) Designing a novel SOX9 based multi-epitope vaccine to combat metastatic triple-negative breast cancer using immunoinformatics approach. Molecular Diversity.
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Kiarash Saleki, Parsa Alijanizade, Saead Moradi, Abolfazl Rahmani, Mohammad Banazadeh, Mohamad Hosein Mohamadi, Farzad Shahabi & Hamid Reza Nouri. (2022) Engineering a novel immunogenic chimera protein utilizing bacterial infections associated with atherosclerosis to induce a deviation in adaptive immune responses via Immunoinformatics approaches. Infection, Genetics and Evolution 102, pages 105290.
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Amir Atapour, Parisa Vosough, Somayeh Jafari & Gholamreza Anani Sarab. (2022) A multi-epitope vaccine designed against blood-stage of malaria: an immunoinformatic and structural approach. Scientific Reports 12:1.
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Jyotirmayee Dey, Soumya Ranjan Mahapatra, T. Kiran Raj, Taranjeet Kaur, Parul Jain, Arushi Tiwari, Shubhransu Patro, Namrata Misra & Mrutyunjay Suar. (2022) Designing a novel multi-epitope vaccine to evoke a robust immune response against pathogenic multidrug-resistant Enterococcus faecium bacterium. Gut Pathogens 14:1.
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Farzaneh Vahedi, Younes Ghasemi, Amir Atapour, Kamiar Zomorodian, Maryam Ranjbar, Ahmad Monabati, Navid Nezafat & Amir Savardashtaki. (2022) B-Cell Epitope Mapping from Eight Antigens of Candida albicans to Design a Novel Diagnostic Kit: An Immunoinformatics Approach. International Journal of Peptide Research and Therapeutics 28:4.
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Jyotirmayee Dey, Soumya Ranjan Mahapatra, Sibabratta Patnaik, S. Lata, Gajraj Singh Kushwaha, Rakesh Kumar Panda, Namrata Misra & Mrutyunjay Suar. (2022) Molecular Characterization and Designing of a Novel Multiepitope Vaccine Construct Against Pseudomonas aeruginosa. International Journal of Peptide Research and Therapeutics 28:2.
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Saba Gul, Sajjad Ahmad, Asad Ullah, Saba Ismail, Muhammad Khurram, Muhammad Tahir ul Qamar, Abdulrahim R. Hakami, Ali G. Alkhathami, Faris Alrumaihi & Khaled S. Allemailem. (2022) Designing a Recombinant Vaccine against Providencia rettgeri Using Immunoinformatics Approach. Vaccines 10:2, pages 189.
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Parminder Kaur Narang, Jyotirmayee Dey, Soumya Ranjan Mahapatra, Riya Roy, Gajraj Singh Kushwaha, Namrata Misra, Mrutyunjay Suar & Vishakha Raina. (2021) Genome-based identification and comparative analysis of enzymes for carotenoid biosynthesis in microalgae. World Journal of Microbiology and Biotechnology 38:1.
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Rahul Chatterjee, Panchanan Sahoo, Soumya Ranjan Mahapatra, Jyotirmayee Dey, Mrinmoy Ghosh, Gajraj Singh Kushwaha, Namrata Misra, Mrutyunjay Suar, Vishakha Raina & Young-Ok Son. (2021) Development of a Conserved Chimeric Vaccine for Induction of Strong Immune Response against Staphylococcus aureus Using Immunoinformatics Approaches. Vaccines 9:9, pages 1038.
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