Article
Virology
Zenglei Hu, Jiangyan Zhao, Lei Shi, Jiao Hu, Shunlin Hu, Xiufan Liu
Summary: This study identified two novel non-neutralizing epitopes in the H7N9 HA protein, with one epitope in the head identified as an immunodominant epitope underlying the induction of non-neutralizing H7N9 antibodies. These findings add new knowledge to the molecular basis for antibody immunity against H7N9 vaccines and have implications for vaccine design and modification.
Review
Oncology
William J. Liu, Haixia Xiao, Lianpan Dai, Di Liu, Jianjun Chen, Xiaopeng Qi, Yuhai Bi, Yi Shi, George F. Gao, Yingxia Liu
Summary: Avian influenza A (H7N9) virus, closely associated with live poultry markets, has caused infections in humans in China since 2013. Five waves of the epidemic occurred between 2013 and 2017, with the emergence of highly pathogenic strains causing concern. Rapid response and control by specialists and officials utilized new technologies and surveillance tools. Characteristics of the virus were reviewed from multiple perspectives to provide tools for reducing future threats from H7N9 and other viruses.
FRONTIERS OF MEDICINE
(2021)
Article
Biotechnology & Applied Microbiology
Kanwal Khan, Khurshid Jalal, Reaz Uddin
Summary: Salmonella typhi, a highly drug-resistant strain causing enteric fever, requires urgent attention and development of new vaccines. In this study, a novel antigen chimeric vaccine candidate was successfully designed against S. typhi H58, targeting promising immunogenic peptides. These proteins, never characterized as vaccine targets before, show potential for further experimental studies.
Article
Microbiology
Zhihao Sun, Qiuxia Wang, Gang Li, Jingzhi Li, Sujuan Chen, Tao Qin, Hongwei Ma, Daxin Peng, Xiufan Liu
Summary: The study successfully identified a specific epitope H7-12 peptide for H7N9 AIV and evaluated the protection and serological DIVA characteristics of the recombinant H7N9 AIV strain. The recombinant H7N9 AIV strain JD-cHA/17 showed good protection against H7N9 AIV challenge and could be detected using a specific peptide chip for DIVA testing.
MICROBIOLOGY SPECTRUM
(2021)
Article
Biochemistry & Molecular Biology
Sajjad Ahmad, Shahin Nazarian, Akram Alizadeh, Maryam Pashapour Hajialilou, Shahram Tahmasebian, Metab Alharbi, Abdullah F. Alasmari, Ali Shojaeian, Mahdi Ghatrehsamani, Muhammad Irfan, Hamidreza Pazoki-Toroudi, Samira Sanami
Summary: In July 2022, Langya henipavirus (LayV) was discovered in febrile patients in China. A multi-epitope vaccine against LayV was designed using reverse vaccinology, selecting the best epitopes from LayV's fusion protein and glycoprotein. The vaccine showed good physicochemical properties, antigenicity, non-allergenicity, and non-toxicity, with stable interactions with toll-like receptor 4 (TLR4) and the ability to elicit immune responses against LayV. In vitro and in vivo tests are required to confirm its protective effect.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Immunology
Muhammad Waqas, Shahkaar Aziz, Pietro Lio, Yumna Khan, Amjad Ali, Aqib Iqbal, Faizullah Khan, Fahad Nasser Almajhdi
Summary: This study used immunoinformatics approach to design a chimeric antigen by targeting membrane-bound, enveloped, and extracellular proteins of monkeypox virus (MPXV). Multiple epitopes were selected and merged to construct a multi-epitope vaccine, which showed potential in eliciting cellular and humoral immune responses against MPXV infection.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Leonard Moise, Lauren M. Meyers, Hyesun Jang, Mayara Grizotte-Lake, Christine M. Boyle, Bethany McGonnigal, Pan Ge, Ted M. Ross, Anne S. De Groot
Summary: Strategies to enhance immunogenicity of influenza vaccines are crucial for pandemic preparedness. A study showed that incorporating a memory CD4(+) T cell epitope from H3N2 into H7N9 HA can improve immune response and antibody production.
HUMAN VACCINES & IMMUNOTHERAPEUTICS
(2022)
Article
Biology
Samira Sanami, Morteza Alizadeh, Masoud Nosrati, Korosh Ashrafi Dehkordi, Fatemeh Azadegan-Dehkordi, Shahram Tahmasebian, Hamed Nosrati, Mohammad-Hassan Arjmand, Maryam Ghasemi-Dehnoo, Ali Rafiei, Nader Bagheri
Summary: This study aimed to design an effective multi-epitope vaccine against SARS-COV-2 using reverse vaccinology, selecting structural proteins as target antigens and fusing selected HTL and CTL epitopes with an adjuvant. The proposed vaccine was analyzed for physicochemical properties and antigenicity, and validated through molecular dynamics simulation and immune simulation. In vitro and in vivo tests are needed to further validate the results obtained from bioinformatics analysis.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Article
Biochemistry & Molecular Biology
Sara Aiman, Yasir Ali, Abdul Malik, Musaed Alkholief, Abbas Ahmad, Suhail Akhtar, Sajid Ali, Asifullah Khan, Chunhua Li, Sulaiman Shams
Summary: This study used immunoinformatics approaches to design mRNA-based novel vaccine models against Monkeypox virus (MPXV). Three proteins were prioritized based on antigenicity, allergenicity, and toxicity values to predict T- and B-cell epitopes. The vaccine constructs were designed using these epitopes and adjuvants to enhance immune responses. Molecular modeling and structural validation showed high-quality structures, and the vaccine model exhibited broad protection against multiple MPXV strains.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Microbiology
Jun Li, Rumeng Li, Qi Zhang, Peipei Peng, Xiaoquan Wang, Min Gu, Zenglei Hu, Xinan Jiao, Daxin Peng, Jiao Hu, Xiufan Liu
Summary: This study demonstrates that the H7N9 VLP vaccine provides complete clinical protection against HP H7N9 virus, significantly inhibits virus shedding, and abolishes viral replication in chickens. The VLP vaccine represents a promising alternative strategy for the development of novel H7N9 avian influenza vaccines for chickens.
VETERINARY MICROBIOLOGY
(2021)
Article
Immunology
Kunal Bhattacharya, Israa M. Shamkh, Mohammad Shahbaz Khan, Marwa M. Lotfy, Jean Bosco Nzeyimana, Reem Fawaz Abutayeh, Nadia M. Hamdy, Dalia Hamza, Nongmaithem Randhoni Chanu, Pukar Khanal, Atanu Bhattacharjee, Emad B. Basalious
Summary: A potential vaccine against the monkeypox virus was developed using bioinformatics and immunoinformatics. The constructed multiepitope vaccine showed good antigenicity, non-allergenicity, and non-toxicity. In silico expression studies and cloning in E. coli were successful, making the vaccine construct suitable for mass production in the pharmaceutical industry.
Article
Immunology
Sara Aiman, Abbas Ahmad, Azmat Ali Khan, Amer M. Alanazi, Abdus Samad, Syed Luqman Ali, Chunhua Li, Zhiguang Ren, Asifullah Khan, Saadullah Khattak
Summary: In this study, potential vaccine candidate proteins of L. tropica were prioritized using proteomic and vaccinomic approaches. Multi-epitope constructs were designed based on B- and T-cell epitope prediction, and immunogenic adjuvant sequences were incorporated to enhance immunological potential. Molecular docking and simulation analysis revealed a vaccine design with stable interactions with TLR4.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Medicine, General & Internal
Mohamed A. Soltan, Mohammed Y. Behairy, Mennatallah S. Abdelkader, Sarah Albogami, Eman Fayad, Refaat A. Eid, Khaled M. Darwish, Sameh S. Elhady, Ahmed M. Lotfy, Muhammad Alaa Eldeen
Summary: In this study, a reverse vaccinology approach was used to detect potential antigens for the development of an effective E. coli vaccine. LptD and BamA were identified as vaccine candidates. The constructed multitope vaccine showed promising results in computational validation.
FRONTIERS IN MEDICINE
(2022)
Article
Immunology
Yongqing Liu, Xiaoli Wang, Jiangfei Zhou, Shuaibing Shi, Tengfei Shen, Liangliang Chen, Min Zhang, Chengshui Liao, Chen Wang
Summary: Research has shown that using polydopamine nanoparticles as carriers can significantly enhance the immunogenicities and delivery efficiencies of H9N2 AIV nano epitope vaccines, providing important theoretical basis for the design and development of universal influenza vaccines.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Immunology
Mohamed A. Soltan, Nada Elbassiouny, Helmy Gamal, Eslam B. Elkaeed, Refaat A. Eid, Muhammad Alaa Eldeen, Ahmed A. Al-Karmalawy
Summary: A novel multitope vaccine was designed based on epitopes filtered from the entire proteome of M. catarrhalis, demonstrating potential effectiveness in triggering a specific immune response. This vaccine includes essential, outer membrane proteins with high antigenicity scores and covers conserved regions, along with adjuvants for improved immune stimulation. Further translational research is necessary to validate the efficacy of this designed vaccine.
Article
Infectious Diseases
Md Bashir Uddin, Emran Hossain Sajib, Syeda Farjana Hoque, Md Nazmul Islam Bappy, Fazle Elahi, Arabinda Ghosh, Samuel Muhit, Mohammad Mahmudul Hassan, Mahmudul Hasan, Ramachandran Chelliah, Se Jin Park, Tamanna Jahan Mony, Deog-Hwan Oh, Syed Sayeem Uddin Ahmed
Summary: The scientific community has released the genomic sequences of SARS-CoV-2, which show similarity of over 99% with the reference sequence from China. The study reveals an effective transition from the co-existing SARS genome to SARS-CoV-2 and significant positive selection in the SARS-CoV-2 genomes. Mutations in the RBD domain have been found in genomes from the Netherlands, Bangladesh, and the USA, with the mutation Val/Leu382 showing the lowest binding affinity to remdesivir. These mutations cause significant conformational changes and need further investigation in drug and vaccine development.
INFECTION GENETICS AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
Anik Banik, Sheikh Rashel Ahmed, Emran Hossain Sajib, Anamika Deb, Shiuly Sinha, Kazi Faizul Azim
Summary: Efforts were made in this study to uncover novel therapeutics to prevent metastasis and cancer progression through plant-based bioactive compounds targeting metastasis tumor antigens (MTAs). Several plant metabolites showed strong binding affinity with MTA proteins without undesirable toxicity, suggesting potential future development of effective medications against cancer metastasis. Further in vitro and in vivo trials are highly recommended to experimentally validate the findings.
MOLECULAR DIVERSITY
(2022)
Article
Infectious Diseases
Md Bashir Uddin, Mohammad Nurul Alam, Mahmudul Hasan, S. M. Bayejed Hossain, Mita Debnath, Ruhena Begum, Mohammed A. Samad, Syeda Farjana Hoque, Md. Shahidur Rahman Chowdhury, Md. Mahfujur Rahman, Md. Mukter Hossain, Mohammad Mahmudul Hassan, Ake Lundkvist, Josef D. Jarhult, Mohamed E. El Zowalaty, Syed Sayeem Uddin Ahmed
Summary: This study investigated the antimicrobial resistance and presence of the mcr-1 gene in E. coli isolates from chicken feces in Bangladesh. The isolates showed high resistance to various antibiotics, including colistin. The study confirmed the presence of the eaeA gene and mcr-1 gene in the isolates, and identified a similarity between colistin-resistant genes. The findings highlight the necessity of implementing strict measures to reduce the imprudent use of antibiotics in agriculture and poultry farming.
Article
Infectious Diseases
A. M. U. B. Mahfuz, Md Arif Khan, Emran Hossain Sajib, Anamika Deb, Shafi Mahmud, Mahmudul Hasan, Otun Saha, Ariful Islam, Md Mizanur Rahaman
Summary: Nipah virus (NiV) is a zoonotic virus that causes severe infections in humans and animals. This study designed potential small interfering RNA (siRNA) molecules to silence the gene encoding the nucleocapsid protein of NiV, offering a promising molecular therapeutic approach against this dangerous virus.
INFECTION GENETICS AND EVOLUTION
(2022)
Article
Biochemical Research Methods
Mahmudul Hasan Rifat, Jamil Ahmed, Milad Ahmed, Foeaz Ahmed, Airin Gulshan, Mahmudul Hasan
Summary: The study found that only a few alterations in residues had the largest negative impact on the protein's internal structure and interactions. Research on the ACD11 gene revealed that the A15T and A39D mutations were likely to be extremely detrimental, significantly affecting the protein structure and function.
PLOS COMPUTATIONAL BIOLOGY
(2022)
Article
Microbiology
Md Tahsin Khan, Araf Mahmud, Mahmudul Hasan, Kazi Faizul Azim, Musammat Kulsuma Begum, Mohimenul Haque Rolin, Arzuba Akter, Shakhinur Islam Mondal
Summary: In this study, a subtractive genomics approach was used to identify potential drug targets and vaccine candidates against Legionella pneumophila. Three promising drug targets and one potential vaccine candidate were identified. The findings contribute to the development of novel therapeutics and vaccine candidates for the treatment and prevention of L. pneumophila infections.
MICROBIOLOGY SPECTRUM
(2022)
Article
Biochemistry & Molecular Biology
Mahmudul Hasan, Daniel G. S. Capelluto
Summary: This study determined the concurrence of the PH-FYVE module with the polyD motif in Phafin2 protein using bioinformatics tools and resources. It was found that the polyD motif only evolved in Phafin2 and PH- or both PH-FYVE-containing proteins in animals.
Article
Infectious Diseases
Md Bashir Uddin, Fatema Yeasmin Tanni, Syeda Farjana Hoque, Emran Hossain Sajib, Md Atik Faysal, Md Anisur Rahman, Asaduzzaman Galib, Ahsan Al Emon, Md Mukter Hossain, Mahmudul Hasan, Syed Sayeem Uddin Ahmed
Summary: This study developed a new multi-epitope-based vaccine against lumpy skin disease (LSD) using an in silico reverse vaccinology approach. Three antigenic proteins were manipulated to recognize potential T-cell and B-cell epitopes, and a variety of bioinformatic techniques were utilized to identify superior epitopes. Three new subunit vaccines were developed and the V2 construct was chosen as one of the best candidate vaccines based on its antigenicity, solubility, and validation score of the 3D structures. Molecular dynamic simulation and immunological simulation showed that the V2 vaccine was stable and had the ability to trigger immune responses.
TRANSBOUNDARY AND EMERGING DISEASES
(2022)
Article
Biochemistry & Molecular Biology
Jahed Ahmed, Asma-Ul- Taslim, Topu Raihan, Md. Mehadi Hasan Sohag, Mahmudul Hasan, Sabrina Suhani, Firdausi Qadri, Abul Kalam Azad
Summary: Four fungal isolates with high cellulolytic activity were obtained from organic municipal solid wastes. These isolates produced cellulase with optimum activity at 35-40 degrees C and pH 6.0-7.0. The cellulase was stable at 25-45 degrees C and pH 5.0-7.0 for 1 hour. These findings provide valuable insights into cellulase genes in Aspergillus species and their potential applications in the textile and fermentable sugars production industries.
BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
(2023)
Review
Biochemistry & Molecular Biology
Tuoxian Tang, Mahmudul Hasan, Daniel G. S. Capelluto
Summary: Phafin proteins are a family of proteins that contain PH and FYVE domains. They are classified into two groups, Phafin1 and Phafin2, and both groups bind to phosphatidylinositol 3-phosphate [PtdIns(3)P]. Phafin proteins are involved in cellular pathways such as apoptosis, endocytic cargo trafficking, and autophagy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Saiful Islam, Mst Rubaiat Nazneen Akhand, Mahmudul Hasan
Summary: Defensins are small cationic peptides with a three-dimensional beta-strand structure connected by disulfide bonds. They are key elements of the innate immune system and have diverse roles in various animals. However, the genomic information about beta-defensins in cattle is insufficient and the functions of defensins in the immune system are still unclear. Our study investigated the evolutionary relations of bovine defensin proteins with those of humans and revealed significant domain variation in different clusters. The proteins show different patterns of disulfide bridges and may have specialized functions in combating pathogens.
Article
Biochemistry & Molecular Biology
Bashudeb Paul, Jahangir Alam, Mridha Md. Kamal Hossain, Syeda Farjana Hoque, Md. Nazmul Islam Bappy, Hafsa Akter, Nadim Ahmed, Margia Akter, Mohammad Ali Zinnah, Shobhan Das, Md. Mukthar Mia, Md. Shafiullah Parvej, Sonjoy Sarkar, Hiren Ghosh, Mahmudul Hasan, Hossam M. Ashour, Md. Masudur Rahman
Summary: In this study, a multi-epitope vaccine against canine parvovirus (CPV-2) was designed using in silico approaches. Ten highly antigenic epitopes were selected and linked to a vaccine candidate with 272 nucleotides. The results suggest that this vaccine construct may be useful in preventing canine parvoviral enteritis (CPE) in dogs.
Meeting Abstract
Biophysics
Mahmudul Hasan, Tuo-Xian Tang, Bridget Spruill, Jeffrey F. Ellena, Daniel G. S. Capelluto
BIOPHYSICAL JOURNAL
(2022)
Article
Entomology
Md. Fuad Mondal, Md. Abu Saleh Abir, Md. Mehedi Hasan, Mahmudul Hasan, Anik Banik
Summary: The production of bottle gourd in the northeastern part of Bangladesh has greatly reduced due to the infestation of an invasive sap beetle species called Epuraea sp. This beetle consumes pollen from male flowers, leading to pollination failure and a significant decrease in fruit setting.
INTERNATIONAL JOURNAL OF TROPICAL INSECT SCIENCE
(2022)