Review
Biotechnology & Applied Microbiology
Abhinay Sharma, Pooja Sanduja, Aparna Anand, Pooja Mahajan, Carlos A. Guzman, Puja Yadav, Amit Awasthi, Emanuel Hanski, Meenakshi Dua, Atul Kumar Johri
Summary: Infectious diseases are a major cause of death and disability globally, highlighting the need for improved treatment and prevention strategies. Advanced tools such as bioinformatics, genomics, and proteomics can be utilized for rational vaccine design to combat deadly infectious diseases effectively and efficiently.
WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY
(2021)
Review
Biotechnology & Applied Microbiology
Sunita, Yogendra Singh, Gillian Beamer, Xingmin Sun, Pratyoosh Shukla
Summary: Tuberculosis is a prevalent global disease, and current vaccines are not sufficient in protection. Despite many vaccines being evaluated in clinical trials, none have proven significantly successful yet. Therefore, new strategies are urgently needed to design more effective TB vaccines, and the emergence of new technologies will accelerate this process.
CRITICAL REVIEWS IN BIOTECHNOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Bashar Amer, Edward E. K. Baidoo
Summary: Biomanufacturing, a key component of biotechnology, utilizes biological systems to produce commercial bioproducts which are of interest to various industries. Technologies like synthetic biology and metabolic engineering heavily rely on omics driven systems biology for research and development, aiding in the establishment of industrial biomanufacturing platforms. These technologies have a significant impact on the production of biofuels, bioproducts, agricultural and food biotechnology, as well as current COVID-19 research.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Article
Immunology
Michael J. McConnell, Antonio J. Martin-Galiano
Summary: This study utilized proteomic and computational data to identify a larger number of potentially immunogenic proteins in the Acinetobacter baumannii panproteome. The study found that certain antigens showed potential cross-reactivity with human proteins and were associated with different infection types. The integration of multi-omic data and knowledge of drug-resistant bacteria can aid in the development of effective multi-antigen vaccines against challenging infections.
FRONTIERS IN IMMUNOLOGY
(2021)
Review
Plant Sciences
Omayra C. Bolanos-Martinez, Richard Strasser
Summary: Human polioviruses are highly infectious and mainly spread through fecal-oral route. Current vaccines, which are injectable inactivated polio vaccine (IPV) and live-attenuated oral polio vaccine (OPV), have limitations in terms of reduced protection or safety concerns. Plant-based poliovirus vaccines have shown promising results as a safe and low-cost alternative. However, improvements in antigen production are needed.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Immunology
Daniel O'Connor
Summary: Vaccines have had a significant impact on child health, but the immunological processes involved are not fully understood. Recent technological advances offer the opportunity to reveal the immunology underlying vaccine response, potentially revolutionizing vaccine development and testing.
EXPERT REVIEW OF VACCINES
(2022)
Review
Biochemical Research Methods
Timothy D. Veenstra
Summary: Biological research has shifted from focusing on single molecules to analyzing thousands simultaneously, giving rise to various omics fields. These omics fields are laying the groundwork for the development of systems biology, which aims to understand complex interactions within biological systems.
Article
Biochemical Research Methods
Aman Chandra Kaushik, Yan-Jing Wang, Xiangeng Wang, Dong-Qing Wei
Summary: The study revealed significant differences in the genomics, transcriptomics, methylomics, and molecular dynamics between KRAS and TP53 mutations from the wild type in PAAD, with the prognosis of pancreatic cancer directly linked to specific KRAS mutations and protein stability. Screened drugs show potential effectiveness for PAAD patients.
BRIEFINGS IN BIOINFORMATICS
(2021)
Review
Surgery
Alvaro Diaz-Badillo, Guadalupe N. Garibay-Nieto, Ana L. Navas-Figueroa, Adriana L. Perales-Torres, Maria Concepcion Morales-Gomez, Juan C. Lopez-Alvarenga
Summary: The review discusses the history and different types of vaccines, as well as the impact of the current COVID-19 pandemic on vaccination coverage. It also analyzes the effectiveness of vaccines under metabolic host conditions and the confusing messages about vaccination spread on social networks. Finally, general recommendations are provided.
CIRUGIA Y CIRUJANOS
(2021)
Article
Genetics & Heredity
Jack Hearn, Jacob M. Riveron, Helen Irving, Gareth D. Weedall, Charles S. Wondji
Summary: Leucine-rich repeat proteins and antimicrobial peptides are important components of the innate immune response in Anopheles mosquitoes. The APL1 gene in Anopheles funestus exhibits high levels of genetic diversity, and the diversity of other innate immunity genes may be driven by positive or balancing selection. The expression of the APL1 gene is correlated with a more open chromatin structure and enhanced gene conversion.
Article
Microbiology
Paula Cristina Silva Almeida, Bruno Stelmastchuk Roque, Andrei Giacchetto Felice, Arun Kumar Jaiswal, Sandeep Tiwari, Vasco Azevedo, Mario Leon Silva-Vergara, Siomar de Castro Soares, Kennio Ferreira-Paim, Fernanda Machado Fonseca
Summary: This study identified four potential vaccine candidates and drug targets through genome analysis, which could contribute to the development of vaccines and drugs that can change the current scenario of histoplasmosis treatment and prevention.
Review
Oncology
Miaomiao Ye, Yibin Lin, Shuya Pan, Zhi-wei Wang, Xueqiong Zhu
Summary: Ovarian cancer ranks as the fifth most common cause of cancer-related death in females. Multi-omics approaches have been applied to determine the mechanisms of ovarian oncogenesis at different levels and have identified potential diagnostic and prognostic biomarkers and therapeutic targets. The discovery of molecular signatures and targeted therapy strategies could significantly improve the prognosis of ovarian cancer patients.
FRONTIERS IN ONCOLOGY
(2021)
Review
Microbiology
Juan Jose Gonzalez-Plaza, Cristina Furlan, Tomaz Rijavec, Ales Lapanje, Rocio Barros, Juan Antonio Tamayo-Ramos, Maria Suarez-Diez
Summary: The study of microbial cells interacting with natural and synthetic interfaces has been enriched by the development of advanced omics technologies, allowing for the isolation and analysis of nucleic acids, proteins, and metabolites from complex samples. This review discusses the challenges in analyzing microbial cells at genomic, transcriptomic, proteomic, and metabolomic levels, and describes both experimental and computational approaches to address them. The integration of multi omics datasets is presented as a means to achieve a systems level understanding of these complex interactions.
FRONTIERS IN MICROBIOLOGY
(2022)
Review
Genetics & Heredity
Serena Dato, Paolina Crocco, Nicola Rambaldi Migliore, Francesco Lescai
Summary: The omics approach provides new opportunities in understanding the mechanisms of aging, by combining single-cell analysis with systems biology tools to investigate perturbed networks during aging and disease. High-throughput technologies like next-generation sequencing, proteomics, and metabolomics offer a unique opportunity to study biological markers during aging with high accuracy and specificity. Integration, interpretation, and sharing of high-throughput data continue to be major challenges in aging research, highlighting the need for the development of methods focused on integrating different data types. Emphasis on bioinformatics collaboration, diversity, data sharing, and community-driven portable methods is essential for future advancements in aging research.
FRONTIERS IN GENETICS
(2021)
Review
Cardiac & Cardiovascular Systems
Dara Vakili, Dina Radenkovic, Shreya Chawla, Deepak L. Bhatt
Summary: The multifactorial nature of cardiology makes separating noisy signals from real markers or drivers of disease challenging, while the pan-omics approach provides deeper insights into underlying biological mechanisms. Larger database sample sizes and longer follow-up are often better suited for pan-omic analyses in dealing with large biological variability.
FRONTIERS IN CARDIOVASCULAR MEDICINE
(2021)
Article
Biotechnology & Applied Microbiology
Alexandria C. Caldwell, Christi A. Madden, David M. Thompson, M. Connor Garbe, James R. Roberts, Robert M. Jacobson, Paul M. Darden
Summary: The study found that provider recommendation has a significant impact on adolescent vaccine coverage, particularly for the HPV vaccine. Vaccine coverage was generally higher among those who received a provider recommendation compared to those who did not.
HUMAN VACCINES & IMMUNOTHERAPEUTICS
(2021)
Article
Medicine, General & Internal
Lila J. Finney Rutten, Xuan Zhu, Aaron L. Leppin, Jennifer L. Ridgeway, Melanie D. Swift, Joan M. Griffin, Jennifer L. St Sauver, Abinash Virk, Robert M. Jacobson
Summary: The success of COVID-19 vaccination programs relies on scientific safety data, high acceptance rates, and population coverage. However, vaccine hesitancy and complacency about vaccination may undermine the success of these programs. Multilevel, evidence-based strategies are needed to address behavior change and vaccine hesitancy.
MAYO CLINIC PROCEEDINGS
(2021)
Article
Immunology
Jennifer A. Whitaker, Sameer A. Parikh, Tait D. Shanafelt, Neil E. Kay, Richard B. Kennedy, Diane E. Grill, Krista M. Goergen, Timothy G. Call, Saad S. Kendarian, Wei Ding, Gregory A. Poland
Summary: Among patients with chronic lymphocytic leukemia (CLL) and monoclonal B cell lymphocytosis (MBL), the immunogenicity of high-dose influenza vaccine is lower compared to healthy adults, with MBL patients showing greater immunogenicity against influenza B compared to CLL patients.
Article
Multidisciplinary Sciences
Colin Pawlowski, Arjun Puranik, Hari Bandi, A. J. Venkatakrishnan, Vineet Agarwal, Richard Kennedy, John C. O'Horo, Gregory J. Gores, Amy W. Williams, John Halamka, Andrew D. Badley, Venky Soundararajan
Summary: Clinical studies are being conducted to evaluate the potential of existing vaccines in providing protection against SARS-CoV-2 through trained immunity. Analysis of immunization records from 137,037 individuals who underwent SARS-CoV-2 PCR tests revealed associations between various vaccines and decreased infection rates, with a significant reduction among black individuals who received the PCV13 vaccine.
SCIENTIFIC REPORTS
(2021)
Article
Immunology
Iana H. Haralambieva, Katherine G. Eberhard, Inna G. Ovsyannikova, Diane E. Grill, Daniel J. Schaid, Richard B. Kennedy, Gregory A. Poland
Summary: This study identified novel genes that mediate the association between prior immune response and neutralizing antibody titer after a third MMR vaccine dose, involving in innate antiviral response, IFN/cytokine signaling, B cell repertoire generation, the clonal selection of B lymphocytes in germinal centers, and somatic hypermutation/antibody affinity maturation to enhance antigen-specific B cell immune function.
EUROPEAN JOURNAL OF IMMUNOLOGY
(2021)
Editorial Material
Pharmacology & Pharmacy
Gregory A. Poland, Inna G. Ovsyannikova, Richard B. Kennedy
Summary: Pharmacogenetics and pharmacogenomics are well integrated into the drug side of clinical medicine, but diffusion into the biologics side, particularly in the field of human vaccines, has been slow. This has resulted in a lack of scientific foundation for understanding, designing, and evaluating vaccines, especially for hypervariable viruses and complex pathogens.
CLINICAL PHARMACOLOGY & THERAPEUTICS
(2021)
Article
Multidisciplinary Sciences
Stephen N. Crooke, Inna G. Ovsyannikova, Richard B. Kennedy, Gregory A. Poland
Summary: Researchers identified 90 ZIKV peptides naturally processed and presented on HLA class I and II molecules, with a subset of nine peptides predicted to provide global population coverage and stable structural properties suitable for vaccine formulation. This highlights the potential clinical benefit of including ZIKV T cell epitopes in experimental vaccine formulations.
Article
Hematology
Eli Muchtar, Amber B. Koehler, Michael J. Johnson, Kari G. Rabe, Wei Ding, Timothy G. Call, Jose F. Leis, Saad S. Kenderian, Suzanne R. Hayman, Yucai Wang, Paul J. Hampel, Matthew A. Holets, Heather C. Darby, Susan L. Slager, Neil E. Kay, Congrong Miao, Jennifer Canniff, Jennifer A. Whitaker, Myron J. Levin, D. Scott Schmid, Richard B. Kennedy, Adriana Weinberg, Sameer A. Parikh
Summary: This study investigated the immunogenicity of RZV in MBL/CLL patients and found that the antibody and T-cell responses to the vaccine were lower compared to historic controls, with only 29% of participants achieving combined responses. Hypogammaglobulinemia and BTKi therapy were associated with reduced T-cell responses. Strategies to improve vaccine response in MBL/CLL patients are needed to enhance protection against infections.
AMERICAN JOURNAL OF HEMATOLOGY
(2022)
Article
Immunology
Marguerite M. Riggenbach, Iana H. Haralambieva, Inna G. Ovsyannikova, Daniel J. Schaid, Gregory A. Poland, Richard B. Kennedy
Summary: This study found that females have higher neutralizing antibody titers after receiving two doses of MMR vaccine, while males have higher secretion levels of certain cytokines.
CLINICAL IMMUNOLOGY
(2022)
Editorial Material
Medicine, General & Internal
Richard B. Kennedy
Article
Immunology
Richard B. Kennedy, Inna G. Ovsyannikova, Iana H. Haralambieva, Diane E. Grill, Gregory A. Poland
Summary: The availability of effective smallpox vaccines was crucial for eradicating smallpox. This study utilized a poxvirus proteome array to assess the antibody response to viral proteins in smallpox vaccine recipients, revealing differences in antibody response between genders and racial/ethnic groups. The findings support the use of ACAM2000 as a replacement smallpox vaccine and demonstrate the value of poxvirus proteome microarrays in serologic surveillance studies for smallpox.
Article
Biochemical Research Methods
Huy Quang Quach, Inna G. Ovsyannikova, Gregory A. Poland, Richard B. Kennedy
Summary: This paper describes the development of an ELISA method for detecting antibodies specific to peptides and proteins derived from the SARS-CoV-2 virus in immunized golden Syrian hamsters. The method allows quantitative assessment of humoral immune responses at the peptide and protein levels, and has potential applications in the development and testing of peptide-based vaccines in hamsters.
JOURNAL OF IMMUNOLOGICAL METHODS
(2022)
Article
Cell Biology
Laura Evgin, Tim Kottke, Jason Tonne, Jill Thompson, Amanda L. Huff, Jacob van Vloten, Madelyn Moore, Josefine Michael, Christopher Driscoll, Jose Pulido, Eric Swanson, Richard Kennedy, Matt Coffey, Houra Loghmani, Luis Sanchez-Perez, Gloria Olivier, Kevin Harrington, Hardev Pandha, Alan Melcher, Rosa Maria Diaz, Richard G. Vile
Summary: Combining oncolytic viruses (OVs) and CAR T cell therapy can enhance the efficacy of CAR T cells in the solid tumor microenvironment. Stimulation of the native T cell receptor by viral epitopes can enhance CAR T cell proliferation and antitumor function, leading to prolonged survival.
SCIENCE TRANSLATIONAL MEDICINE
(2022)
Review
Virology
Huy Quang Quach, Richard B. Kennedy
Summary: The study found that intradermal (ID) administration of influenza vaccines is more immunogenic in the elderly compared to intramuscular (IM) or subcutaneous (SC) routes, offering a potential solution to the decline in immunogenicity observed in this age group. Additionally, the main benefit of ID influenza vaccine lies in its dose-sparing effect, although it may cause more frequent but mild local adverse reactions.
Article
Virology
Iana H. Haralambieva, Huy Quang Quach, Inna G. Ovsyannikova, Krista M. Goergen, Diane E. Grill, Gregory A. Poland, Richard B. Kennedy
Summary: This study aimed to explore the impact of CD4(+) T cell transcriptional activity on humoral immune response in older adults (≥65 years old) vaccinated with different types of influenza vaccines. The results showed differential gene expression and pathways associated with humoral immune response in CD4(+) T cells between the two vaccine types. These findings provide new insights into the mechanisms underlying declining immunity in older adults and may contribute to improving protective immune response.