Before the outbreak of Coronavirus disease-19, one of the top 10 most risks identified by the World Health Organization (WHO) is antimicrobial resistance (AMR) that is also known as “silent pandemic.” According to Lord Jim O’Neill’s report, if no action is taken, then AMR will result in 10 million deaths annually by 2050. In the agricultural and medical sectors, the indiscriminate utilization of antimicrobial agents is getting worse. For the treatment of carbapenem-resistant Gram-negative infections, new antibiotics are urgently required. Microbes, through genetic mutations, acquire resistance to combat with antimicrobial drugs and thus maintain their survival. The WHO on October 25, 2022, released the “Fungal Priority Pathogens List” which includes 19 fungi that pose the highest threat to public health. The implementation of strategies that avoid any possible exposure of pathogens to antibiotics in non-clinical environments involves cooperation between clinicians, researchers, and policymakers. To combat the emerging threat posed by AMR, a multifaceted and holistic approach known as “One health for all” is also required. The curriculum of medical schools needs to be revitalized using a one-health concept. By spreading vital public health information, these initiatives will be successful in promoting awareness among students and the general public.

The diversity of bacteria, viruses, eukaryotic organisms, and archaea that live in the gastrointestinal tract and have coevolved with the host over thousands of years to establish a complex and advantageous relationship is referred to as the “gut microbiota” or “gut microbiome.” The numerous and diverse gut microbiota play an important role mostly in the betterment of human health by facilitating the breakdown of food to release nutrients that would otherwise be inaccessible to the host, encouraging host cells proliferation and differentiation, defending the host against pathogen colonization, and activating or modulating the immune system. The gut microbial community plays an important role in protecting the host against pathogenic microbes, modulating immunity, and regulating metabolic processes and is even regarded as an endocrine organ. The term “dysbiosis” refers to the imbalance of the gut bacterial microbiota, which has been linked to several disorders such as cardiovascular diseases, obesity, irritable bowel syndrome, colorectal cancer, and sepsis. During cardiac surgery, intestinal ischemia-reperfusion causes an inflammatory response throughout the body. Since the intestines are an organ that is vulnerable to ischemia, germs and endotoxins can move between organs. As a consequence, the gut leads to sepsis after surgery. Next-generation sequencing technologies have enabled analysis of a large number of microorganisms. Metagenomics can be used to study intestinal microbiome diversity and dysbiosis, as well as its relationship to health and disease. Sequence-based and multifunctional metagenomics will also provide insights that will lead to greater knowledge than it is ever been of the structural and functional microbiomes.

Objectives: The World Health Organization (WHO) mentioned Acinetobacter baumannii as a “priority of concern” in 2017. Acinetobacter baumannii generally infects immunocompromised patients and causes various nosocomial infections in the intensive care unit (ICU) such as bacteremia, meningitis, ventilator-associated pneumonia, other respiratory infections, and surgical site infections. As oxacillinase has weak hydrolysis activity, more work was needed on this class-D beta-lactamase. Hence, the current Systematic review focuses on the A. baumannii’s oxacillinase (Class-D beta-lactamases) enzyme and its variants collected during 2013–2020 in India for complete genome sequencing. Method: This Systematic review has been done according to PRISMA guideline 2020. We have used the Bacterial and Viral Bioinformatic Resource Centre (bv-brc.org) system for comparative genome analysis. The protein Basic Local Alignment Search Tool (BLAST) was used to identify similarities between sequences, in which BLOSUM62 was used as a scoring matrix. Clustal-W was used for multiple sequence alignment. A phylogenetic tree of the blaOXA gene family has been constructed using MEGA version 11. Result: In India during 2013–2020, for genome sequencing of A. baumannii, the highest number of samples was collected from blood (36%), following the ETA (30%). The average G+C % content was 38.95%. Among the 339 A. baumannii isolates, a maximum of 189 (55.75%) strains caused pneumonia, whereas 113 (33.33%) strains were involved in bacteremia. Carbapenems seemed effective, but resistance against them was higher. Among all A. baumannii genomes, bla-OXA-23 had the highest frequency (314; 92.62%), followed by bla-OXA-66 (241; 71.09%) in India. Conclusion: Our findings indicated that a high percentage of A. baumannii strains that produce oxacillinases exist in India, emphasizing the necessity for indigenous molecular surveillance to assist effective management and preventative initiatives. Comparative genomics and next-generation sequencing will offer tremendous potential for tracking and regulating the spread of this dangerous bacterium.

The World Health Organization classified Omicron and Delta variants as “variants of concern” because these variants stand as a warning that the epidemic is far from ended. Because of the pandemic’s vast population size, long incubation period, and the diversity of environment, novel variants have been introduced into SARS-CoV-2 genome all over the world. The ability of virus to develop under selection pressure is aided by protective immune system of the host body. The environment of host body shapes its genetic fitness, dispersion, and evolution. Emerging viruses have used recombination and reassortment to create novel antigenic combinations that may enhance the process of cross-species dispersion. The tracking of SARS-CoV-2 genetic variants over time may aid in our knowledge of viral evolution, behavior, and infection trajectory.