eChapter Name: The Role of Omics in the Bioprocess Development: An Update
9789372199178
eBook Name: MOLECULAR AND TECHNOLOGICAL ADVANCEMENTS IN BIOPROCESS TECHNOLOGY
Introduction
The eco-friendly and commercially sustainable production has been a crucial aspect of modern commercial development. The ecologically sustainable microbial production of value-added products has seen rapid growth across multiple sectors, such as food, pharmaceuticals, and energy, resulting in notable economic benefits and social advancements on a global scale (Shi et al., 2022). The development of “omics” technologies has aided the improvement of microbial production processes through diverse omics procedures, such as genomics, transcriptomics, metabolomics, and systems biology (Amer and Baidoo, 2021). These omics approaches give important understandings into the widespread metabolic variations, thereby identifying the factors that affect microbial production efficiency and improving the understanding of targeted optimization strategies. The integration of omics approaches is considered essential for any strategies that aim to be industrially sustainable. Industrial activities depend on the cultivation and accessibility of significantly competent microbial species to optimize bioproduct yields (Keasling, 2012). Recent progress in the industrial generation of value-added products heavily depends on strategies rooted in omics. Typically, the industry can achieve cost-effective production of limited quantities of biopharmaceuticals (Harris et al., 2015). Nevertheless, to sustainably scale up production capacities, economically feasible alternatives must be planned, standardised, and developed. Over the past few decades, microbes with enhanced abilities for superior product generation have been identified (Babar et al., 2018; Kim et al., 2015). Latest improvements in metabolic engineering have aided the manipulation of various genetic components, including coding and regulatory regions, to maximize commercial benefits (Babar et al., 2018). Genomic methodologies aim to investigate the variations among individuals at both the germline and somatic levels by sequencing specific genomes. The transition from DNA microarray technology to DNA sequencing has enabled the thorough sequencing of entire genomes, providing a detailed characterization of an organism’s genomic landscape (Dai and Shen, 2022) whereas, transcriptomics involves the analysis of mRNA, microRNAs, long non-coding RNAs, and circular RNAs. The methods used in transcriptomics are designed to identify and enumerate RNA molecules transcribed from a specific genome at a particular time. Proteomics on the other hand focuses on understanding the functional significance of all proteins expressed within a cell, tissue, or organism by examining the flow of information via protein signalling and metabolomics contributed a vital part in the development of bioprocesses by providing a comprehensive overview of metabolic activities (Horgan and Kenny, 2011; Petricoin et al., 2002). Synthetic biology contributes a vital part in the production of high-performance strains for microbial manufacturing. A variety of microorganisms including bacteria, fungi, and microalgae can be employed in microbial production. However, synthetic biology methods primarily emphasis on the balanced blueprint of biosynthetic metabolisms for target outcome, as well as the creation and standardisation of these pathways and the heterologous production of the biosynthetic components (Wan et al., 2023). These approaches include the optimisation of fermentation process, optimisation of medium composition, scale up of fermentation, optimization of cell growth for manufacture of desired product, and strategies to decrease feedback inhibition and product toxicity (Figure 3.1) (Wan et al., 2023; Zhang et al., 2022).