Multiomics approaches and genetic engineering of metabolism for improved biorefinery and wastewater treatment in microalgae

Kuo, Eva YuHua; Yang, Ru-Yin; Chien, Yi-Lin; Chen, Yu Chu; Wei, Cheng‐Yu; Kao, Li-Jung; Chang, Yu Chi; Li, Yujia; Chen, Tzer-Shyong; Lee, Tse‐Min

doi:10.1002/biot.202100603

Cited by 15 publications

(7 citation statements)

References 188 publications

(342 reference statements)

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“…3d. For example, wastewater , biorefinery and circular economy keywords appear quite frequently in the author keywords; while the frequency of the wastewater keyword seems to be declining even though the number of articles increases, the popularity of the biorefinery concept, which includes biomass conversion, extraction, and separation of bioproducts and bioenergy, 52 appears quite often. The circular economy concept seemed to have been also in the center of microalgae studies in recent years.…”

Section: Current State Of Microalgal Biofuel Researchmentioning

confidence: 99%

“…78 Similarly, Kuo et al reviewed big data analysis, and ML applications on the discovery of objective traits and genes in metabolic pathways. 52 Pozzobon et al studied the dual staining procedure and introduced ML processing of flow cytometry readings to the microalgal biotechnology community 79 while Levasseur et al studied the effects of light intensity, duty cycle, and cycle duration on the microalgal performances using ML. 9 We limit our discussion on non-biofuel applications with these examples and focus only on the biofuel related papers in the tables and the rest of the discussions.…”

Section: Application Of Machine Learning On Microalgae-based Biofuelsmentioning

confidence: 99%

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Machine learning for algal biofuels: a critical review and perspective for the future

2023

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Section: Current State Of Microalgal Biofuel Researchmentioning

confidence: 99%

Section: Application Of Machine Learning On Microalgae-based Biofuelsmentioning

confidence: 99%

Machine learning for algal biofuels: a critical review and perspective for the future

2023

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“…Despite improved biomass and lipid yields in microalgae consortia, further exploration is required to fully understand the symbiotic mechanisms at play and optimize productivity. The incorporation of omics resources and genetic engineering techniques, including gene transformation procedures, mutagenesis, and genome-editing tools in co-cultivation studies, promises to unravel the intricate metabolic pathways that microalgal cells undergo ( Kuo et al, 2022 ).…”

Section: Microalgae-microalgae Co-cultivationmentioning

confidence: 99%

Microalgal co-cultivation -recent methods, trends in omic-studies, applications, and future challenges

Naseema Rasheed,

Pourbakhtiar,

Mehdizadeh Allaf

et al. 2023

Front. Bioeng. Biotechnol.

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The burgeoning human population has resulted in an augmented demand for raw materials and energy sources, which in turn has led to a deleterious environmental impact marked by elevated greenhouse gas (GHG) emissions, acidification of water bodies, and escalating global temperatures. Therefore, it is imperative that modern society develop sustainable technologies to avert future environmental degradation and generate alternative bioproduct-producing technologies. A promising approach to tackling this challenge involves utilizing natural microbial consortia or designing synthetic communities of microorganisms as a foundation to develop diverse and sustainable applications for bioproduct production, wastewater treatment, GHG emission reduction, energy crisis alleviation, and soil fertility enhancement. Microalgae, which are photosynthetic microorganisms that inhabit aquatic environments and exhibit a high capacity for CO2 fixation, are particularly appealing in this context. They can convert light energy and atmospheric CO2 or industrial flue gases into valuable biomass and organic chemicals, thereby contributing to GHG emission reduction. To date, most microalgae cultivation studies have focused on monoculture systems. However, maintaining a microalgae monoculture system can be challenging due to contamination by other microorganisms (e.g., yeasts, fungi, bacteria, and other microalgae species), which can lead to low productivity, culture collapse, and low-quality biomass. Co-culture systems, which produce robust microorganism consortia or communities, present a compelling strategy for addressing contamination problems. In recent years, research and development of innovative co-cultivation techniques have substantially increased. Nevertheless, many microalgae co-culturing technologies remain in the developmental phase and have yet to be scaled and commercialized. Accordingly, this review presents a thorough literature review of research conducted in the last few decades, exploring the advantages and disadvantages of microalgae co-cultivation systems that involve microalgae-bacteria, microalgae-fungi, and microalgae-microalgae/algae systems. The manuscript also addresses diverse uses of co-culture systems, and growing methods, and includes one of the most exciting research areas in co-culturing systems, which are omic studies that elucidate different interaction mechanisms among microbial communities. Finally, the manuscript discusses the economic viability, future challenges, and prospects of microalgal co-cultivation methods.

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“…when studying these microorganisms operating within their natural environments. [5,12,[21][22][23] This approach allows us to attain a precise understanding of the processes occurring during crucial moments and under specific conditions of acetification. It also helps overcome numerous limitations associated with studying the richness and biodiversity of the microbiota inhabiting selective environments like vinegar.…”

Section: Introductionmentioning

confidence: 99%

“…[ 19,20 ] In this context, omic tools address the massive analysis of the content of macromolecules such as genes (metagenomics), transcripts (metatranscriptomics), proteins (metaproteomics), and metabolites (metabolomics) when studying these microorganisms operating within their natural environments. [ 5,12,21–23 ] This approach allows us to attain a precise understanding of the processes occurring during crucial moments and under specific conditions of acetification. It also helps overcome numerous limitations associated with studying the richness and biodiversity of the microbiota inhabiting selective environments like vinegar.…”

Section: Introductionmentioning

confidence: 99%

Recent advances in applying omic technologies for studying acetic acid bacteria in industrial vinegar production: A comprehensive review

Román‐Camacho,

Mauricio,

Santos‐Dueñas

et al. 2024

Biotechnology Journal

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Vinegar and related bioproducts containing acetic acid as the main component are among the most appreciated fermented foodstuffs in numerous European and Asian countries because of their exceptional organoleptic and bio‐healthy properties. Regarding the acetification process and obtaining of final products, there is still a lack of knowledge on fundamental aspects, especially those related to the study of biodiversity and metabolism of the present microbiota. In this context, omic technologies currently allow for the massive analysis of macromolecules and metabolites for the identification and characterization of these microorganisms working in their natural media without the need for isolation. This review approaches comprehensive research on the application of omic tools for the identification of vinegar microbiota, mainly acetic acid bacteria, with subsequent emphasis on the study of the microbial diversity, behavior, and key molecular strategies used by the predominant groups throughout acetification. The current omics tools are enabling both the finding of new vinegar microbiota members and exploring underlying strategies during the elaboration process. The species Komagataeibacter europaeus may be a model organism for present and future research in this industry; moreover, the development of integrated meta‐omic analysis may facilitate the achievement of numerous of the proposed milestones. This work might provide useful guidance for the vinegar industry establishing the first steps towards the improvement of the acetification conditions and the development of new products with sensory and bio‐healthy profiles adapted to the agri‐food market.

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Multiomics approaches and genetic engineering of metabolism for improved biorefinery and wastewater treatment in microalgae

Cited by 15 publications

References 188 publications

Machine learning for algal biofuels: a critical review and perspective for the future

Machine learning for algal biofuels: a critical review and perspective for the future

Microalgal co-cultivation -recent methods, trends in omic-studies, applications, and future challenges

Recent advances in applying omic technologies for studying acetic acid bacteria in industrial vinegar production: A comprehensive review

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