Omics Application of Bio-Hydrogen Production Through Green Alga Chlamydomonas reinhardtii

Mutation of negative regulatory gene CEHC1 encoding an FBXO3 protein results in normoxic expression of HYDA genes in Chlamydomonas reinhardtii

Oxygen is known to prevent hydrogen production in Chlamydomonas, both by inhibiting the hydrogenase enzyme and by preventing the accumulation of HYDA-encoding transcripts. We developed a screen for mutants showing constitutive accumulation of HYDA1 transcripts in the presence of oxygen. A reporter gene required for ciliary motility, placed under the control of the HYDA1 promoter, conferred motility only in hypoxic conditions. By selecting for mutants able to swim even in the presence of oxygen we obtained strains that express the reporter gene constitutively. One mutant identified a gene encoding an F-box only protein 3 (FBXO3), known to participate in ubiquitylation and proteasomal degradation pathways in other eukaryotes. Transcriptome profiles revealed that the mutation, termed cehc1-1 , leads to constitutive expression of HYDA1 and other genes regulated by hypoxia, and of many genes known to be targets of CRR1, a transcription factor in the nutritional copper signaling pathway. CRR1 was required for the constitutive expression of the HYDA1 reporter gene in cehc1-1 mutants. The CRR1 protein, which is normally degraded in Cu-supplemented cells, was stabilized in cehc1-1 cells, supporting the conclusion that CEHC1 acts to facilitate the degradation of CRR1. Our results reveal a novel negative regulator in the CRR1 pathway and possibly other pathways leading to complex metabolic changes associated with response to hypoxia.

Genetic engineering for biohydrogen production from microalgae

The development of biohydrogen as an alternative energy source has had great economic and environmental benefits. Hydrogen production from microalgae is considered a clean and sustainable energy production method that can both alleviate fuel shortages and recycle waste. Although algal hydrogen production has low energy consumption and requires only simple pretreatment, it has not been commercialized because of low product yields. To increase microalgal biohydrogen production several technologies have been developed, although they struggle with the oxygen sensitivity of the hydrogenases responsible for hydrogen production and the complexity of the metabolic network. In this review, several genetic and metabolic engineering studies on enhancing microalgal biohydrogen production are discussed, and the economic feasibility and future direction of microalgal biohydrogen commercialization are also proposed.

Sustainable production of biohydrogen from algae biomass: Critical review on pretreatment methods, mechanism and challenges

The production of chemicals and energy from sustainable biomass with an important objective decreasing carbon impressions has recently become one of the key areas of attention. Algae biomass have been recognized and researched as a potential renewable biomass of biohydrogen production attributed to their limited multiplying time, fast growing qualities and ability of lipid accumulation. This review additionally envelops various key perspectives such as composition and properties of algae biomass and pretreatment strategies such as physical, chemical and biological methods adopted for the algae biomass. This review is mainly focused on pretreatment strategies which have been developed to enhance biohydrogen production. The present review deals with methods and mechanism, enzymes involved and factors influencing on biohydrogen production which help to grasp various bottlenecks, challenges and constraints. Finally, the significant progressions and economical perspective on improving biohydrogen yield because of the expansion of co-substrates and the current trends are examined.

Debottlenecking the biological hydrogen production pathway of dark fermentation: insight into the impact of strain improvement

Confronted with the exhaustion of the earth’s fossil fuel reservoirs, bio-based process to produce renewable energy is receiving significant interest. Hydrogen is considered as an attractive energy carrier that can replace fossil fuels in the future mainly due to its high energy content, recyclability and environment-friendly nature. Biological hydrogen production from renewable biomass or waste materials by dark fermentation is a promising alternative to conventional routes since it is energy-saving and reduces environmental pollution. However, the current yield and evolution rate of fermentative hydrogen production are still low. Strain improvement of the microorganisms employed for hydrogen production is required to make the process competitive with traditional production methods. The present review summarizes recent progresses on the screening for highly efficient hydrogen-producing strains using various strategies. As the metabolic pathways for fermentative hydrogen production have been largely resolved, it is now possible to engineer the hydrogen-producing strains by rational design. The hydrogen yields and production rates by different genetically modified microorganisms are discussed. The key limitations and challenges faced in present studies are also proposed. We hope that this review can provide useful information for scientists in the field of fermentative hydrogen production.

Hydrogen can be generated by microorganisms.

Dark fermentation is efficient for biological hydrogen production.

Strain improvement is critical to enhancing hydrogen-producing ability.

Cultivation of Microalgae in Unsterile Malting Effluent for Biomass Production and Lipid Productivity Improvement

Microalgae have the potential to grow in nutrient-rich environments and have the ability to accumulate nutrients from wastewater. The nutrients in malting wastewater are ideal for microalgae cultivation. However, there is limited published work on the growth characteristics of freshwater microalgae grown in malting effluent. This study examined the potential of diluted malting effluent for the growth of freshwater green algae Chlorella sp. and Chlamydomonas sp. isolated from northern Ontario and subsequent biomass and lipid production. Under the 18:6 h light/dark cultivation cycle, the highest cell number counted (540 × 104 cell·mL−1 on day 20) and total chlorophyll content were found in 50% diluted malting effluents for Chlorella sp., whereas the 70% dilution concentration was the most productive for Chlamydomonas (386 × 104 cell·mL−1 on day 16). The total lipid content was higher in the 50% dilution concentration of malting effluent in both Chlorella sp. (maximum 20.5%–minimum 11.5% of dry weight) and Chlamydomonas sp. (max 39.3%–min 25.9% of dry weight). These results emphasize the suitability of using unsterile diluted malting effluent for microalgae cultivation.

Simple, Economical Methods for the Culture of Green Algae for Energy Harvesting from Photosynthesis in a Microfluidic Environment

Ongoing technological advancements continually increase the demand for energy. Among various types of energy harvesting systems, biologically based systems have been an area of increasing interest for the past couple of decades. Such systems provide clean, safe power solutions, mainly for low- and ultra-low-power applications. The microphotosynthetic power cell (μPSC) is one such system that make use of photosynthetic living cells or organisms to generate power. For strong performance, μPSC technology, because of its interdisciplinary nature, requires optimal engineering of both electrochemical cell design and the culture conditions of the photosynthetic microorganisms. We present here a simple, economical culture method for the photosynthetic microorganism Chlamydomonas reinhardtii suitable for the application of this biologically based power system in any geographical location. This article provides a series of protocols for preparing materials and culture medium designed to facilitate the culture of a suitable C. reinhardtii strain even in a non-biological laboratory. Possible challenges and methods to overcome them are also discussed. Cultured C. reinhardtii perform sufficiently well that they have already been successfully utilized to generate power from a μPSC, generating a peak power of 200 μW from just 2 ml of exponential-phase algal culture in a μPSC with an active electrode surface area of 4.84 cm² . The μPSC thus has potentially broad applications in low- and ultra-low-power devices and sensors. © 2021 Wiley Periodicals LLC. Basic Protocol 1: Algal growth conditions and algal growth chamber fabrication Basic Protocol 2: Preparation of Tris-acetate-phosphate (TAP) nutrient medium Basic Protocol 3: Preparation of suspension algal culture from algal strain Basic Protocol 4: Preparation of stock culture plates (algal strain) from suspension algal culture.

Photosynthetic hydrogen production: Novel protocols, promising engineering approaches and application of semi-synthetic hydrogenases

Photosynthetic production of molecular hydrogen (H₂ ) by cyanobacteria and green algae is a potential source of renewable energy. These organisms are capable of water biophotolysis by taking advantage of photosynthetic apparatus that links water oxidation at Photosystem II and reduction of protons to H₂ downstream of Photosystem I. Although the process has a theoretical potential to displace fossil fuels, photosynthetic H₂ production in its current state is not yet efficient enough for industrial applications due to a number of physiological, biochemical, and engineering barriers. This article presents a short overview of the metabolic pathways and enzymes involved in H₂ photoproduction in cyanobacteria and green algae and our present understanding of the mechanisms of this process. We also summarize recent advances in engineering photosynthetic cell factories capable of overcoming the major barriers to efficient and sustainable H₂ production.

Hydrogen agronomy: research progress and prospects

Agriculture is the foundation of social development. Under the pressure of population growth, natural disasters, environmental pollution, climate change, and food safety, the interdisciplinary "new agriculture" is becoming an important trend of modern agriculture. In fact, new agriculture is not only the foundation of great health and new energy sources, but is also the cornerstone of national food security, energy security, and biosafety. Hydrogen agronomy focuses mainly on the mechanism of hydrogen gas (H₂) biology effects in agriculture, and provides a theoretical foundation for the practice of hydrogen agriculture, a component of the new agriculture. Previous research on the biological effects of H₂ focused chiefly on medicine. The mechanism of selective antioxidant is the main theoretical basis of hydrogen medicine. Subsequent experiments have demonstrated that H₂ can regulate the growth and development of plant crops, edible fungus, and livestock, and enhance the tolerance of these agriculturally important organisms against abiotic and biotic stresses. Even more importantly, H₂ can regulate the growth and development of crops by changing the soil microbial community composition and structure. Use of H₂ can also improve the nutritional value and postharvest quality of agricultural products. Researchers have also shown that the biological functions of molecular hydrogen are mediated by modulating reactive oxygen species (ROS), nitric oxide (NO), and carbon monoxide (CO) signaling cascades in plants and microbes. This review summarizes and clarifies the history of hydrogen agronomy and describes recent progress in the field. We also argue that emerging hydrogen agriculture will be an important direction in the new agriculture. Further, we discuss several scientific problems in hydrogen agronomy, and suggest that the future of hydrogen agronomy depends on contributions by multiple disciplines. Important future research directions of hydrogen agronomy include hydrogen agriculture in special environments, such as islands, reefs, aircraft, and outer space.

Transcriptome Profile Analysis of Arabidopsis Reveals the Drought Stress-Induced Long Non-coding RNAs Associated With Photosynthesis, Chlorophyll Synthesis, Fatty Acid Synthesis and Degradation

Long non-coding RNAs (lncRNAs) play an important role in the response of plants to drought stress. The previous studies have reported that overexpression of LEA3 and VOC could enhance drought tolerance and improve the oil content in Brassica napus and Arabidopsis thaliana, and most of the efforts have been invested in the gene function analysis, there is little understanding of how genes that involved in these important pathways are regulated. In the present study, the transcriptomic results of LEA3 and VOC over-expressed (OE) lines were compared with the RNAi lines, mutant lines and control lines under long-term and short-term drought treatment, a series of differentially expressed lncRNAs were identified, and their regulation patterns in mRNA were also investigated in above mentioned materials. The regulation of the target genes of differentially expressed lncRNAs on plant biological functions was studied. It was revealed that the mutant lines had less drought-response related lncRNAs than that of the OE lines. Functional analysis demonstrated that multiple genes were involved in the carbon-fixing and chlorophyll metabolism, such as CDR1, CHLM, and CH1, were regulated by the upregulated lncRNA in OE lines. In LEA-OE, AT4G13180 that promotes the fatty acid synthesis was regulated by five lncRNAs that were upregulated under both long-term and short-term drought treatments. The key genes, including of SHM1, GOX2, and GS2, in the methylglyoxal synthesis pathway were all regulated by a number of down-regulated lncRNAs in OE lines, thereby reducing the content of such harmful compounds produced under stress in plants. This study identified a series of lncRNAs related to the pathways that affect photosynthesis, chlorophyll synthesis, fatty acid synthesis, degradation, and other important effects on drought resistance and oil content. The present study provided a series of lncRNAs for further improvement of crop varieties, especially drought resistant and oil content traits.

Advanced microalgae-based renewable biohydrogen production systems: A review

The reliance of fossil fuel for industrial and energy sectors has resulted in its depletion. Therefore, enormous efforts have been considered to move-out from fossil fuels to renewable energy sources based industrial process developments. Recently, biohydrogen (bio-H₂) has been recognised as a clean source of fuel with high-energy efficiency, which can be produced via different routes. Among them, biological fermentation processes are highly recommended due to eco-friendly and economically viable approaches compared to that of thermochemical processes. However, the low H₂ yield and high production cost are major bottlenecks for commercial scale operations. Thus, this review proposed an integrated microalgae-based H₂ production process, which will provides a possible route for commercialization in near future. Furthermore, process integration to improve efficiency and implementation of advanced strategies for the enhancement of bio-H₂ production, economic viability, and future research needs are discussed.

Multiview learning for understanding functional multiomics

The molecular mechanisms and functions in complex biological systems currently remain elusive. Recent high-throughput techniques, such as next-generation sequencing, have generated a wide variety of multiomics datasets that enable the identification of biological functions and mechanisms via multiple facets. However, integrating these large-scale multiomics data and discovering functional insights are, nevertheless, challenging tasks. To address these challenges, machine learning has been broadly applied to analyze multiomics. This review introduces multiview learning-an emerging machine learning field-and envisions its potentially powerful applications to multiomics. In particular, multiview learning is more effective than previous integrative methods for learning data's heterogeneity and revealing cross-talk patterns. Although it has been applied to various contexts, such as computer vision and speech recognition, multiview learning has not yet been widely applied to biological data-specifically, multiomics data. Therefore, this paper firstly reviews recent multiview learning methods and unifies them in a framework called multiview empirical risk minimization (MV-ERM). We further discuss the potential applications of each method to multiomics, including genomics, transcriptomics, and epigenomics, in an aim to discover the functional and mechanistic interpretations across omics. Secondly, we explore possible applications to different biological systems, including human diseases (e.g., brain disorders and cancers), plants, and single-cell analysis, and discuss both the benefits and caveats of using multiview learning to discover the molecular mechanisms and functions of these systems.