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Biotechnology and Bioengineering • 2015

Ammonia inhibition is one of the most frequent and serious problems in biogas plants. In this study, a novel hybrid system consisting of a submersible microbial desalination cell (SMDC) and a continuous stirred tank reactor (CSTR) was developed for counteracting ammonia inhibition during anaerobic digestion (AD) with simultaneous in situ ammonia recovery and electricity production. The SMDC was powered by acetate in a buffer solution, while synthetic ammonia-rich wastewater was used as the feeding of the CSTR. Under continuous operation, ammonia recovery rate of 86 g-N/m(2) /day and current density of 4.33 A/m(2) were achieved at steady-state condition. As a result, 112% extra biogas was produced due to ammonia recovery by the SMDC. High-throughput sequencing showed that ammonia recovery had an impact on the microbial community structures in the SMDC and CSTR. Considering the additional economic benefits of biogas enhancement and possible wastewater treatment, the SMDC may represent a cost-effective and environmentally friendly method for waste resources recovery and biomethanation of ammonia-rich residues.

[object Object], [object Object], [object Object] et al.

Crystals • 2020

Recently, the development of a unique class of layered silicate nanomaterials has attracted considerable interest for treatment of wastewater. Clean water is an essential commodity for healthier life, agriculture and a safe environment at large. Layered double hydroxides (LDHs) and other clay hybrids are emerging as potential nanostructured adsorbents for water purification. These LDH hybrids are referred to as hydrotalcite-based materials or anionic clays and promising multifunctional two-dimensional (2D) nanomaterials. They are used in many applications including photocatalysis, energy storage, nanocomposites, adsorption, diffusion and water purification. The adsorption and diffusion capacities of various toxic contaminants heavy metal ions and dyes on different unmodified and modified LDH-samples are discussed comparatively with other types of nanoclays acting as adsorbents. This review focuses on the preparation methods, comparison of adsorption and diffusion capacities of LDH-hybrids and other nanoclay materials for the treatment of various contaminants such as heavy metal ions and dyes.

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ACS Synthetic Biology • 2017

Extracellular electron transfer (EET) in Shewanella oneidensis MR-1, which is one of the most well-studied exoelectrogens, underlies many microbial electrocatalysis processes, including microbial fuel cells, microbial electrolysis cells, and microbial electrosynthesis. However, regulating the efficiency of EET remains challenging due to the lack of efficient genome regulation tools that regulate gene expression levels in S. oneidensis. Here, we systematically established a transcriptional regulation technology, i.e., clustered regularly interspaced short palindromic repeats interference (CRISPRi), in S. oneidensis MR-1 using green fluorescent protein (GFP) as a reporter. We used this CRISPRi technology to repress the expression levels of target genes, individually and in combination, in the EET pathways (e.g., the MtrCAB pathway and genes affecting the formation of electroactive biofilms in S. oneidensis), which in turn enabled the efficient regulation of EET efficiency. We then established a translational regulation technology, i.e., Hfq-dependent small regulatory RNA (sRNA), in S. oneidensis by repressing the GFP reporter and mtrA, which is a critical gene in the EET pathways in S. oneidensis. To achieve coordinated transcriptional and translational regulation at the genomic level, the CRISPRi and Hfq-dependent sRNA systems were incorporated into a single plasmid harbored in a recombinant S. oneidensis strain, which enabled an even higher efficiency of mtrA gene repression in the EET pathways than that achieved by the CRISPRi and Hfq-dependent sRNA system alone, as exhibited by the reduced electricity output. Overall, we developed a combined CRISPRi–sRNA method that enabled the synergistic transcriptional and translational regulation of target genes in S. oneidensis. This technology involving CRISPRi–sRNA transcriptional–translational regulation of gene expression at the genomic level could be applied to other microorganisms.

[object Object], [object Object], [object Object] et al.

Journal of Hazardous Materials • 2021

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Current Opinion in Biotechnology • 2021

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Frontiers in Bioengineering and Biotechnology • 2022

supplementation. Finally, future perspectives on the microbial production of succinic acid are discussed.

[object Object], [object Object], [object Object] et al.

Bioresource Technology • 2018

[object Object], [object Object], [object Object] et al.

Water Research • 2019

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Chemical Engineering Journal • 2017

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AIMS bioengineering • 2018

Sources of methane are numerous, and vary greatly in their use and sustainable credentials. A Jekyll and Hyde character, it is a valuable energy source present as geological deposits of natural gas, however it is also potent greenhouse gas, released during many waste management processes. Gas-to-liquid technologies are being investigated as a means to exploit and monetise non-traditional and unutilised methane sources. The product identified as having the greatest potential is methanol due to it being a robust, commercially mature conversion process from methane and its beneficial fuel characteristics. Commercial methane to methanol conversion requires high temperatures and pressures, in an energy intensive and costly process. In contrast methanotrophic bacteria perform the desired transformation under ambient conditions, using methane monooxygenase (MMO) enzymes. Despite the great potential of these bacteria a number of biotechnical difficulties are hindering progress towards an industrially suitable process. We have identified five major challenges that exist as barriers to a viable conversion process that, to our knowledge, have not previously been examined as distinct process challenges. Although biotechnological applications of methanotrophic bacteria have been reviewed in part, no review has comprehensively covered progress and challenges for a methane to methanol process from an industrial perspective. All published examples to date of methanotroph catalysed conversion of methane to methanol are collated, and standardised to allow direct comparison. The focus will be on conversion of methane to methanol by whole-cell, wild type, methanotroph cultures, and the potential for their application in an industrially relevant process. A recent shift in the research community focus from a mainly biological angle to an overall engineering approach, offers potential to exploit methanotrophs in an industrially relevant biotechnological gas-to-liquid process. Current innovations and future opportunities are discussed.

[object Object], [object Object], [object Object] et al.

Bioresource Technology Reports • 2019

The selective and high-rate microbial electrosynthesis of a valuable molecule is favoured from an economic perspective. We demonstrate here that increasing selectivity towards n-butyrate and n-caproate over acetate, while maintaining high production rate and electron recovery, is achievable by adjusting the CO2 feeding strategy and hydraulic retention time. We show that high CO2 loading rate (173 L d−1) and long hydraulic retention time (14 days) triggers bioelectrochemical chain elongation to n-butyrate and n-caproate (53.6 ± 4.1%C), whereas lower CO2 loading rate (8.6 L d−1) does not, even with increasing HRT (96.4 ± 2.4%C into acetate). Moreover, temporarily detaching and re-attaching the biofilm allowed to obtain high-rate n-caproate production of 2.0 ± 0.1 g L−1 d−1 (max 3.1 g L−1), while producing 3.3 ± 0.2 g L−1 d−1 n-butyrate (max 9.3 g L−1), at an increased 63.6 ± 5.0%C into both. This was achieved with 69.8 ± 2.8% total electron recovery at −100.8 A m−2.

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Environmental Science & Technology • 2015

Furanic and phenolic compounds are problematic byproducts resulting from the breakdown of lignocellulosic biomass during biofuel production. The capacity of a microbial electrolysis cell (MEC) to produce hydrogen gas (H2) using a mixture of two furanic (furfural, FF; 5-hydroxymethyl furfural, HMF) and three phenolic (syringic acid, SA; vanillic acid, VA; and 4-hydroxybenzoic acid, HBA) compounds as the substrate in the bioanode was assessed. The rate and extent of biotransformation of the five compounds and efficiency of H2 production, as well as the structure of the anode microbial community, were investigated. The five compounds were completely transformed within 7-day batch runs and their biotransformation rate increased with increasing initial concentration. At an initial concentration of 1200 mg/L (8.7 mM) of the mixture of the five compounds, their biotransformation rate ranged from 0.85 to 2.34 mM/d. The anode Coulombic efficiency was 44-69%, which is comparable to that of wastewater-fed MECs. The H2 yield varied from 0.26 to 0.42 g H2-COD/g COD removed in the anode, and the bioanode volume-normalized H2 production rate was 0.07-0.1 L/L-d. The biotransformation of the five compounds took place via fermentation followed by exoelectrogenesis. The major identified fermentation products that did not transform further were catechol and phenol. Acetate was the direct substrate for exoelectrogenesis. Current and H2 production were inhibited at an initial substrate concentration of 1200 mg/L, resulting in acetate accumulation at a much higher level than that measured in other batch runs conducted with a lower initial concentration of the five compounds. The anode microbial community consisted of exoelectrogens, putative degraders of the five compounds, and syntrophic partners of exoelectrogens. The MEC H2 production demonstrated in this study is an alternative to the currently used process of reforming natural gas to supply H2 needed to upgrade bio-oils to stable hydrocarbon fuels.

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The Science of The Total Environment • 2020

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International Journal of Molecular Sciences • 2016

Microbial fuel cells (MFCs) are a promising green approach for wastewater treatment with the simultaneous advantage of energy production. Among the various limiting factors, the cathodic limitation, with respect to performance and cost, is one of the main obstacles to the practical applications of MFCs. Despite the high performance of platinum and other metal-based cathodes, their practical use is limited by their high cost, low stability, and environmental toxicity. Oxygen is the most favorable electron acceptor in the case of MFCs, which reduces to water through a complicated oxygen reduction reaction (ORR). Carbon-based ORR catalysts possessing high surface area and good electrical conductivity improve the ORR kinetics by lowering the cathodic overpotential. Recently, a range of carbon-based materials have attracted attention for their exceptional ORR catalytic activity and high stability. Doping the carbon texture with a heteroatom improved their ORR activity remarkably through the favorable adsorption of oxygen and weaker molecular bonding. This review provides better insight into ORR catalysis for MFCs and the properties, performance, and applicability of various metal-free carbon-based electrocatalysts in MFCs to find the most appropriate cathodic catalyst for the practical applications. The approaches for improvement, key challenges, and future opportunities in this field are also explored.

[object Object], [object Object], [object Object] et al.

Bioresource Technology • 2016

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Bioresource Technology • 2022

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Fuels • 2022

This mini review discusses the sustainability aspects of various fuels for proton exchange membrane fuel cells (PEMFCs). PEMFCs operate by converting the chemical energy in a fuel into electrical energy. The most crucial parameters in the operation process are the temperature, pressure, relative humidity, and air stoichiometry ratio, as presented in this work. The classical structure of a PEMFC consists of a proton exchange membrane, anode electrode, cathode electrode, catalyst layers (CLs), microporous layer (MPLs), gas diffusion layers (GDLs), two bipolar plates (BPs), and gas flow channels (GFCs). The mechanical behavior and the conductivity of the protons are highly dependent on the structure of the MEAs. This review discusses the various fuels and their production paths from sustainable sources. For the fuel production process to be renewable and sustainable, a hydrogen electrolyzer could be powered from solar energy, wind energy, geothermal energy, or hydroelectric energy, to produce hydrogen, which in turn could be fed into the fuel cell. This paper also reviews biomass-based routes for sustainable fuel production.

[object Object], [object Object], [object Object] et al.

Scientific Reports • 2015

The development of biofilms in drinking water (DW) systems may cause various problems to water quality. To investigate the community structure of biofilms on different pipe materials and the global/specific metabolic functions of DW biofilms, PCR-based 454 pyrosequencing data for 16S rRNA genes and Illumina metagenomic data were generated and analysed. Considerable differences in bacterial diversity and taxonomic structure were identified between biofilms formed on stainless steel and biofilms formed on plastics, indicating that the metallic materials facilitate the formation of higher diversity biofilms. Moreover, variations in several dominant genera were observed during biofilm formation. Based on PCA analysis, the global functions in the DW biofilms were similar to other DW metagenomes. Beyond the global functions, the occurrences and abundances of specific protective genes involved in the glutathione metabolism, the SoxRS system, the OxyR system, RpoS regulated genes, and the production/degradation of extracellular polymeric substances were also evaluated. A near-complete and low-contamination draft genome was constructed from the metagenome of the DW biofilm, based on the coverage and tetranucleotide frequencies, and identified as a Bradyrhizobiaceae-like bacterium according to a phylogenetic analysis. Our findings provide new insight into DW biofilms, especially in terms of their metabolic functions.

[object Object], [object Object], [object Object] et al.

Bioresource Technology • 2022

conversion are difficult to achieve. In this review, the fundamentals of cathodic biofilm formation, including energy conservation, electron transfer and development of catalytic biofilms, are presented. In addition, strategies for improving cathodic biofilm formation, such as the selection of electrode and carrier materials, cell design and operational conditions, are described. The knowledge gaps are individuated, and possible solutions are proposed to achieve stable and productive biofilms in MES cathodes.

[object Object], [object Object], [object Object] et al.

Chemosphere • 2016

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Physical Biology • 2021

Bacterial biofilms are communities of bacteria that exist as aggregates that can adhere to surfaces or be free-standing. This complex, social mode of cellular organization is fundamental to the physiology of microbes and often exhibits surprising behavior. Bacterial biofilms are more than the sum of their parts: single-cell behavior has a complex relation to collective community behavior, in a manner perhaps cognate to the complex relation between atomic physics and condensed matter physics. Biofilm microbiology is a relatively young field by biology standards, but it has already attracted intense attention from physicists. Sometimes, this attention takes the form of seeing biofilms as inspiration for new physics. In this roadmap, we highlight the work of those who have taken the opposite strategy: we highlight the work of physicists and physical scientists who use physics to engage fundamental concepts in bacterial biofilm microbiology, including adhesion, sensing, motility, signaling, memory, energy flow, community formation and cooperativity. These contributions are juxtaposed with microbiologists who have made recent important discoveries on bacterial biofilms using state-of-the-art physical methods. The contributions to this roadmap exemplify how well physics and biology can be combined to achieve a new synthesis, rather than just a division of labor.

[object Object], [object Object], [object Object] et al.

Bioengineered • 2022

Increasing population, industrialization, and economic growth cause several adverse impacts on the existing environment and living being. Therefore, rising pollutants load and their mitigation strategies, as well as achieving energy requirements while reducing reliance on fossil fuels are the key areas, which needs significant consideration for sustainable environment. Since India has considerable biomass resources, bioenergy is a significant part of the country's energy policy. However, the selection of feedstock is a crucial step in bioenergy production that could produce raw material without compromising food reserve along with the sustainable environment. Higher growth capacity of bamboo species makes them a suitable lignocellulosic substrate for the production of high-value greener products such as fuels, chemicals, and biomaterials as well as an appropriate candidate for eco-restoration of degraded land. In that context, the current review discusses the multidimensional applications of bamboo species in India. The bioenergy potency of bamboo and probability of aligning its production, cultivation, and operation with economic and social development agendas are also addressed, making it an exceptional crop in India. Additionally, its fast growth, perennial root systems, and capability to restore degraded land make it an essential part of ecological restoration. Furthermore, this review explores additional benefits of bamboo plantation on the environment, economy, and society along with future research prospects.

[object Object], [object Object], [object Object] et al.

Biomass and Bioenergy • 2021

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Journal of Environmental Management • 2020

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Frontiers in Microbiology • 2015

Salinity is a major driver of bacterial community composition across the globe. Despite growing recognition that different bacterial species are present or active at different salinities, the mechanisms by which salinity structures community composition remain unclear. We tested the hypothesis that these patterns reflect ecological coherence in the salinity preferences of phylogenetic groups using a reciprocal transplant experiment of fresh- and saltwater wetland soils. The salinity of both the origin and host environments affected community composition (16S rRNA gene sequences) and activity (CO2 and CH4 production, and extracellular enzyme activity). These changes in community composition and activity rates were strongly correlated, which suggests the effect of environment on function could be mediated, at least in part, by microbial community composition. Based on their distribution across treatments, each phylotype was categorized as having a salinity preference (freshwater, saltwater, or none) and phylogenetic analyses revealed a significant influence of evolutionary history on these groupings. This finding was corroborated by examining the salinity preferences of high-level taxonomic groups. For instance, we found that the majority of α- and γ-proteobacteria in these wetland soils preferred saltwater, while many β-proteobacteria prefer freshwater. Overall, our results indicate the effect of salinity on bacterial community composition results from phylogenetically-clustered salinity preferences.

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Frontiers in Microbiology • 2018

species.

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Chemosphere • 2017

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Metabolic Engineering • 2017

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Chemical Engineering Journal • 2015

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Synthetic and Systems Biotechnology • 2020

Electroactive bacteria could perform bi-directional extracellular electron transfer (EET) to exchange electrons and energy with extracellular environments, thus playing a central role in microbial electro-fermentation (EF) process. Unbalanced fermentation and microbial electrosynthesis are the main pathways to produce value-added chemicals and biofuels. However, the low efficiency of the bi-directional EET is a dominating bottleneck in these processes. In this review, we firstly demonstrate the main bi-directional EET mechanisms during EF, including the direct EET and the shuttle-mediated EET. Then, we review representative milestones and progresses in unbalanced fermentation via anode outward EET and microbial electrosynthesis via inward EET based on these two EET mechanisms in detail. Furthermore, we summarize the main synthetic biology strategies in improving the bi-directional EET and target products synthesis, thus to enhance the efficiencies in unbalanced fermentation and microbial electrosynthesis. Lastly, a perspective on the applications of microbial electro-fermentation is provided.

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Bioresource Technology • 2017

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Biotechnology Advances • 2021

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Journal of Nanobiotechnology • 2021

Synthesis of inorganic nanomaterials such as metal nanoparticles (MNPs) using various biological entities as smart nanofactories has emerged as one of the foremost scientific endeavors in recent years. The biosynthesis process is environmentally friendly, cost-effective and easy to be scaled up, and can also bring neat features to products such as high dispersity and biocompatibility. However, the biomanufacturing of inorganic nanomaterials is still at the trial-and-error stage due to the lack of understanding for underlying mechanism. Dissimilatory metal reduction bacteria, especially Shewanella and Geobacter species, possess peculiar extracellular electron transfer (EET) features, through which the bacteria can pump electrons out of their cells to drive extracellular reduction reactions, and have thus exhibited distinct advantages in controllable and tailorable fabrication of inorganic nanomaterials including MNPs and graphene. Our aim is to present a critical review of recent state-of-the-art advances in inorganic biosynthesis methodologies based on bacterial EET using Shewanella and Geobacter species as typical strains. We begin with a brief introduction about bacterial EET mechanism, followed by reviewing key examples from literatures that exemplify the powerful activities of EET-enabled biosynthesis routes towards the production of a series of inorganic nanomaterials and place a special emphasis on rationally tailoring the structures and properties of products through the fine control of EET pathways. The application prospects of biogenic nanomaterials are then highlighted in multiple fields of (bio-) energy conversion, remediation of organic pollutants and toxic metals, and biomedicine. A summary and outlook are given with discussion on challenges of bio-manufacturing with well-defined controllability.

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Applied and Environmental Microbiology • 2024

in such environments with the potential application of their metabolisms in biotechnological approaches.

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Environmental Science & Technology • 2016

Volatile fatty acid (VFA) concentration is known as an important indicator to control and optimize anaerobic digestion (AD) process. In this study, an innovative VFA biosensor was developed based on the principle of a microbial desalination cell. The correlation between current densities and VFA concentrations was first evaluated with synthetic digestate. Two linear relationships were observed between current densities and VFA levels from 1 to 30 mM (0.04 to 8.50 mA/m(2), R(2) = 0.97) and then from 30 to 200 mM (8.50 to 10.80 mA/m(2), R(2) = 0.95). The detection range was much broader than that of other existing VFA biosensors. The biosensor had no response to protein and lipid which are frequently found along with VFAs in organic waste streams from AD, suggesting the selective detection of VFAs. The current displayed different responses to VFA levels when different ionic strengths and external resistances were applied, though linear relationships were always observed. Finally, the biosensor was further explored with real AD effluents and the results did not show significance differences with those measured by GC. The simple and efficient biosensor showed promising potential for online, inexpensive, and reliable measurement of VFA levels during AD and other anaerobic processes.

[object Object], [object Object], [object Object] et al.

Scientific Reports • 2015

In contemporary society we observe an everlasting permeation of electron devices, smartphones, portable computing tools. The tiniest living organisms on Earth could become the key to address this challenge: energy generation by bacterial processes from renewable stocks/waste through devices such as microbial fuel cells (MFCs). However, the application of this solution was limited by a moderately low efficiency. We explored the limits, if any, of additive manufacturing (AM) technology to fabricate a fully AM-based powering device, exploiting low density, open porosities able to host the microbes, systems easy to fuel continuously and to run safely. We obtained an optimal energy recovery close to 3 kWh m(-3) per day that can power sensors and low-power appliances, allowing data processing and transmission from remote/harsh environments.

[object Object], [object Object], [object Object] et al.

Frontiers in Microbiology • 2015

Little is known about the importance and/or mechanisms of biological mineral oxidation in sediments, partially due to the difficulties associated with culturing mineral-oxidizing microbes. We demonstrate that electrochemical enrichment is a feasible approach for isolation of microbes capable of gaining electrons from insoluble minerals. To this end we constructed sediment microcosms and incubated electrodes at various controlled redox potentials. Negative current production was observed in incubations and increased as redox potential decreased (tested -50 to -400 mV vs. Ag/AgCl). Electrode-associated biomass responded to the addition of nitrate and ferric iron as terminal electron acceptors in secondary sediment-free enrichments. Elemental sulfur, elemental iron and amorphous iron sulfide enrichments derived from electrode biomass demonstrated products indicative of sulfur or iron oxidation. The microbes isolated from these enrichments belong to the genera Halomonas, Idiomarina, Marinobacter, and Pseudomonas of the Gammaproteobacteria, and Thalassospira and Thioclava from the Alphaproteobacteria. Chronoamperometry data demonstrates sustained electrode oxidation from these isolates in the absence of alternate electron sources. Cyclic voltammetry demonstrated the variability in dominant electron transfer modes or interactions with electrodes (i.e., biofilm, planktonic or mediator facilitated) and the wide range of midpoint potentials observed for each microbe (from 8 to -295 mV vs. Ag/AgCl). The diversity of extracellular electron transfer mechanisms observed in one sediment and one redox condition, illustrates the potential importance and abundance of these interactions. This approach has promise for increasing our understanding the extent and diversity of microbe mineral interactions, as well as increasing the repository of microbes available for electrochemical applications.

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Bioresource Technology • 2019

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Bioresource Technology • 2018

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Environmental Chemistry Letters • 2024

Abstract The circular economy requires advanced methods to recycle waste matter such as ammonia, which can be further used as a fuel and a precursor of numerous value-added chemicals. Here, we review methods for the recovery of ammonia from wastewater with emphasis on biological and physicochemical techniques, and their applications. Biological techniques involve nitrification, denitrification, and anammox processes and the use of membrane bioreactors. Physicochemical techniques comprise adsorption, membrane filtration, ion exchange, chemical precipitation, ammonia stripping, electrochemical oxidation, photocatalytic oxidation, bioelectrochemical systems, and membrane hybrid systems. We found that nitrification and anammox processes in membrane bioreactors stand out for their cost-effectiveness, reduced sludge production, and energy efficiency. The use of struvite precipitation is an efficient, environmentally friendly, and recyclable method for ammonia removal. Membrane hybrid systems are promising for ammonia recovery, nutrient concentration, and wastewater treatment, with applications in fertilizer production and water purification. Overall, nitrogen removal ranges from 28 to 100%, and nitrogen recovery ranges from 9 to 100%.