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1.
Biotechnol Bioeng ; 121(3): 980-990, 2024 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-38088435

RESUMEN

Bacteria capable of direct ammonia oxidation (Dirammox) play important roles in global nitrogen cycling and nutrient removal from wastewater. Dirammox process, NH3 → NH2 OH → N2 , first defined in Alcaligenes ammonioxydans HO-1 and encoded by dnf gene cluster, has been found to widely exist in aquatic environments. However, because of multidrug resistance in Alcaligenes species, the key genes involved in the Dirammox pathway and the interaction between Dirammox process and the physiological state of Alcaligenes species remain unclear. In this work, ammonia removal via the redistribution of nitrogen between Dirammox and microbial growth in A. ammonioxydans HO-1, a model organism of Alcaligenes species, was investigated. The dnfA, dnfB, dnfC, and dnfR genes were found to play important roles in the Dirammox process in A. ammonioxydans HO-1, while dnfH, dnfG, and dnfD were not essential genes. Furthermore, an unexpected redistribution phenomenon for nitrogen between Dirammox and cell growth for ammonia removal in HO-1 was revealed. After the disruption of the Dirammox in HO-1, more consumed NH4 + was recovered as biomass-N via rapid metabolic response and upregulated expression of genes associated with ammonia transport and assimilation, tricarboxylic acid cycle, sulfur metabolism, ribosome synthesis, and other molecular functions. These findings deepen our understanding of the molecular mechanisms for Dirammox process in the genus Alcaligenes and provide useful information about the application of Alcaligenes species for ammonia-rich wastewater treatment.


Asunto(s)
Compuestos de Amonio , Compuestos de Amonio/metabolismo , Alcaligenes/genética , Alcaligenes/metabolismo , Amoníaco/toxicidad , Amoníaco/metabolismo , Aguas Residuales , Nitrógeno/metabolismo , Desnitrificación , Oxidación-Reducción , Reactores Biológicos
2.
Environ Sci Technol ; 58(22): 9636-9645, 2024 Jun 04.
Artículo en Inglés | MEDLINE | ID: mdl-38770702

RESUMEN

Dissemination of antibiotic resistance genes (ARGs) in urban water bodies has become a significant environmental and health concern. Many approaches based on real-time quantitative PCR (qPCR) have been developed to offer rapid and highly specific detection of ARGs in water environments, but the complicated and time-consuming procedures have hindered their widespread use. Herein, we developed a facile one-step approach for rapid detection of ARGs by leveraging the trans-cleavage activity of Cas12a and recombinase polymerase amplification (RPA). This efficient method matches the sensitivity and specificity of qPCR and requires no complex equipment. The results show a strong correlation between the prevalence of four ARG markers (ARGs: sul1, qnrA-1, mcr-1, and class 1 integrons: intl1) in tap water, human urine, farm wastewater, hospital wastewater, municipal wastewater treatment plants (WWTPs), and proximate natural aquatic ecosystems, indicating the circulation of ARGs within the urban water cycle. Through monitoring the ARG markers in 18 WWTPs in 9 cities across China during both peak and declining stages of the COVID epidemic, we found an increased detection frequency of mcr-1 and qnrA-1 in wastewater during peak periods. The ARG detection method developed in this work may offer a useful tool for promoting a sustainable urban water cycle.


Asunto(s)
Farmacorresistencia Microbiana , Farmacorresistencia Microbiana/genética , Aguas Residuales , Humanos , Monitoreo del Ambiente/métodos , Ciudades , China , COVID-19
3.
Nucleic Acids Res ; 50(13): 7739-7750, 2022 07 22.
Artículo en Inglés | MEDLINE | ID: mdl-35776123

RESUMEN

Genomic integration techniques offer opportunities for generation of engineered microorganisms with improved or even entirely new functions but are currently limited by inability for efficient insertion of long genetic payloads due to multiplexing. Herein, using Shewanella oneidensis MR-1 as a model, we developed an optimized CRISPR-associated transposase from cyanobacteria Scytonema hofmanni (ShCAST system), which enables programmable, RNA-guided transposition of ultra-long DNA sequences (30 kb) onto bacterial chromosomes at ∼100% efficiency in a single orientation. In this system, a crRNA (CRISPR RNA) was used to target multicopy loci like insertion-sequence elements or combining I-SceI endonuclease, thereby allowing efficient single-step multiplexed or iterative DNA insertions. The engineered strain exhibited drastically improved substrate diversity and extracellular electron transfer ability, verifying the success of this system. Our work greatly expands the application range and flexibility of genetic engineering techniques and may be readily extended to other bacteria for better controlling various microbial processes.


Asunto(s)
Repeticiones Palindrómicas Cortas Agrupadas y Regularmente Espaciadas , Integrasas , Secuencia de Bases , Sistemas CRISPR-Cas/genética , Genómica , Integrasas/metabolismo , ARN
4.
J Environ Manage ; 352: 120022, 2024 Feb 14.
Artículo en Inglés | MEDLINE | ID: mdl-38198836

RESUMEN

Organic contaminated sites have gained significant attention as a prominent contributor to shallow groundwater contamination. However, limited knowledge exists regarding the impact of hydrodynamic effects on microbially mediated contaminant degradation at such sites. In this study, we investigated the distribution characteristics and community structure of prokaryotic microorganisms at the selected site during both wet and dry seasons, with a particular focus on their environmental adaptations. The results revealed significant seasonal variations (P < 0.05) in the α-diversity of prokaryotes within groundwater. The dry season showed more exclusive OTUs than the wet season. The response of prokaryotic metabolism to organic pollution pressure in different seasons was explored by PICRUSt2, and enzymes associated with the degradation of organic pollutants were identified based on the predicted functions. The results showed that hormesis was considered as an adaptive response of microbial communities under pollution stress. In addition, structural equation models demonstrated that groundwater level fluctuations can, directly and indirectly, affect the abundance and diversity of prokaryotes through other factors such as oxidation reduction potential (ORP), dissolved oxygen (DO), and naphthalene (Nap). Overall, our findings imply that the taxonomic composition and functional properties of prokaryotes in groundwater in organic contaminated sites is influenced by the interaction between seasonal variations and characteristics of organic pollution. The results provide new insights into microbiological processes in groundwater systems in organic contaminated sites.


Asunto(s)
Agua Subterránea , Microbiota , Agua Subterránea/química , Contaminación Ambiental/análisis
5.
Biotechnol Bioeng ; 120(10): 3001-3012, 2023 10.
Artículo en Inglés | MEDLINE | ID: mdl-37209207

RESUMEN

Geobacter species, exhibiting exceptional extracellular electron transfer aptitude, hold great potential for applications in pollution remediation, bioenergy production, and natural elemental cycles. Nonetheless, a scarcity of well-characterized genetic elements and gene expression tools constrains the effective and precise fine-tuning of gene expression in Geobacter species, thereby limiting their applications. Here, we examined a suite of genetic elements and developed a new genetic editing tool in Geobacter sulfurreducens to enhance their pollutant conversion capacity. First, the performances of the widely used inducible promoters, constitutive promoters, and ribosomal binding sites (RBSs) elements in G. sulfurreducens were quantitatively evaluated. Also, six native promoters with superior expression levels than constitutive promoters were identified on the genome of G. sulfurreducens. Employing the characterized genetic elements, the clustered regularly interspaced short palindromic repeats interference (CRISPRi) system was constructed in G. sulfurreducens to achieve the repression of an essential gene-aroK and morphogenic genes-ftsZ and mreB. Finally, applying the engineered strain to the reduction of tungsten trioxide (WO3 ), methyl orange (MO), and Cr(VI), We found that morphological elongation through ftsZ repression amplified the extracellular electron transfer proficiency of G. sulfurreducens and facilitated its contaminant transformation efficiency. These new systems provide rapid, versatile, and scalable tools poised to expedite advancements in Geobacter genomic engineering to favor environmental and other biotechnological applications.


Asunto(s)
Contaminantes Ambientales , Geobacter , Geobacter/genética , Contaminantes Ambientales/metabolismo , Transporte de Electrón , Expresión Génica , Oxidación-Reducción
6.
Arch Microbiol ; 205(3): 98, 2023 Feb 28.
Artículo en Inglés | MEDLINE | ID: mdl-36853446

RESUMEN

Ophiocordyceps sinensis Berk. is a fungal parasite that parasitizes the larvae of Hepialidae and is endemic to the Qinghai-Tibet Plateau (QTP). The phylogeny and divergence time of O. sinensis and its host insects were analyzed for 137 individuals from 48 O. sinensis populations based on the elongation factor 1 alpha (EF-1α) gene. Lower nucleotide variation, with only 7 and 16 EF-1α haplotypes, was detected in O. sinensis and its host insects, respectively. The isolated and broad distribution patterns coexisted in both O. sinensis and its host insects on the QTP. The divergence time estimates show that O. sinensis and its host insects originated later than 14.33 million years (Myr) and earlier than 23.60 Myr in the Miocene period, and the major differentiation occurred later than 4 Myr. Their origin and differentiation match well with the second and third uplifts of the QTP, respectively. The host insects from the O. sinensis populations distributed around Qinghai Lake are inferred as an ancient and relict species that has survived various geological events of the QTP. It is suitable to estimate the divergence times of both O. sinensis and its host insects from the same individuals using one gene: EF-1α. Our findings of the origin, phylogeny, and evolution of the endemic species also support the epoch of geological events on the QTP.


Asunto(s)
Cordyceps , Insectos , Factor 1 de Elongación Peptídica , Animales , Cordyceps/genética , Insectos/microbiología , Larva , Factor 1 de Elongación Peptídica/genética , Filogenia
7.
Environ Sci Technol ; 57(17): 6876-6887, 2023 05 02.
Artículo en Inglés | MEDLINE | ID: mdl-37083356

RESUMEN

Plastics-microorganism interactions have aroused growing environmental and ecological concerns. However, previous studies concentrated mainly on the direct interactions and paid little attention to the ecotoxicology effects of phthalates (PAEs), a common plastic additive that is continuously released and accumulates in the environment. Here, we provide insights into the impacts of PAEs on the dissemination of antibiotic resistance genes (ARGs) among environmental microorganisms. Dimethyl phthalate (DMP, a model PAE) at environmentally relevant concentrations (2-50 µg/L) significantly boosted the plasmid-mediated conjugation transfer of ARGs among intrageneric, intergeneric, and wastewater microbiota by up to 3.82, 4.96, and 4.77 times, respectively. The experimental and molecular dynamics simulation results unveil a strong interaction between the DMP molecules and phosphatidylcholine bilayer of the cell membrane, which lowers the membrane lipid fluidity and increases the membrane permeability to favor transfer of ARGs. In addition, the increased reactive oxygen species generation and conjugation-associated gene overexpression under DMP stress also contribute to the increased gene transfer. This study provides fundamental knowledge of the PAE-bacteria interactions to broaden our understanding of the environmental and ecological risks of plastics, especially in niches with colonized microbes, and to guide the control of ARG environmental spreading.


Asunto(s)
Antibacterianos , Bacterias , Antibacterianos/farmacología , Farmacorresistencia Microbiana/genética , Bacterias/genética , Genes Bacterianos , Plásticos , Transferencia de Gen Horizontal
8.
Environ Microbiol ; 24(4): 1838-1848, 2022 04.
Artículo en Inglés | MEDLINE | ID: mdl-35170205

RESUMEN

Exoelectrogenic bacteria (EEB) are capable of anaerobic respiration with diverse extracellular electron acceptors including insoluble minerals, electrodes and flavins, but the detailed electron transfer pathways and reaction mechanisms remain elusive. Here, we discover that CymA, which is usually considered to solely serve as an inner-membrane electron transfer hub in Shewanella oneidensis MR-1 (a model EEB), might also function as a reductase for direct reducing diverse nitroaromatic compounds (e.g. 2,4-dichloronitrobenzene) and azo dyes. Such a process can be accelerated by dosing anthraquinone-2,6-disulfonate. The CymA-based reduction pathways in S. oneidensis MR-1 for different contaminants could be functionally reconstructed and strengthened in Escherichia coli. The direct reduction of lowly polar contaminants by quinol oxidases like CymA homologues might be universal in diverse microbes. This work offers new insights into the pollutant reduction mechanisms of EEB and unveils a new function of CymA to act as a terminal reductase.


Asunto(s)
Contaminantes Ambientales , Shewanella , Transporte de Electrón , Electrones , Contaminantes Ambientales/metabolismo , Escherichia coli/genética , Escherichia coli/metabolismo , Oxidación-Reducción , Oxidorreductasas/genética , Oxidorreductasas/metabolismo , Shewanella/metabolismo
9.
J Org Chem ; 87(5): 3834-3840, 2022 Mar 04.
Artículo en Inglés | MEDLINE | ID: mdl-35168320

RESUMEN

A practical copper-catalyzed nitration of electron-rich arenes with trimethylsilyl chloride and guanidine nitrate is reported. A variety of nitrated products were generated in moderate to excellent yields (32-99%) at ambient temperature under acid-free, open-flask, and operationally simple conditions.

10.
Nanotechnology ; 33(25)2022 Apr 01.
Artículo en Inglés | MEDLINE | ID: mdl-35299168

RESUMEN

Stretchable strain sensor, an important paradigm of wearable sensor which can be attached onto clothing or even human skin, is widely used in healthcare, human motion monitoring and human-machine interaction. Pattern-available and facile manufacturing process for strain sensor is pursued all the time. A carbon nanotube (CNT)/silver nanowire (AgNW)-based stretchable strain sensor fabricated by a facile process is reported here. The strain sensor exhibits a considerable Gauge factor of 6.7, long-term durability (>1000 stretching cycles), fast response and recovery (420 ms and 600 ms, respectively), hence the sensor can fulfill the measurement of finger movement. Accordingly, a smart glove comprising a sensor array and a flexible printed circuit board is assembled to detect the bending movement of five fingers simultaneously. Moreover, the glove is wireless and basically fully flexible, it can detect the finger bending of wearer and display the responses distinctly on an APP of a smart phone or a host computer. Our strain senor and smart glove will broaden the materials and applications of wearable sensors.


Asunto(s)
Nanotubos de Carbono , Nanocables , Dispositivos Electrónicos Vestibles , Humanos , Movimiento , Plata
11.
Environ Sci Technol ; 56(17): 12247-12256, 2022 09 06.
Artículo en Inglés | MEDLINE | ID: mdl-35960254

RESUMEN

Geobacter species are critically involved in elemental biogeochemical cycling and environmental bioremediation processes via extracellular electron transfer (EET), but the underlying biomolecular mechanisms remain elusive due to lack of effective analytical tools to explore into complicated EET networks. Here, a simple and highly efficient cytosine base editor was developed for engineering of the slow-growing Geobacter sulfurreducens (a doubling time of 5 h with acetate as the electron donor and fumarate as the electron acceptor). A single-plasmid cytosine base editor (pYYDT-BE) was constructed in G. sulfurreducens by fusing cytosine deaminase, Cas9 nickase, and a uracil glycosylase inhibitor. This system enabled single-locus editing at 100% efficiency and showed obvious preference at the cytosines in a TC, AC, or CC context than in a GC context. Gene inactivation tests confirmed that it could effectively edit 87.7-93.4% genes of the entire genome in nine model Geobacter species. With the aid of this base editor to construct a series of G. sulfurreducens mutants, we unveiled important roles of both pili and outer membrane c-type cytochromes in long-range EET, thereby providing important evidence to clarify the long-term controversy surrounding their specific roles. Furthermore, we find that pili were also involved in the extracellular reduction of uranium and clarified the key roles of the ExtHIJKL conduit complex and outer membrane c-type cytochromes in the selenite reduction process. This work developed an effective base editor tool for the genetic modification of Geobacter species and provided new insights into the EET network, which lay a basis for a better understanding and engineering of these microbes to favor environmental applications.


Asunto(s)
Contaminantes Ambientales , Geobacter , Citocromos/metabolismo , Citosina/metabolismo , Transporte de Electrón , Contaminantes Ambientales/metabolismo , Compuestos Férricos/metabolismo , Geobacter/metabolismo , Oxidación-Reducción
12.
Ecotoxicol Environ Saf ; 241: 113820, 2022 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-36068748

RESUMEN

Understanding the fate and transport of polystyrene nanoparticles (PSNPs) in porous media under various conditions is necessary for evaluating and predicting environmental risks caused by microplastics. The transport kinetics of PSNPs are investigated by column experiment and numerical model. The surface of DLVO interaction energy is calculated to analyze and predict the adsorption and aggregation of PSNPs in porous media, which the critical ionic strength of PSNPs can be accurately investigated. The results of the DLVO energy surface suggest that when the concentration of Na+ increases from 1 mM to 50 mM, the DLVO energy barrier of PSNPs-silica sand (SS) decreases from 78.37 kT to 5.46 kT. As a result, PSNPs are easily adsorbed on the surface of SS and the mobility of PSNPs is reduced under the condition of a high concentration of Na+ (PSNPs recovery rate decreases from 62.16% to 3.65%). When the concentration of Ca2+ increases from 0.1 mM to 5 mM, the DLVO energy barrier of PSNPs-SS decreases from 12.10 kT to 1.90 kT, and PSNPs recovery rate decreases from 82.46% to 4.27%. Experimental and model results showed that PSNPs mobility is enhanced by increasing initial concentration, flow velocity and grain size of SS, while the mobility of PSNPs with larger particle diameter is lower. Regression analysis suggests that kinetic parameters related to PSNPs mobility are correlated with DLVO energy barriers. The environmental behavior and mechanism of PSNPs transport in porous media are further investigated in this study, which provides a scientific basis for the systematic and comprehensive evaluation of the environmental risk and ecological safety of nano-plastic particles in the groundwater system.


Asunto(s)
Microplásticos , Poliestirenos , Cinética , Concentración Osmolar , Plásticos , Porosidad , Arena , Dióxido de Silicio
13.
Biotechnol Bioeng ; 118(12): 4760-4770, 2021 12.
Artículo en Inglés | MEDLINE | ID: mdl-34546573

RESUMEN

Members of the genus Aeromonas prevail in aquatic habitats and have a great potential in biological wastewater treatment because of their unique extracellular electron transfer (EET) capabilities. However, the mediated EET mechanisms of Aeromonas have not been fully understood yet, hindering their applications in biological wastewater treatment processes. In this study, the electron shuttles in Aeromonas hydrophila, a model and widespread strain in aquatic environments and wastewater treatment plants, were explored. A. hydrophila was found to produce both flavins and 2-amino-3-carboxy-1,4-naphthoquinone (ACNQ) as electron shuttles and utilize them to accelerate its EET for the bioreduction of various pollutants. The Mtr-like respiratory pathway was essential for the reduction of flavins, but not involved in the ACNQ reduction. The electron shuttle activity of ACNQ for pollutant bioreduction involved the redox reactions that occurred inside the cell. These findings deepen our understanding about the underlying EET mechanisms in dissimilatory metal reducing bacteria and provide new insights into the roles of the genus Aeromonas in biological wastewater treatment.


Asunto(s)
Aeromonas hydrophila , Biodegradación Ambiental , Electrones , Contaminantes Químicos del Agua , Aeromonas hydrophila/química , Aeromonas hydrophila/metabolismo , Flavinas/metabolismo , Naftoquinonas/metabolismo , Contaminantes Químicos del Agua/química , Contaminantes Químicos del Agua/metabolismo , Purificación del Agua
14.
Med Sci Monit ; 27: e931842, 2021 Nov 02.
Artículo en Inglés | MEDLINE | ID: mdl-34725316

RESUMEN

BACKGROUND Extracorporeal membrane oxygenation (ECMO) plays an important role in thoracic surgery. This retrospective study from a single center aimed to evaluate patient outcomes from the use of perioperative ECMO in 22 patients undergoing thoracic surgery during an 8-year period. MATERIAL AND METHODS Data were collected retrospectively from 22 patients who received ECMO (veno-arterial and veno-venous ECMO) as perioperative treatment during general thoracic surgery from January 2012 to October 2020. Patients required ECMO due to perioperative cardiopulmonary resuscitation (CPR) (2 cases), perioperative pulmonary embolism (PE) (2 cases), lung transplant (4 cases), undergoing complicated thoracic surgery (5 cases), postoperative acute respiratory distress syndrome (ARDS) (6 cases), and thoracic trauma (3 cases). RESULTS Veno-arterial ECMO was used for circulatory support in 13 cases and veno-venous ECMO was used for respiratory support in 9 cases. The average ECMO support time was 71.6±42.4 h. Twenty patients (90.9%) were successfully decannulated and 17 (77.2%) survived to discharge. Complications included severe hemorrhage (3/22 patients, 13.6%), sepsis (3/22, 13.6%), and destruction of blood cells (1/22, 4.5%). There were no significant differences in survival rates between patients receiving pre- or postoperative ECMO (P=0.135) or between veno-venous ECMO (V-V ECMO) and veno-arterial ECMO (V-A ECMO) (P=0.550). CONCLUSIONS The findings from this small retrospective study from a single center showed that perioperative ECMO improved cardiac and respiratory function in patients undergoing thoracic surgery. Optimal results require surgeons to have an understanding of the indications and ability to control the complications of ECMO.


Asunto(s)
Oxigenación por Membrana Extracorpórea/métodos , Atención Perioperativa/métodos , Procedimientos Quirúrgicos Torácicos/métodos , Adulto , Anciano , Oxigenación por Membrana Extracorpórea/estadística & datos numéricos , Femenino , Humanos , Masculino , Persona de Mediana Edad , Estudios Retrospectivos , Tasa de Supervivencia , Tiempo
15.
Ecotoxicol Environ Saf ; 228: 113005, 2021 Nov 26.
Artículo en Inglés | MEDLINE | ID: mdl-34839141

RESUMEN

Column experiments were conducted to investigate the effects of ion type, ion strength, humic acid (HA), and nanometer alumina (NA) particles on the transport of hexavalent chromium (HC) in saturated porous media. A one-dimensional model is developed to simulate the migration of HC affected by NA particles. The results show that nano-alumina particles would enhance the mobility of HC in saturated porous media. However, the influence of NA on the migration of HC in porous media is complex. When the concentration of NA reaches 30 mg/L, HC has minimum retention parameter and best mobility. The transport of HC also is affected by ion strength and ion type. Higher ionic strength would decrease the retention of HC and enhance its mobility. Compared with sodium ion, calcium ion has larger effects on the transport of HC. Moreover, HA can improve the mobility of HC in saturated porous media, but the corresponding promoting effect decreases with the increase of HA concentration. As nanometer contaminants and HC come into the subsurface environment, findings from this study elucidate the key factors and processes controlling the transport of HC in porous media, which can promote the prediction and assessment of HC in the groundwater system.

16.
Heart Surg Forum ; 24(1): E019-E021, 2021 01 14.
Artículo en Inglés | MEDLINE | ID: mdl-33635242

RESUMEN

Pneumonia caused by coronavirus disease 2019 (COVID-19) is a highly contagious disease. Unfortunately, research on extracorporeal membrane oxygenation (ECMO) assisted treatments for patients with COVID-19 infection is limited. In this case study, a patient who was in late pregnancy (35+2 weeks of pregnancy) and suffering from severe COVID-19 was extremely irritable during ECMO-assisted treatment after she underwent a cesarean section. Her Richmond Agitation Sedation Scale (RASS) score reached +3. Nevertheless, the patient successfully was treated with a continuous single/combined application of propofol, midazolam, dexmedetomidine, hibernation mixture, and other drugs for several days (maintaining RASS -2 to -4) and provided with anti-infection, mechanical ventilation, nutritional support, fluid balance under hemodynamic monitoring, liver support, and other organ function support treatments. ECMO-assisted sedation strategy for patients was introduced and discussed in this case to provide a certain reference for the clinical diagnosis and treatment of such patients.


Asunto(s)
COVID-19/terapia , Cesárea , Dexmedetomidina/administración & dosificación , Oxigenación por Membrana Extracorpórea , Hipnóticos y Sedantes/administración & dosificación , Midazolam/administración & dosificación , Propofol/administración & dosificación , Terapia Combinada , Femenino , Fluidoterapia , Humanos , Monitoreo Fisiológico , Apoyo Nutricional , Embarazo , Respiración Artificial , SARS-CoV-2
17.
Biotechnol Bioeng ; 117(8): 2389-2400, 2020 08.
Artículo en Inglés | MEDLINE | ID: mdl-32356906

RESUMEN

Shewanella oneidensis MR-1, a model strain of exoelectrogenic bacteria (EEB), plays a key role in environmental bioremediation and bioelectrochemical systems because of its unique respiration capacity. However, only a narrow range of substrates can be utilized by S. oneidensis MR-1 as carbon sources, resulting in its limited applications. In this study, a rapid, highly efficient, and easily manipulated base-editing system pCBEso was developed by fusing a Cas9 nickase (Cas9n (D10A)) with the cytidine deaminase rAPOBEC1 in S. oneidensis MR-1. The C-to-T conversion of suitable C within the base-editing window could be readily and efficiently achieved by the pCBEso system without requiring double-strand break or repair templates. Moreover, double-locus simultaneous editing was successfully accomplished with an efficiency of 87.5%. With this tool, the key genes involving in N-acetylglucosamine (GlcNAc) or glucose metabolism in S. oneidensis MR-1 were identified. Furthermore, an engineered strain with expanded carbon source utilization spectra was constructed and exhibited a higher degradation rate for multiple organic pollutants (i.e., azo dyes and organoarsenic compounds) than the wild-type when glucose or GlcNAc was used as the sole carbon source. Such a base-editing system could be readily applied to other EEB. This study not only enhances the substrate utilization and pollutant degradation capacities of S. oneidensis MR-1 but also accelerates the robust construction of engineered strains for environmental bioremediation.


Asunto(s)
Biodegradación Ambiental , Carbono/metabolismo , Contaminantes Ambientales/metabolismo , Edición Génica/métodos , Shewanella , Acetilglucosamina/metabolismo , Sistemas CRISPR-Cas , Shewanella/genética , Shewanella/metabolismo
18.
Biotechnol Bioeng ; 117(5): 1294-1303, 2020 05.
Artículo en Inglés | MEDLINE | ID: mdl-32048726

RESUMEN

The bioreduction capacity of Cr(VI) by Shewanella is mainly governed by its bidirectional extracellular electron transfer (EET). However, the low bidirectional EET efficiency restricts its wider applications in remediation of the environments contaminated by Cr(VI). Cyclic adenosine 3',5'-monophosphate (cAMP) commonly exists in Shewanella strains and cAMP-cyclic adenosine 3',5'-monophosphate receptor protein (CRP) system regulates multiple bidirectional EET-related pathways. This inspires us to strengthen the bidirectional EET through elevating the intracellular cAMP level in Shewanella strains. In this study, an exogenous gene encoding adenylate cyclase from the soil bacterium Beggiatoa sp. PS is functionally expressed in Shewanella oneidensis MR-1 (the strain MR-1/pbPAC) and a MR-1 mutant lacking all endogenous adenylate cyclase encoding genes (the strain Δca/pbPAC). The engineered strains exhibit the enhanced bidirectional EET capacities in microbial electrochemical systems compared with their counterparts. Meanwhile, a three times more rapid reduction rate of Cr(VI) is achieved by the strain MR-1/pbPAC than the control in batch experiments. Furthermore, a higher Cr(VI) reduction efficiency is also achieved by the strain MR-1/pbPAC in the Cr(VI)-reducing biocathode experiments. Such a bidirectional enhancement is attributed to the improved production of cAMP-CRP complex, which upregulates the expression levels of the genes encoding the c-type cytochromes and flavins synthetic pathways. Specially, this strategy could be used as a broad-spectrum approach for the other Shewanella strains. Our results demonstrate that elevating the intracellular cAMP levels could be an efficient strategy to enhance the bidirectional EET of Shewanella strains and improve their pollutant transformation capacity.


Asunto(s)
Cromo , AMP Cíclico , Shewanella , Adenilil Ciclasas/genética , Adenilil Ciclasas/metabolismo , Proteínas Bacterianas/genética , Proteínas Bacterianas/metabolismo , Beggiatoa/enzimología , Beggiatoa/genética , Cromo/análisis , Cromo/metabolismo , AMP Cíclico/análisis , AMP Cíclico/metabolismo , Transporte de Electrón , Ingeniería Metabólica , Oxidación-Reducción , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Shewanella/citología , Shewanella/genética , Shewanella/metabolismo
19.
Arch Microbiol ; 202(8): 2323-2328, 2020 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-32488561

RESUMEN

Nucleosides are active components in Ophiocordyceps sinensis. All individual nucleoside contents in both fruiting and caterpillar bodies were significantly different among the 24 O. sinensis populations that are distributed across the Qinghai-Tibet Plateau of China. The nucleoside contents of the fruiting and caterpillar bodies show significant positive correlations with the geographical distances of O. sinensis populations, and the nucleoside contents in the O. sinensis populations with the non-dominant fungus-host haplotype associations from isolated geographical areas show significant positive correlations with the genetic distances among those populations based on nrDNA ITS and COI sequences, respectively. The fungus-host associations play important roles in the nucleoside differences of O. sinensis populations.


Asunto(s)
Interacciones Huésped-Patógeno/genética , Hypocreales/genética , Nucleósidos/química , Nucleósidos/genética , China , Hypocreales/química
20.
EMBO Rep ; 19(5)2018 05.
Artículo en Inglés | MEDLINE | ID: mdl-29491006

RESUMEN

Peroxisomes account for ~35% of total H2O2 generation in mammalian tissues. Peroxisomal ACOX1 (acyl-CoA oxidase 1) is the first and rate-limiting enzyme in fatty acid ß-oxidation and a major producer of H2O2 ACOX1 dysfunction is linked to peroxisomal disorders and hepatocarcinogenesis. Here, we show that the deacetylase sirtuin 5 (SIRT5) is present in peroxisomes and that ACOX1 is a physiological substrate of SIRT5. Mechanistically, SIRT5-mediated desuccinylation inhibits ACOX1 activity by suppressing its active dimer formation in both cultured cells and mouse livers. Deletion of SIRT5 increases H2O2 production and oxidative DNA damage, which can be alleviated by ACOX1 knockdown. We show that SIRT5 downregulation is associated with increased succinylation and activity of ACOX1 and oxidative DNA damage response in hepatocellular carcinoma (HCC). Our study reveals a novel role of SIRT5 in inhibiting peroxisome-induced oxidative stress, in liver protection, and in suppressing HCC development.


Asunto(s)
Acil-CoA Oxidasa/antagonistas & inhibidores , Acil-CoA Oxidasa/metabolismo , Carcinoma Hepatocelular/metabolismo , Neoplasias Hepáticas/metabolismo , Estrés Oxidativo , Sirtuinas/metabolismo , Acil-CoA Oxidasa/genética , Animales , Daño del ADN , Regulación hacia Abajo , Femenino , Técnicas de Silenciamiento del Gen , Células HEK293 , Células HeLa , Células Hep G2 , Humanos , Peróxido de Hidrógeno , Masculino , Ratones , Ratones Noqueados , Persona de Mediana Edad , Oxidación-Reducción , Peroxisomas/química , Pronóstico , Sirtuinas/genética
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