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1.
Mol Biol Rep ; 51(1): 816, 2024 Jul 16.
Article in English | MEDLINE | ID: mdl-39012539

ABSTRACT

BACKGROUND: Pyropia yezoensis a commercially important red seaweed species, is susceptible to various microorganisms infections, among which bacterial infections are the most prominent ones. Pyropia yezoensis is often affected by harmful bacterial communities under high temperatures that can lead to its degradation and economic losses. The current study aimed to explore Pyropia yezoensis-associated microbiota and further identify potential isolates, which can degrade Pyropia yezoensis under high-temperature conditions. METHODS AND RESULTS: The 16S rRNA gene sequencing was used to identify the agarolytic bacterial species. The results showed that Chromohalobacter sp. strain AZ6, Pseudoalteromonas sp. strain AZ, Psychrobacter sp. strain AZ3, Vibrio sp. strain AZ, and Halomonas sp. strain AZ07 exhibited algicidal properties as these strains were more abundant at high temperature (25 °C). Among the five isolated strains, the potential isolate Halomonas sp. strain AZ07 showed high production of agarolytic enzymes, including lipase, protease, cellulase, and amylase. This study confirmed that the isolated strain could produce these four different enzymes. The strain Halomonas AZ07 was co-treated with Pyropia yezoensis cells under two different temperature environments, including 13 °C and 25 °C. The degradation of Pyropia yezoensis occurred at the optimum temperature of 25 °C and effectively degraded their cell wall, proteins, lipids, and carbohydrates. CONCLUSION: The successful cultivation of Pyropia yezoensis in coastal farm environments is dependent on specific temperature and environmental factors, and lower temperatures have been observed to be particularly beneficial for the survival and growth of Pyropia yezoensis. The temperature below 13 °C was confirmed to be the best niche for the symbiotic relationship of microbiota associated with Pyropia yezoensis for its growth, development, and production.


Subject(s)
Halomonas , RNA, Ribosomal, 16S , Halomonas/genetics , Halomonas/metabolism , Halomonas/enzymology , RNA, Ribosomal, 16S/genetics , Hot Temperature , Rhodophyta/genetics , Phylogeny , Microbiota/genetics , Seaweed/metabolism , Seaweed/microbiology , Temperature , Edible Seaweeds , Porphyra
2.
Microb Biotechnol ; 17(7): e14524, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38980956

ABSTRACT

The coral reef microbiome plays a vital role in the health and resilience of reefs. Previous studies have examined phage therapy for coral pathogens and for modifying the coral reef microbiome, but defence systems against coral-associated bacteria have received limited attention. Phage defence systems play a crucial role in helping bacteria fight phage infections. In this study, we characterized a new defence system, Hma (HmaA-HmaB-HmaC), in the coral-associated Halomonas meridiana derived from the scleractinian coral Galaxea fascicularis. The Swi2/Snf2 helicase HmaA with a C-terminal nuclease domain exhibits antiviral activity against Escherichia phage T4. Mutation analysis revealed the nickase activity of the nuclease domain (belonging to PDD/EXK superfamily) of HmaA is essential in phage defence. Additionally, HmaA homologues are present in ~1000 bacterial and archaeal genomes. The high frequency of HmaA helicase in Halomonas strains indicates the widespread presence of these phage defence systems, while the insertion of defence genes in the hma region confirms the existence of a defence gene insertion hotspot. These findings offer insights into the diversity of phage defence systems in coral-associated bacteria and these diverse defence systems can be further applied into designing probiotics with high-phage resistance.


Subject(s)
Anthozoa , DNA Helicases , Halomonas , Halomonas/genetics , Halomonas/enzymology , Animals , Anthozoa/microbiology , Anthozoa/virology , DNA Helicases/genetics , DNA Helicases/metabolism , Bacteriophages/genetics , Bacteriophages/enzymology , Bacteriophages/physiology , Deoxyribonucleases/genetics , Deoxyribonucleases/metabolism
3.
Metab Eng ; 84: 95-108, 2024 Jul.
Article in English | MEDLINE | ID: mdl-38901556

ABSTRACT

Microbial instability is a common problem during bio-production based on microbial hosts. Halomonas bluephagenesis has been developed as a chassis for next generation industrial biotechnology (NGIB) under open and unsterile conditions. However, the hidden genomic information and peculiar metabolism have significantly hampered its deep exploitation for cell-factory engineering. Based on the freshly completed genome sequence of H. bluephagenesis TD01, which reveals 1889 biological process-associated genes grouped into 84 GO-slim terms. An enzyme constrained genome-scale metabolic model Halo-ecGEM was constructed, which showed strong ability to simulate fed-batch fermentations. A visible salt-stress responsive landscape was achieved by combining GO-slim term enrichment and CVT-based omics profiling, demonstrating that cells deploy most of the protein resources by force to support the essential activity of translation and protein metabolism when exposed to salt stress. Under the guidance of Halo-ecGEM, eight transposases were deleted, leading to a significantly enhanced stability for its growth and bioproduction of various polyhydroxyalkanoates (PHA) including 3-hydroxybutyrate (3HB) homopolymer PHB, 3HB and 3-hydroxyvalerate (3HV) copolymer PHBV, as well as 3HB and 4-hydroxyvalerate (4HB) copolymer P34HB. This study sheds new light on the metabolic characteristics and stress-response landscape of H. bluephagenesis, achieving for the first time to construct a long-term growth stable chassis for industrial applications. For the first time, it was demonstrated that genome encoded transposons are the reason for microbial instability during growth in flasks and fermentors.


Subject(s)
Halomonas , Halomonas/genetics , Halomonas/metabolism , Halomonas/enzymology , Halomonas/growth & development , Metabolic Engineering , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Metabolic Networks and Pathways/genetics , Gene Deletion , Models, Biological
4.
Molecules ; 26(13)2021 Jun 22.
Article in English | MEDLINE | ID: mdl-34206459

ABSTRACT

3,4-dihydroxyphenyl-L-alanine (L-DOPA) is a preferred drug for Parkinson's disease, with an increasing demand worldwide that mainly relies on costly and environmentally problematic chemical synthesis. Yet, biological L-DOPA production is unfeasible at the industrial scale due to its low L-DOPA yield and high production cost. In this study, low-cost Halomonas bluephagenesis TD01 was engineered to produce tyrosinase TyrVs-immobilized polyhydroxyalkanoate (PHA) nanogranules in vivo, with the improved PHA content and increased immobilization efficiency of TyrVs accounting for 6.85% on the surface of PHA. A higher L-DOPA-forming monophenolase activity of 518.87 U/g PHA granules and an L-DOPA concentration of 974.36 mg/L in 3 h catalysis were achieved, compared to those of E. coli. Together with the result of L-DOPA production directly by cell lysates containing PHA-TyrVs nanogranules, our study demonstrated the robust and cost-effective production of L-DOPA by H. bluephagenesis, further contributing to its low-cost industrial production based on next-generation industrial biotechnology (NGIB).


Subject(s)
Bacterial Proteins , Enzymes, Immobilized , Halomonas , Levodopa/biosynthesis , Microorganisms, Genetically-Modified , Monophenol Monooxygenase , Nanoparticles , Polyhydroxyalkanoates , Verrucomicrobia/genetics , Bacterial Proteins/biosynthesis , Bacterial Proteins/genetics , Enzymes, Immobilized/biosynthesis , Enzymes, Immobilized/genetics , Halomonas/enzymology , Halomonas/genetics , Microorganisms, Genetically-Modified/enzymology , Microorganisms, Genetically-Modified/genetics , Monophenol Monooxygenase/biosynthesis , Monophenol Monooxygenase/genetics , Polyhydroxyalkanoates/biosynthesis , Polyhydroxyalkanoates/genetics , Verrucomicrobia/enzymology
5.
Molecules ; 26(7)2021 Mar 31.
Article in English | MEDLINE | ID: mdl-33807313

ABSTRACT

L-glutaminase is an important anticancer agent that is used extensively worldwide by depriving cancer cells of L-glutamine. The marine bacterium, Halomonas meridian was isolated from the Red Sea and selected as the more active L-glutaminase-producing bacteria. L-glutaminase fermentation was optimized at 36 h, pH 8.0, 37 °C, and 3.0% NaCl, using glucose at 1.5% and soybean meal at 2%. The purified enzyme showed a specific activity of 36.08 U/mg, and the molecular weight was found to be 57 kDa by the SDS-PAGE analysis. The enzyme was highly active at pH 8.0 and 37 °C. The kinetics' parameters of Km and Vmax were 12.2 × 10-6 M and 121.95 µmol/mL/min, respectively, which reflects a higher affinity for its substrate. The anticancer efficiency of the enzyme showed significant toxic activity toward colorectal adenocarcinoma cells; LS 174 T (IC50 7.0 µg/mL) and HCT 116 (IC50 13.2 µg/mL). A higher incidence of cell death was observed with early apoptosis in HCT 116 than in LS 174 T, whereas late apoptosis was observed in LS 174 T more than in HCT 116. Also, the L-glutaminase induction nuclear fragmentation in HCT 116 was more than that in the LS 174T cells. This is the first report on Halomonas meridiana as an L-glutaminase producer that is used as an anti-colorectal cancer agent.


Subject(s)
Antineoplastic Agents , Colorectal Neoplasms/pathology , Glutaminase , Halomonas/enzymology , Antineoplastic Agents/pharmacology , Apoptosis/drug effects , Colorectal Neoplasms/drug therapy , Glutaminase/pharmacology , HCT116 Cells , Humans , Indian Ocean , Kinetics , Molecular Weight , Substrate Specificity
6.
Nat Commun ; 12(1): 1513, 2021 03 08.
Article in English | MEDLINE | ID: mdl-33686068

ABSTRACT

3-Hydroxypropionic acid (3HP), an important three carbon (C3) chemical, is designated as one of the top platform chemicals with an urgent need for improved industrial production. Halomonas bluephagenesis shows the potential as a chassis for competitive bioproduction of various chemicals due to its ability to grow under an open, unsterile and continuous process. Here, we report the strategy for producing 3HP and its copolymer poly(3-hydroxybutyrate-co-3-hydroxypropionate) (P3HB3HP) by the development of H. bluephagenesis. The transcriptome analysis reveals its 3HP degradation and synthesis pathways involving endogenous synthetic enzymes from 1,3-propanediol. Combing the optimized expression of aldehyde dehydrogenase (AldDHb), an engineered H. bluephagenesis strain of whose 3HP degradation pathway is deleted and that overexpresses alcohol dehydrogenases (AdhP) on its genome under a balanced redox state, is constructed with an enhanced 1.3-propanediol-dependent 3HP biosynthetic pathway to produce 154 g L-1 of 3HP with a yield and productivity of 0.93 g g-1 1,3-propanediol and 2.4 g L-1 h-1, respectively. Moreover, the strain could also accumulate 60% poly(3-hydroxybutyrate-co-32-45% 3-hydroxypropionate) in the dry cell mass, demonstrating to be a suitable chassis for hyperproduction of 3HP and P3HB3HP.


Subject(s)
Biosynthetic Pathways , Halomonas/genetics , Halomonas/metabolism , Lactic Acid/analogs & derivatives , Lactic Acid/biosynthesis , Metabolic Engineering , Bacterial Proteins/metabolism , Biopolymers/metabolism , Biosynthetic Pathways/genetics , Gene Editing , Gene Expression Regulation, Bacterial , Halomonas/enzymology , Hydroxybutyrates/metabolism , Polyesters/metabolism , Propylene Glycols/metabolism
7.
Int J Biol Macromol ; 165(Pt A): 1139-1148, 2020 Dec 15.
Article in English | MEDLINE | ID: mdl-33031847

ABSTRACT

The YbfF esterase family, which has a bifurcated binding pocket for diverse ligands, could serve as excellent biocatalysts in industrial and biotechnological applications. Here, the identification, characterization, and immobilization of a novel YbfF esterase (YbfFHalomonas elongata) from Halomonas elongata DSM 2581 is reported. Biochemical characterization of YbfF was carried out using activity staining, chromatographic analysis, kinetic analysis, activity assay, acetic acid release, and pH-indicator-based hydrolysis. YbfFH.elongata displayed broad substrate specificity, including that for p-nitrophenyl esters, glucose pentaacetate, tert-butyl acetate, and ß-lactam-containing compounds, with high efficiency. Based on a homology model of YbfFH.elongata, Trp237 in the substrate-binding pocket, a critical residue for catalytic activity and substrate specificity was identified and characterized. Furthermore, crosslinked enzyme aggregates and nanoflower formation were explored to enhance the chemical stability and recyclability of YbfFH.elongata. The present study is the first report of a YbfF esterase from extremophiles, and explains its protein stability, catalytic activity, substrate specificities and diversities, kinetics, functional residues, amyloid formation, and immobilization.


Subject(s)
Bacterial Proteins/chemistry , Enzymes, Immobilized/chemistry , Esterases/chemistry , Halomonas/enzymology , Bacterial Proteins/genetics , Enzymes, Immobilized/genetics , Esterases/genetics , Esterases/isolation & purification , Kinetics , Protein Stability , Substrate Specificity/genetics
8.
Folia Microbiol (Praha) ; 65(5): 909-916, 2020 Oct.
Article in English | MEDLINE | ID: mdl-32483684

ABSTRACT

A systematic study on the lack of dissimilatory nitrate reductase (NAR) properties in Halomonas strains had been reported so far. The effects of different factors on Halomonas sp. B01 NAR activity were investigated. The salt tolerance of NAR was characterized. The denitrification process under high salt conditions was reported. Halomonas sp. B01 expressed membrane-bound NAR under induced culture by nitrate. The optimum pH of the enzyme reaction system was 8, and the optimum temperature was 30 °C. The mRNA expression abundance of narH in NAR encoding gene was highest in the 60 g/L NaCl inducing matrix. The NaCl concentration of optimum growth and induction of NAR were both 60 g/L. The ectoine added to the NAR vitro enzyme reaction system could maintain NAR activity under high NaCl concentration. In the range of 0-60 g/L NaCl, the NAR activity was stable at 17.7 (± 0.3) U/mg. The denitrification was performed by Halomonas sp. B01 at 60 g/L NaCl, and the denitrification rate reached 97.1% at 24 h. This study reveals for the first time the NAR properties of Halomonas strains, which provides a theoretical and technical basis for the nitrogen removal of high-salt nitrogenous wastewater using this strain.


Subject(s)
Bacterial Proteins/metabolism , Halomonas/enzymology , Nitrate Reductase/metabolism , Salt Tolerance , Amino Acids, Diamino/metabolism , Bacterial Proteins/genetics , Cell Membrane/metabolism , Denitrification , Gene Expression Regulation, Bacterial , Halomonas/genetics , Halomonas/growth & development , Halomonas/metabolism , Hydrogen-Ion Concentration , Nitrate Reductase/genetics , Nitrates/metabolism , Sodium Chloride/metabolism , Temperature
9.
Protein Expr Purif ; 173: 105661, 2020 09.
Article in English | MEDLINE | ID: mdl-32387145

ABSTRACT

A novel superoxide dismutase (referred hereafter to as HsSOD) from the psychrophilic bacterium Halomonas sp. ANT108 was purified and characterized. Escherichia coli (E. coli) was selected as the expression host. After recombinant HsSOD (rHsSOD) was purified, the specific activity was determined to be 213.47 U/mg with a purification ratio of approximately 3.61-fold. SDS-PAGE results demonstrated that rHsSOD has the molecular weight of 31.3 kDa, and type identification revealed that it belongs to Cu/Zn SOD. The optimum activity of rHsSOD was at 35 °C and 28% of its maximum activity remained at 0 °C. Further enzymatic assays indicated that rHsSOD exhibited thermal instability with a half-life of 20 min at 60 °C. Moreover, Cu2+ and Zn2+ significantly promoted rHsSOD activity. The values of Km and Vmax were 0.33 mM and 476.19 U/mg, respectively. Interestingly, rHsSOD could avoid DNA strand breakage formed by metal-catalyzed oxidation, demonstrating its antioxidant capacity. To summarize, the results suggested that rHsSOD has relatively high catalytic efficiency and oxidation resistance at low temperatures.


Subject(s)
Bacterial Proteins , DNA Damage , DNA/chemistry , Halomonas/genetics , Superoxide Dismutase , Bacterial Proteins/chemistry , Bacterial Proteins/genetics , Bacterial Proteins/isolation & purification , Escherichia coli/genetics , Escherichia coli/metabolism , Halomonas/enzymology , Oxidation-Reduction , Recombinant Proteins/chemistry , Recombinant Proteins/genetics , Recombinant Proteins/isolation & purification , Superoxide Dismutase/chemistry , Superoxide Dismutase/genetics , Superoxide Dismutase/isolation & purification
10.
Metab Eng ; 60: 119-127, 2020 07.
Article in English | MEDLINE | ID: mdl-32315761

ABSTRACT

Halophilic Halomonas bluephagenesis (H. bluephagenesis), a chassis for cost-effective Next Generation Industrial Biotechnology (NGIB), was for the first time engineered to successfully produce L-threonine, one of the aspartic family amino acids (AFAAs). Five exogenous genes including thrA*BC, lysC* and rhtC encoding homoserine dehydrogenase mutant at G433R, homoserine kinase, L-threonine synthase, aspartokinase mutant at T344M, S345L and T352I, and export transporter of threonine, respectively, were grouped into two expression modules for transcriptional tuning on plasmid- and chromosome-based systems in H. bluephagenesis, respectively, after pathway tuning debugging. Combined with deletion of import transporter or/and L-threonine dehydrogenase encoded by sstT or/and thd, respectively, the resulting recombinant H. bluephagenesis TDHR3-42-p226 produced 7.5 g/L and 33 g/L L-threonine when grown under open unsterile conditions in shake flasks and in a 7 L bioreactor, respectively. Engineering H. bluephagenesis demonstrates strong potential for production of diverse metabolic chemicals.


Subject(s)
Halomonas/genetics , Halomonas/metabolism , Metabolic Engineering/methods , Threonine/biosynthesis , Bioreactors , Chromosomes, Artificial, Bacterial , Fermentation , Halomonas/enzymology , Isomerism , Plasmids/genetics
11.
Bioprocess Biosyst Eng ; 43(5): 909-918, 2020 May.
Article in English | MEDLINE | ID: mdl-31989256

ABSTRACT

Bacteria have evolved a defense system to resist external stressors, such as heat, pH, and salt, so as to facilitate survival in changing or harsh environments. However, the specific mechanisms by which bacteria respond to such environmental changes are not completely elucidated. Here, we used halotolerant bacteria as a model to understand the mechanism conferring high tolerance to NaCl. We screened for genes related to halotolerance in Halomonas socia, which can provide guidance for practical application. Phospholipid fatty acid analysis showed that H. socia cultured under high osmotic pressure produced a high portion of cyclopropane fatty acid derivatives, encoded by the cyclopropane-fatty acid-acyl phospholipid synthase gene (cfa). Therefore, H. socia cfa was cloned and introduced into Escherichia coli for expression. The cfa-overexpressing E. coli strain showed better growth, compared with the control strain under normal cultivation condition as well as under osmotic pressure (> 3% salinity). Moreover, the cfa-overexpressing E. coli strain showed 1.58-, 1.78-, 3.3-, and 2.19-fold higher growth than the control strain in the presence of the inhibitors furfural, 4-hydroxybenzaldehyde, vanillin, and acetate from lignocellulosic biomass pretreatment, respectively. From a practical application perspective, cfa was co-expressed in E. coli with the polyhydroxyalkanoate (PHA) synthetic operon of Ralstonia eutropha using synthetic and biosugar media, resulting in a 1.5-fold higher in PHA production than that of the control strain. Overall, this study demonstrates the potential of the cfa gene to boost cell growth and production even in heterologous strains under stress conditions.


Subject(s)
Bacterial Proteins , Escherichia coli , Gene Expression , Methyltransferases , Microorganisms, Genetically-Modified , Osmotic Pressure/drug effects , Sodium Chloride/pharmacology , Bacterial Proteins/biosynthesis , Bacterial Proteins/genetics , Cupriavidus necator/enzymology , Cupriavidus necator/genetics , Escherichia coli/enzymology , Escherichia coli/genetics , Halomonas/enzymology , Halomonas/genetics , Methyltransferases/biosynthesis , Methyltransferases/genetics , Microorganisms, Genetically-Modified/enzymology , Microorganisms, Genetically-Modified/genetics , Recombinant Proteins/biosynthesis , Recombinant Proteins/genetics
12.
Chembiochem ; 20(22): 2830-2833, 2019 11 18.
Article in English | MEDLINE | ID: mdl-31158309

ABSTRACT

The physiological role of biogenic aldehydes, such as 3,4-dihydroxyphenylacetaldehyde (DOPAL), has been associated with cardiovascular and neurodegenerative disorders. The availability of these substrates is limited and robust synthetic methodologies would greatly facilitate further biological studies. Herein, a transaminase-mediated single-step process in continuous mode, which leads to excellent product yields (90-95 %), is reported. Coimmobilization of the pyridoxal phosphate (PLP) cofactor eliminated the need for exogenous addition of this reagent without affecting the longevity of the system, delivering a truly self-sufficient process.


Subject(s)
Aldehydes/chemical synthesis , Bacterial Proteins/chemistry , Transaminases/chemistry , Amines/chemistry , Biocatalysis , Halomonas/enzymology , Pyridoxal Phosphate/chemistry
13.
Extremophiles ; 23(5): 507-520, 2019 Sep.
Article in English | MEDLINE | ID: mdl-31154531

ABSTRACT

The aim of this study was to isolate a novel esterase from a hypersaline lake by sequence-based metagenomics. The metagenomic DNA was isolated from the enriched hypersaline lake sediment. Degenerate primers targeting the conserved regions of lipolytic enzymes of halophilic microorganisms were used for polymerase chain reaction (PCR) and a whole gene was identified by genome walking. The gene was composed of 783 bp, which corresponds to 260 amino acids with a molecular weight of 28.2 kDa. The deduced amino acid sequence best matched with the esterase from Halomonas gudaonensis with an identity of 91%. Recombinantly expressed enzyme exhibited maximum activity towards pNP-hexanoate with a kcat value of 12.30 s-1. The optimum pH and temperature of the enzyme were found as 9 and 30 °C, respectively. The effects of NaCl, solvents, metal ions, detergents and enzyme inhibitors were also studied. In conclusion, a novel enzyme, named as hypersaline lake "Acigöl" esterase (hAGEst), was identified by sequence-based metagenomics. The high expression level, the ability to maintain activity at cold temperatures and tolerance to DMSO and metal ions are the most outstanding properties of the hAGEst.


Subject(s)
Bacterial Proteins/genetics , Esterases/genetics , Metagenome , Salt Tolerance , Bacterial Proteins/chemistry , Bacterial Proteins/metabolism , Enzyme Stability , Esterases/chemistry , Esterases/metabolism , Halomonas/enzymology , Halomonas/genetics , Lakes/microbiology , Microbiota , Salinity , Substrate Specificity
14.
Appl Microbiol Biotechnol ; 103(14): 5689-5698, 2019 Jul.
Article in English | MEDLINE | ID: mdl-31106391

ABSTRACT

L-Hydroxyproline (Hyp) is a valuable intermediate for the synthesis of pharmaceuticals; consequently, a practical process for its production has been in high demand. To date, industrial processes have been developed by using L-Pro hydroxylases. However, a process for the synthesis of trans-3-Hyp has not yet been established, because of the lack of highly selective enzymes that can convert L-Pro to trans-3-Hyp. The present study was designed to develop a biocatalytic trans-3-Hyp production process. We speculated that ectoine hydroxylase (EctD), which is involved in the hydroxylation of the known compatible solute ectoine, may possess the ability to hydroxylate L-Pro, since the structures of ectoine and 5-hydroxyectoine resemble those of L-Pro and trans-3-Hyp, respectively. Consequently, we discovered that ectoine hydroxylases from Halomonas elongata, as well as some actinobacteria, catalyzed L-Pro hydroxylation to form trans-3-Hyp. Of these, ectoine hydroxylase from Streptomyces cattleya also utilized 3,4-dehydro-L-Pro, 2-methyl-L-Pro, and L-pipecolic acid as substrates. In the whole-cell bioconversion of L-Pro into trans-3-Hyp using Escherichia coli expressing the ectD gene from S. cattleya, only 12.4 mM trans-3-Hyp was produced from 30 mM L-Pro, suggesting a rapid depletion of 2-oxoglutarate, an essential component of enzyme activity as a cosubstrate, in the host. Therefore, the endogenous 2-oxoglutarate dehydrogenase gene was deleted. Using this deletion mutant as the host, trans-3-Hyp production was enhanced up to 26.8 mM from 30 mM L-Pro, with minimal loss of 2-oxoglutarate. This finding is not only beneficial for trans-3-Hyp production, but also for other E. coli bioconversion processes involving 2-oxoglutarate-utilizing enzymes.


Subject(s)
Halomonas/enzymology , Hydroxyproline/biosynthesis , Mixed Function Oxygenases/metabolism , Proline/metabolism , Streptomyces/enzymology , Amino Acids, Diamino , Bacterial Proteins/metabolism , Biocatalysis , Escherichia coli/genetics , Gene Deletion , Hydroxylation , Ketoglutarate Dehydrogenase Complex/genetics
15.
J Biosci Bioeng ; 128(3): 332-336, 2019 Sep.
Article in English | MEDLINE | ID: mdl-30935782

ABSTRACT

Hydroxyectoine, an ectoine derivative, is the most common compatible solute in halophilic microorganisms for resisting harsh environments. Compatible solutes can be utilized in fields such as cosmetics, medicine, and biochemistry. Moderately halophilic microorganisms produce much less hydroxyectoine as compared with ectoine. In this study, we first evaluate the effect of medium formulation (i.e., yeast extract (YE) medium and high yeast extract (HYE) medium) on hydroxyectoine production. In addition, an investigation of hydroxyectoine production by Halomonas salina under optimal conditions for vital factors (i.e., iron and α-ketoglutarate) and hydroxylase activity was also carried out. As a result, hydroxyectoine production was obviously elevated (0.9 g/L to 1.8 g/L) when the HYE medium was utilized. Furthermore, hydroxyectoine production further increased to 2.4 g/L when both the α-ketoglutarate and iron factors were added to the HYE medium in the early stationary phase. In addition, we found that ectoine hydroxylase activity increased more when a combination of iron and α-ketoglutarate was used than when either was used alone. The results showed that the alteration of iron and α-ketoglutarate clearly stimulated the expression of ectoine hydroxylase, which in turn affected hydroxyectoine synthesis. This study also showed that hydroxyectoine production was further raised from 2.4 g/L to 2.9 g/L when 50 mM of α-ketoglutarate and 1 mM of iron were added to the HYE medium. Ultimately, the experimental results showed using the optimal conditions further elevated the hydroxyectoine production yield to 2.90 g/L, which was over 3-fold higher than the best results obtained from the original medium.


Subject(s)
Amino Acids, Diamino/metabolism , Fermentation/physiology , Halomonas/metabolism , Bioreactors/microbiology , Culture Media/chemistry , Halomonas/enzymology , Iron/chemistry , Ketoglutaric Acids/chemistry , Metabolic Engineering/methods , Microbiological Techniques/methods , Mixed Function Oxygenases/genetics , Mixed Function Oxygenases/metabolism , Salt Tolerance
16.
Appl Microbiol Biotechnol ; 103(9): 3693-3704, 2019 May.
Article in English | MEDLINE | ID: mdl-30834961

ABSTRACT

Biotechnologically produced (R)-3-hydroxybutyrate is an interesting pre-cursor for antibiotics, vitamins, and other molecules benefitting from enantioselective production. An often-employed pathway for (R)-3-hydroxybutyrate production in recombinant E. coli consists of three-steps: (1) condensation of two acetyl-CoA molecules to acetoacetyl-CoA, (2) reduction of acetoacetyl-CoA to (R)-3-hydroxybutyrate-CoA, and (3) hydrolysis of (R)-3-hydroxybutyrate-CoA to (R)-3-hydroxybutyrate by thioesterase. Whereas for the first two steps, many proven heterologous candidate genes exist, the role of either endogenous or heterologous thioesterases is less defined. This study investigates the contribution of four native thioesterases (TesA, TesB, YciA, and FadM) to (R)-3-hydroxybutyrate production by engineered E. coli AF1000 containing a thiolase and reductase from Halomonas boliviensis. Deletion of yciA decreased the (R)-3-hydroxybutyrate yield by 43%, whereas deletion of tesB and fadM resulted in only minor decreases. Overexpression of yciA resulted in doubling of (R)-3-hydroxybutyrate titer, productivity, and yield in batch cultures. Together with overexpression of glucose-6-phosphate dehydrogenase, this resulted in a 2.7-fold increase in the final (R)-3-hydroxybutyrate concentration in batch cultivations and in a final (R)-3-hydroxybutyrate titer of 14.3 g L-1 in fed-batch cultures. The positive impact of yciA overexpression in this study, which is opposite to previous results where thioesterase was preceded by enzymes originating from different hosts or where (S)-3-hydroxybutyryl-CoA was the substrate, shows the importance of evaluating thioesterases within a specific pathway and in strains and cultivation conditions able to achieve significant product titers. While directly relevant for (R)-3-hydroxybutyrate production, these findings also contribute to pathway improvement or decreased by-product formation for other acyl-CoA-derived products.


Subject(s)
3-Hydroxybutyric Acid/biosynthesis , Acyl Coenzyme A/metabolism , Escherichia coli Proteins/metabolism , Escherichia coli/metabolism , Palmitoyl-CoA Hydrolase/metabolism , Thiolester Hydrolases/genetics , 3-Hydroxybutyric Acid/analysis , Bacterial Proteins/genetics , Bacterial Proteins/metabolism , Batch Cell Culture Techniques , Escherichia coli/chemistry , Escherichia coli/genetics , Escherichia coli Proteins/genetics , Halomonas/enzymology , Metabolic Engineering , Palmitoyl-CoA Hydrolase/genetics , Thiolester Hydrolases/metabolism
17.
Int J Biol Macromol ; 123: 1062-1069, 2019 Feb 15.
Article in English | MEDLINE | ID: mdl-30465830

ABSTRACT

Understanding the molecular mechanisms of azo dye decolorization is important for the development of effective bioremediation for textile-colored wastewater. A halophilic bacterium Halomonas sp. strain GT was isolated, which could degrade the azo dye Acid Brilliant Scarlet GR at 10% NaCl. The complete genome sequence of this strain was obtained using the PacBio RS II platform. Genome annotation revealed that four proteins are related to decolorization of azo dyes, such as azoreductase, laccases, benzene 1,2-dioxygenase, and catechol 1,2-dioxygenase. The putative azoreductase gene of Halomonas sp. strain GT responsible for the decolorization of azo dye in high salt environment was isolated. Phylogenetic tree analysis showed that the azoG (azoreductase gene of Halomonas sp. strain GT) and its homologs constituted a new branch of the NADH depending azoreductases, with all the homologous sequence of the protein from halophilic bacteria. At high NaCl concentrations, azoreductase gene expression and azoreductase activity were restrained in Halomonas sp. strain GT, which resulted in low a decolorization rate.


Subject(s)
Cloning, Molecular/methods , Halomonas/enzymology , NADH, NADPH Oxidoreductases/genetics , NADH, NADPH Oxidoreductases/isolation & purification , Salinity , Base Sequence , Color , Coloring Agents/chemistry , DNA, Circular/genetics , Genome, Bacterial , Halomonas/drug effects , Halomonas/genetics , Hydrogen-Ion Concentration , Nitroreductases , Phylogeny , Recombinant Proteins/metabolism , Sodium Chloride/pharmacology
18.
Biotechnol Appl Biochem ; 65(6): 883-891, 2018 Nov.
Article in English | MEDLINE | ID: mdl-30132989

ABSTRACT

Azoreductases mainly reduce azo dyes, the largest class of colorants, to colorless aromatic amines. AzoH, a new azoreductase from the halophilic bacterium, Halomonas elongata, has been recently cloned and expressed in Escherichia coli. The aim of this study was to improve thermal stability of this enzyme by introducing new disulfide bonds. Since X-ray crystallography was not available, homology modeling and molecular dynamics was used to construct the enzyme three-dimensional structure. Potential disulfide bonds for increasing thermal stability were found using DIScover online software. Appropriate mutations (L49C/D108C) to form a disulfide bond were introduced by the Quik-Change method. Mutant protein expressed in E. coli showed increased thermal stability at 50 °C (increased half-life from 12.6 Min in AzoH to 26.66 Min in a mutated enzyme). The mutated enzyme could also tolerate 5% (w/v) NaCl and retained 30% of original activity after 24 H incubation, whereas the wild-type enzyme was completely inactivated. According to circular dichroism studies, the secondary structure was not altered by this mutation; however, a blue shift in intrinsic florescent graph revealed changes in the tertiary structure. This is the first study to improve thermal stability and salt tolerance of a halophilic azoreductase.


Subject(s)
Disulfides/metabolism , Halomonas/enzymology , Mutagenesis, Site-Directed , NADH, NADPH Oxidoreductases/genetics , NADH, NADPH Oxidoreductases/metabolism , Temperature , Disulfides/chemistry , Dose-Response Relationship, Drug , Enzyme Stability , Halomonas/genetics , Hydrogen-Ion Concentration , Models, Molecular , NADH, NADPH Oxidoreductases/antagonists & inhibitors , Nitroreductases , Protein Structure, Tertiary , Sodium Chloride/pharmacology , Software
19.
J Basic Microbiol ; 58(10): 867-874, 2018 Oct.
Article in English | MEDLINE | ID: mdl-30043998

ABSTRACT

Nitrile hydrolyzing moderate halophilic bacterium Halomonas sp. IIIMB2797 was isolated from Sambhar Lake, India. Maximum cell biomass and nitrilase production were observed at 60 g L-1 NaCl in the production media which confirms its moderate halophilic nature. Nitrilase of Halomonas sp. IIIMB2797 proved to be inducible in nature as maximum activity was observed when valeronitrile was added in the production media. Whole cells of Halomonas sp. IIIMB2797 exhibited broad substrate affinity towards aromatic and aliphatic nitriles. Optimum pH and temperature for nitrilase activity was observed at 7.0 and 45 °C, respectively. Effect of salinity on nitrilase activity was also studied and maximum activity was observed in presence of 50 g L-1 NaCl in 0.1 M phosphate buffer of pH 7.0. The interesting feature of the study is that whole cells of Halomonas sp. IIIMB2797 exhibited higher nitrilase activities in presence of organic solvents which may be useful in biotransformation of nitriles to corresponding carboxylic acids for industrial applications.


Subject(s)
Aminohydrolases/metabolism , Halomonas/enzymology , Lakes/microbiology , Aminohydrolases/chemistry , DNA, Bacterial/genetics , Enzyme Stability , Genome, Bacterial/genetics , Halomonas/classification , Halomonas/genetics , Halomonas/isolation & purification , Hydrogen-Ion Concentration , India , Molecular Sequence Data , Nitriles/metabolism , Phylogeny , RNA, Ribosomal, 16S/genetics , Salinity , Sequence Analysis, DNA , Sodium Chloride , Solvents , Substrate Specificity , Temperature
20.
Enzyme Microb Technol ; 113: 1-8, 2018 Jun.
Article in English | MEDLINE | ID: mdl-29602381

ABSTRACT

Cytochrome P450 monooxygenases are able to catalyse a range of synthetically challenging reactions ranging from hydroxylation and demethylation to sulfoxidation and epoxidation. As such they have great potential for biocatalytic applications but are underutilised due to often-poor expression, stability and solubility in recombinant bacterial hosts. The use of self-sufficient P450 s with fused haem and reductase domains has already contributed heavily to improving catalytic efficiency and simplifying an otherwise more complex multi-component system of P450 and redox partners. Herein, we present a new addition to the class VII family with the cloning, sequencing and characterisation of the self-sufficient CYP116B62 Hal1 from Halomonas sp. NCIMB 172, the genome of which has not yet been sequenced. Hal1 exhibits high levels of expression in a recombinant E. coli host and can be utilised from cell lysate or used in purified form. Hal1 favours NADPH as electron donor and displays a diverse range of activities including hydroxylation, demethylation and sulfoxidation. These properties make Hal1 suitable for future biocatalytic applications or as a template for optimisation through engineering.


Subject(s)
Cloning, Molecular/methods , Cytochrome P-450 Enzyme System/metabolism , Gene Expression Regulation, Enzymologic , Halomonas/enzymology , NADP/metabolism , Biocatalysis , Cytochrome P-450 Enzyme System/genetics , Demethylation , Halomonas/genetics , Hydroxylation , Phylogeny , Substrate Specificity , Sulfates/chemistry
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