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Article ; Online: Engineering artificial photosynthesis based on rhodopsin for CO

Tu, Weiming / Xu, Jiabao / Thompson, Ian P / Huang, Wei E

2023 Volume 14, Issue 1, Page(s) 8012

Abstract: Microbial rhodopsin, a significant contributor to sustaining life through light harvesting, holds untapped potential for carbon fixation. Here, we construct an artificial photosynthesis system which combines the proton-pumping ability of rhodopsin with ... ...

Abstract	Microbial rhodopsin, a significant contributor to sustaining life through light harvesting, holds untapped potential for carbon fixation. Here, we construct an artificial photosynthesis system which combines the proton-pumping ability of rhodopsin with an extracellular electron uptake mechanism, establishing a pathway to drive photoelectrosynthetic CO
MeSH term(s)	Carbon Dioxide/metabolism ; Rhodopsin/genetics ; Rhodopsin/metabolism ; Photosynthesis/genetics ; Cyanobacteria/genetics ; Cyanobacteria/metabolism
Chemical Substances	Carbon Dioxide (142M471B3J) ; Rhodopsin (9009-81-8)
Language	English
Publishing date	2023-12-04
Publishing country	England
Document type	Journal Article
ZDB-ID	2553671-0
ISSN	2041-1723 ; 2041-1723
ISSN (online)	2041-1723
ISSN	2041-1723
DOI	10.1038/s41467-023-43524-4
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: The effect of nutrient limitation on bacterial wax ester production

Martin, Laura K. / Huang, Wei E. / Thompson, Ian P.

Bioresource Technology Reports. 2023 June, v. 22 p.101423-

2023

Abstract: Nutrient limitation is widely employed to alter the behaviour of micro-organisms. Here, the impact of nitrogen and, for the first time, phosphate limitation is investigated on the production of bacterial storage lipids; specifically wax esters, a class ... ...

Abstract	Nutrient limitation is widely employed to alter the behaviour of micro-organisms. Here, the impact of nitrogen and, for the first time, phosphate limitation is investigated on the production of bacterial storage lipids; specifically wax esters, a class of storage lipids of industrial interest, by the bacterium Acinetobacter baylyi ADP1 grown on the low-cost substrate acetate. Studies determined the absolute and temporal effects of nutrient limitation and identified a maximum wax titre of 132 mg/L and content of 17 % of biomass. A 4-fold increase in wax production was achievable by manipulating carbon: phosphate ratio. Multivariable analysis identified a novel interaction effect between carbon: nitrogen and carbon: phosphate ratios on wax production. Extreme phosphate starvation shifted the dominant lipid class from wax esters to triacylglycerols, the first report of the potential of phosphate limitation to alter the type of lipid generated. These findings offer valuable insights for future microbial bioproduction studies.
Keywords	Acinetobacter ; acetates ; bacteria ; biomass ; carbon ; nitrogen ; phosphates ; starvation ; technology ; triacylglycerols ; Wax ester ; Lipid accumulation ; Nutrient limitation ; Phosphate ; Acinetobacter baylyi ADP1 ; Microbiology ; Biotechnology ; Bioproduction
Language	English
Dates of publication	2023-06
Publishing place	Elsevier Ltd
Document type	Article ; Online
Note	Use and reproduction
ISSN	2589-014X
DOI	10.1016/j.biteb.2023.101423
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Bacterial wax synthesis.

Martin, Laura K / Huang, Wei E / Thompson, Ian P

Biotechnology advances

2020 Volume 46, Page(s) 107680

Abstract: Biological wax esters offer a sustainable, renewable and biodegradable alternative to many fossil fuel derived chemicals including plastics and paraffins. Many species of bacteria accumulate waxes with similar structure and properties to highly desirable ...

Abstract	Biological wax esters offer a sustainable, renewable and biodegradable alternative to many fossil fuel derived chemicals including plastics and paraffins. Many species of bacteria accumulate waxes with similar structure and properties to highly desirable animal and plant waxes such as Spermaceti and Jojoba oils, the use of which is limited by resource requirements, high cost and ethical concerns. While bacterial fermentations overcome these issues, a commercially viable bacterial wax production process would require high yields and renewable, affordable feedstock to make it economically competitive and environmentally beneficial. This review describes recent progress in wax ester generation in both wild type and genetically engineered bacteria, with a focus on comparing substrates and quantifying obtained waxes. The full breadth of wax accumulating species is discussed, with emphasis on species generating high yields and utilising renewable substrates. Key areas of the field that have, thus far, received limited attention are highlighted, such as waste stream valorisation, mixed microbial cultures and efficient wax extraction, as, until effectively addressed, these will slow progress in creating commercially viable wax production methods.
MeSH term(s)	Bacteria/genetics ; Esters ; Genetic Engineering ; Plant Oils ; Waxes
Chemical Substances	Esters ; Plant Oils ; Waxes
Language	English
Publishing date	2020-12-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	47165-3
ISSN	1873-1899 ; 0734-9750
ISSN (online)	1873-1899
ISSN	0734-9750
DOI	10.1016/j.biotechadv.2020.107680
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Article ; Online: Rational Design and Characterization of Nitric Oxide Biosensors in

Chen, Xiaoyu J / Wang, Baojun / Thompson, Ian P / Huang, Wei E

ACS synthetic biology

2021 Volume 10, Issue 10, Page(s) 2566–2578

Abstract: Nitric oxide (NO) is an important disease biomarker found in many chronic inflammatory diseases and cancers. A well-characterized nitric sensing system is useful to aid the rapid development of bacteria therapy and synthetic biology. In this work, we ... ...

Abstract	Nitric oxide (NO) is an important disease biomarker found in many chronic inflammatory diseases and cancers. A well-characterized nitric sensing system is useful to aid the rapid development of bacteria therapy and synthetic biology. In this work, we engineered a set of NO-responsive biosensors based on the P
MeSH term(s)	Binding, Competitive ; Biosensing Techniques/instrumentation ; Escherichia coli/genetics ; Escherichia coli Proteins/genetics ; Gene Regulatory Networks ; Nitric Oxide/analysis ; Promoter Regions, Genetic ; Synthetic Biology/methods ; Trans-Activators/genetics
Chemical Substances	Escherichia coli Proteins ; NorR protein, E coli ; Trans-Activators ; Nitric Oxide (31C4KY9ESH)
Language	English
Publishing date	2021-09-22
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
ISSN	2161-5063
ISSN (online)	2161-5063
DOI	10.1021/acssynbio.1c00223
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Phosphorus Depletion as a Green Alternative to Biocides for Controlling Biodegradation of Metalworking Fluids.

Azimi, Yaldah / Thompson, Ian P

Environmental science & technology

2017 Volume 51, Issue 10, Page(s) 5695–5702

Abstract: Metalworking fluids (MWFs) are used as lubricants and coolants in the manufacturing operations. Their biodeterioration, while in operation, is a widespread problem leading to poor performance and worker health issues. Adding biocides, though effective in ...

Abstract	Metalworking fluids (MWFs) are used as lubricants and coolants in the manufacturing operations. Their biodeterioration, while in operation, is a widespread problem leading to poor performance and worker health issues. Adding biocides, though effective in reducing microbial growth, leads to the production of more recalcitrant wastewaters that are difficult to dispose or recycle on-site. Increasing environmental concerns have led to robust legislation for reducing/eliminating the use of toxic biocides in MWFs, stimulating a growing interest in the development/application of alternative biological preservation strategies. In this study, inducing nutrient imbalance was investigated for controlling microbial growth in MWFs. Phosphorus was immobilized employing insoluble La
Language	English
Publishing date	2017-05-16
Publishing country	United States
Document type	Journal Article
ISSN	1520-5851
ISSN (online)	1520-5851
DOI	10.1021/acs.est.7b00317
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Article: Phosphorus Depletion as a Green Alternative to Biocides for Controlling Biodegradation of Metalworking Fluids

Azimi, Yaldah / Thompson Ian P

Environmental Science & Technology. 2017 May 16, v. 51, no. 10

2017

Abstract	Metalworking fluids (MWFs) are used as lubricants and coolants in the manufacturing operations. Their biodeterioration, while in operation, is a widespread problem leading to poor performance and worker health issues. Adding biocides, though effective in reducing microbial growth, leads to the production of more recalcitrant wastewaters that are difficult to dispose or recycle on-site. Increasing environmental concerns have led to robust legislation for reducing/eliminating the use of toxic biocides in MWFs, stimulating a growing interest in the development/application of alternative biological preservation strategies. In this study, inducing nutrient imbalance was investigated for controlling microbial growth in MWFs. Phosphorus was immobilized employing insoluble LaâOâ to form LaPOâ. Concentrations of LaâOâ greater than 0.08%w (%w = weight percent) completely inhibited microbial growth (from 1.4 Ã 10â· to 0 CFU/mL) and hindered biodegradation. Raman spectroscopy suggested that LaâOâ converted intracellular phosphorus into LaPOâ. The growth inhibition potentials of both 0.06%w La(NOâ)â and LaâOâ were found to be superior to formaldehyde. The antimicrobial property of LaâOâ (i.e., inhibition) was tenable by adding sufficient phosphate, acting as an on/off switch for controlling microbial growth in MWFs. This technology offers the potential to reduce/eliminate the use of biocides in MWFs, improves the feasibility of end-of-life biological treatment, and closes the water loop.
Keywords	anti-infective properties ; biocides ; biodegradation ; biological treatment ; formaldehyde ; growth retardation ; laws and regulations ; lubricants ; manufacturing ; microbial growth ; phosphates ; phosphorus ; Raman spectroscopy ; toxicity ; wastewater
Language	English
Dates of publication	2017-0516
Size	p. 5695-5702.
Publishing place	American Chemical Society
Document type	Article
ISSN	1520-5851
DOI	10.1021%2Facs.est.7b00317
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Engineering a Rhodopsin-Based Photo-Electrosynthetic System in Bacteria for CO

Davison, Paul A / Tu, Weiming / Xu, Jiabao / Della Valle, Simona / Thompson, Ian P / Hunter, C Neil / Huang, Wei E

ACS synthetic biology

2022 Volume 11, Issue 11, Page(s) 3805–3816

Abstract: A key goal of synthetic biology is to engineer organisms that can use solar energy to convert ... ...

Abstract	A key goal of synthetic biology is to engineer organisms that can use solar energy to convert CO
MeSH term(s)	Rhodopsin/genetics ; Rhodopsin/metabolism ; Carbon Dioxide/metabolism ; Cupriavidus necator/genetics ; Cupriavidus necator/metabolism ; Autotrophic Processes ; Carbon/metabolism
Chemical Substances	Rhodopsin (9009-81-8) ; Carbon Dioxide (142M471B3J) ; Carbon (7440-44-0)
Language	English
Publishing date	2022-10-20
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ISSN	2161-5063
ISSN (online)	2161-5063
DOI	10.1021/acssynbio.2c00397
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Article: Impact of nZVI on the formation of aerobic granules, bacterial growth and nutrient removal using aerobic sequencing batch reactor

Eljamal, Ramadan / Kahraman, Inci / Eljamal, Osama / Thompson, Ian P / Maamoun, Ibrahim / Yilmaz, Gulsum

Environmental technology & innovation. 2020 Aug., v. 19

2020

Abstract: The aim of this study was to investigate the effect of nanoscale zero-valent iron (nZVI) on the formation of aerobic granules, nutrient removal and bacterial growth during the treatment process of the municipal wastewater. For this purpose, two ... ...

Abstract	The aim of this study was to investigate the effect of nanoscale zero-valent iron (nZVI) on the formation of aerobic granules, nutrient removal and bacterial growth during the treatment process of the municipal wastewater. For this purpose, two sequencing batch reactors (SBR) were simultaneously and automatically operated in a cyclic batch mode with four phases per cycle: feed, react, settle and decant. The sequancial operation of the reactors consisted four cycles per day and lasted for sixty days in which 10 mg/L of nZVI particles were added to the infflent of reactor 2. The reactors were fed with synthetic wastewater (3 liters per cycle) and acclimated with seed sludge collected from a full-scale municipal wastewater treatment plant in Istanbul. The effluent of the reactors was regularly analyzed for nitrate, nitrite, ammonia, phosphate and COD concentrations. In addtion to that, their removal pathways including the direct adsorption to nZVI, utilization by microorganisms and adsorption within the generated granules were discussed. The removal efficiency of COD, ammonia and phosphate kept increasing, and almost a complete removal was observed after the formation of aerobic granules on day 50. Furthermore, after the addition of nZVI to R2 on day 24th, the removal efficiency of ammonia, COD and phosphate slightly improved. The addition of nZVI stimulated the production of Extracellular Polymeric Substances (EPS) in R2 including protein and carbohydrate generation. NGS analysis showed that the addition of nZVI into R2 increased the growth rate of some bacterial species such as Rhizobiales and Xanthomonadales and decreased others such as Clostridiales, confirming that the effect of nZVI on the bacterial growth was genera dependent. The aerobic granules were successfully formed in the reactors in less than 50 days and the addition of nZVI improved to some extent the size and settling rate of the formed granules in R2.
Keywords	Clostridiales ; Rhizobiales ; Xanthomonadales ; adsorption ; ammonia ; bacterial growth ; batch systems ; carbohydrates ; environmental technology ; iron ; municipal wastewater ; nitrates ; nitrites ; phosphates ; polymers ; sludge ; wastewater treatment
Language	English
Dates of publication	2020-08
Publishing place	Elsevier B.V.
Document type	Article
Note	NAL-AP-2-clean
ISSN	2352-1864
DOI	10.1016/j.eti.2020.100911
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Genetic engineering biofilms in situ using ultrasound-mediated DNA delivery.

Ng, Chun Kiat / Putra, Samuel L / Kennerley, Joseph / Habgood, Robert / Roy, Ronald A / Raymond, Jason L / Thompson, Ian P / Huang, Wei E

Microbial biotechnology

2021 Volume 14, Issue 4, Page(s) 1580–1593

Abstract: The ability to directly modify native and established biofilms has enormous potential in understanding microbial ecology and application of biofilm in 'real-world' systems. However, efficient genetic transformation of established biofilms at any scale ... ...

Abstract	The ability to directly modify native and established biofilms has enormous potential in understanding microbial ecology and application of biofilm in 'real-world' systems. However, efficient genetic transformation of established biofilms at any scale remains challenging. In this study, we applied an ultrasound-mediated DNA delivery (UDD) technique to introduce plasmid to established non-competent biofilms in situ. Two different plasmids containing genes coding for superfolder green fluorescent protein (sfGFP) and the flavin synthesis pathway were introduced into established bacterial biofilms in microfluidic flow (transformation efficiency of 3.9 ± 0.3 × 10
MeSH term(s)	Bioelectric Energy Sources ; Biofilms ; DNA ; Genetic Engineering ; Shewanella/genetics
Chemical Substances	DNA (9007-49-2)
Language	English
Publishing date	2021-05-16
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2406063-X
ISSN	1751-7915 ; 1751-7915
ISSN (online)	1751-7915
ISSN	1751-7915
DOI	10.1111/1751-7915.13823
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Elevated intracellular cyclic-di-GMP level in Shewanella oneidensis increases expression of c-type cytochromes.

Ng, Chun Kiat / Xu, Jiabao / Cai, Zhao / Yang, Liang / Thompson, Ian P / Huang, Wei E / Cao, Bin

Microbial biotechnology

2020 Volume 13, Issue 6, Page(s) 1904–1916

Abstract: Electrochemically active biofilms are capable of exchanging electrons with solid electron acceptors and have many energy and environmental applications such as bioelectricity generation and environmental remediation. The performance of electrochemically ... ...

Abstract	Electrochemically active biofilms are capable of exchanging electrons with solid electron acceptors and have many energy and environmental applications such as bioelectricity generation and environmental remediation. The performance of electrochemically active biofilms is usually dependent on c-type cytochromes, while biofilm development is controlled by a signal cascade mediated by the intracellular secondary messenger bis-(3'-5') cyclic dimeric guanosine monophosphate (c-di-GMP). However, it is unclear whether there are any links between the c-di-GMP regulatory system and the expression of c-type cytochromes. In this study, we constructed a S. oneidensis MR-1 strain with a higher cytoplasmic c-di-GMP level by constitutively expressing a c-di-GMP synthase and it exhibited expected c-di-GMP-influenced traits, such as lowered motility and increased biofilm formation. Compared to MR-1 wild-type strain, the high c-di-GMP strain had a higher Fe(III) reduction rate (21.58 vs 11.88 pM of Fe(III)/h cell) and greater expression of genes that code for the proteins involved in the Mtr pathway, including CymA, MtrA, MtrB, MtrC and OmcA. Furthermore, single-cell Raman microspectroscopy (SCRM) revealed a great increase of c-type cytochromes in the high c-di-GMP strain as compared to MR-1 wild-type strain. Our results reveal for the first time that the c-di-GMP regulation system indirectly or directly positively regulates the expression of cytochromes involved in the extracellular electron transport (EET) in S. oneidensis, which would help to understand the regulatory mechanism of c-di-GMP on electricity production in bacteria.
MeSH term(s)	Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Biofilms ; Cyclic GMP/analogs & derivatives ; Cytochromes/genetics ; Ferric Compounds/metabolism ; Gene Expression Regulation, Bacterial ; Shewanella/genetics ; Shewanella/metabolism
Chemical Substances	Bacterial Proteins ; Cytochromes ; Ferric Compounds ; bis(3',5')-cyclic diguanylic acid (61093-23-0) ; Cyclic GMP (H2D2X058MU)
Language	English
Publishing date	2020-07-30
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2406063-X
ISSN	1751-7915 ; 1751-7915
ISSN (online)	1751-7915
ISSN	1751-7915
DOI	10.1111/1751-7915.13636
Database	MEDical Literature Analysis and Retrieval System OnLINE

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