1
|
Ali I, Ullah S, Iqbal A, Quan Z, Liang H, Ahmad S, Muhammad I, Guo Z, Wei S, Jiang L. Combined application of biochar and nitrogen fertilizer promotes the activity of starch metabolism enzymes and the expression of related genes in rice in a dual cropping system. BMC PLANT BIOLOGY 2021; 21:600. [PMID: 34922452 PMCID: PMC8684189 DOI: 10.1186/s12870-021-03384-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Accepted: 12/03/2021] [Indexed: 05/20/2023]
Abstract
BACKGROUND Overuse of chemical fertilizer highly influences grain filling rate and quality of rice grain. Biochar is well known for improving plant growth and grain yield under lower chemical fertilization. Therefore field trials were conducted in the early and late seasons of 2019 at Guangxi University, China to investigate the effects of combined biochar (B) and nitrogen (N) application on rice yield and yield components. There were a total of eight treatments: N1B0, 135 kg N ha- 1+ 0 t B ha- 1; N2B0,180 kg N ha- 1+ 0 t B ha- 1; N1B1,135 kg N ha- 1+ 10 t B ha- 1; N1B2,135kg N ha- 1+ 20 t B ha- 1; N1B3,135 kg N ha- 1+ 30 t B ha- 1; N2B1,180 kg N ha- 1+ 10 t B ha- 1; N2B2,180 kg N ha- 1+ 20 t B ha- 1; and N2B3,180 kg N ha- 1+ 30 t B ha- 1. RESULTS Biochar application at 30 t ha- 1combined with low N application (135 kg ha- 1) increased the activity of starch-metabolizing enzymes (SMEs) during the early and late seasons compared with treatments without biochar. The grain yield, amylose concentration, and starch content of rice were increased in plots treated with 30 t B ha-1and low N. RT-qPCR analysis showed that biochar addition combined with N fertilizer application increased the expression of AGPS2b, SSS1, GBSS1, and GBSE11b, which increased the activity of SMEs during the grain-filling period. CONCLUSION Our results suggest that the use of 20 to 30 t B ha- 1coupled with 135 kg N ha- 1 is optimal for improving the grain yield and quality of rice.
Collapse
Affiliation(s)
- Izhar Ali
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Saif Ullah
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Anas Iqbal
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
- College of Life Science and Technology, Guangxi University, Nanning, China
| | - Zhao Quan
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - He Liang
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Shakeel Ahmad
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Ihsan Muhammad
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Zixiong Guo
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Shangqing Wei
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China
| | - Ligeng Jiang
- College of Agriculture, Guangxi University, Nanning, 530004, Guangxi, China.
| |
Collapse
|
2
|
Pan H, Wang J, Wu H, Li Z, Lian J. Synthetic biology toolkit for engineering Cupriviadus necator H16 as a platform for CO 2 valorization. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:212. [PMID: 34736496 PMCID: PMC8570001 DOI: 10.1186/s13068-021-02063-0] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2021] [Accepted: 10/25/2021] [Indexed: 06/09/2023]
Abstract
BACKGROUND CO2 valorization is one of the effective methods to solve current environmental and energy problems, in which microbial electrosynthesis (MES) system has proved feasible and efficient. Cupriviadus necator (Ralstonia eutropha) H16, a model chemolithoautotroph, is a microbe of choice for CO2 conversion, especially with the ability to be employed in MES due to the presence of genes encoding [NiFe]-hydrogenases and all the Calvin-Benson-Basham cycle enzymes. The CO2 valorization strategy will make sense because the required hydrogen can be produced from renewable electricity independently of fossil fuels. MAIN BODY In this review, synthetic biology toolkit for C. necator H16, including genetic engineering vectors, heterologous gene expression elements, platform strain and genome engineering, and transformation strategies, is firstly summarized. Then, the review discusses how to apply these tools to make C. necator H16 an efficient cell factory for converting CO2 to value-added products, with the examples of alcohols, fatty acids, and terpenoids. The review is concluded with the limitation of current genetic tools and perspectives on the development of more efficient and convenient methods as well as the extensive applications of C. necator H16. CONCLUSIONS Great progress has been made on genetic engineering toolkit and synthetic biology applications of C. necator H16. Nevertheless, more efforts are expected in the near future to engineer C. necator H16 as efficient cell factories for the conversion of CO2 to value-added products.
Collapse
Affiliation(s)
- Haojie Pan
- Key Laboratory of Biomass Chemical Engineering of Ministry of Education, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, 310027, China
| | - Jia Wang
- Key Laboratory of Biomass Chemical Engineering of Ministry of Education, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, 310027, China
| | - Haoliang Wu
- Key Laboratory of Biomass Chemical Engineering of Ministry of Education, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, 310027, China
| | - Zhongjian Li
- Key Laboratory of Biomass Chemical Engineering of Ministry of Education, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, 310027, China
| | - Jiazhang Lian
- Key Laboratory of Biomass Chemical Engineering of Ministry of Education, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou, 310027, China.
- Hangzhou Global Scientific and Technological Innovation Center, Zhejiang University, Hangzhou, 310027, China.
| |
Collapse
|
3
|
Azubuike CC, Gatehouse AMR, Howard TP. pCAT vectors overcome inefficient electroporation of Cupriavidus necator H16. N Biotechnol 2021; 65:20-30. [PMID: 34333160 DOI: 10.1016/j.nbt.2021.07.003] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Revised: 07/06/2021] [Accepted: 07/24/2021] [Indexed: 10/20/2022]
Abstract
Cupriavidus necator H16 is a chemolithoautotroph with a range of industrial biotechnological applications. Advanced metabolic engineering in the bacterium, however, is impeded by low transformation efficiency, making it difficult to introduce and screen new genetic functions rapidly. This study systematically characterized the broad host range plasmids pBHR1, pBBR1MCS-2 and pKT230 used frequently for C. necator engineering. Kanamycin resistance cassette (KanR) and a truncated sequence of the replication origin (Rep) are contributing factors to C. necator low electroporation transformation efficiency. Consequently, a series of modular minimal plasmids, named pCAT, were constructed. pCAT vectors transform C. necator H16 with a > 3000-fold higher efficiency (up to 107 CFU/μg DNA) compared to control plasmids. Further, pCAT vectors are highly stable, expressing reporter proteins over several days of serial cultivation in the absence of selection pressure. Finally, they can be assembled rapidly from PCR or synthesized DNA fragments, and restriction-ligation reactions can be efficiently electroporated directly into C. necator, circumventing the requirement to use Escherichia coli for plasmid maintenance or propagation. This study demonstrates that an understanding of the behaviour of the constituent parts of plasmids in a host is key to efficient propagation of genetic information, while offering new methods for engineering a bacterium with desirable industrial biotechnological features.
Collapse
Affiliation(s)
- Christopher C Azubuike
- School of Natural and Environmental Sciences, Faculty of Science, Agriculture and Engineering, Newcastle University, Newcastle-upon-Tyne, NE1 7RX, United Kingdom; Department of Microbiology, Faculty of Science, University of Port Harcourt, East-West Road, P.M.B. 5323, Choba, Port Harcourt, Rivers State, Nigeria
| | - Angharad M R Gatehouse
- School of Natural and Environmental Sciences, Faculty of Science, Agriculture and Engineering, Newcastle University, Newcastle-upon-Tyne, NE1 7RX, United Kingdom
| | - Thomas P Howard
- School of Natural and Environmental Sciences, Faculty of Science, Agriculture and Engineering, Newcastle University, Newcastle-upon-Tyne, NE1 7RX, United Kingdom.
| |
Collapse
|
4
|
Ren J, Na D, Yoo SM. Optimization of chemico-physical transformation methods for various bacterial species using diverse chemical compounds and nanomaterials. J Biotechnol 2018; 288:55-60. [DOI: 10.1016/j.jbiotec.2018.11.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2018] [Revised: 10/31/2018] [Accepted: 11/04/2018] [Indexed: 01/13/2023]
|
5
|
Aboulnaga EA, Zou H, Selmer T, Xian M. Development of a plasmid-based, tunable, tolC-derived expression system for application in Cupriavidus necator H16. J Biotechnol 2018; 274:15-27. [PMID: 29549002 DOI: 10.1016/j.jbiotec.2018.03.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Revised: 02/24/2018] [Accepted: 03/11/2018] [Indexed: 12/13/2022]
Abstract
Cupriavidus necator H16 gains increasing attention in microbial research and biotechnological application due to its diverse metabolic features. Here we present a tightly controlled gene expression system for C. necator including the pBBR1-vector that contains hybrid promoters originating from C. necator native tolC-promoter in combination with a synthetic tetO-operator. The expression of the reporter gene from these plasmids relies on the addition of the exogenous inducer doxycycline (dc). The novel expression system offers a combination of advantageous features as; (i) high and dose-dependent recombinant protein production, (ii) tight control with a high dynamic range (On/Off ratio), which makes it applicable for harmful pathways or for toxic protein production, (iii) comparable cheap inducer (doxycycline, dc), (iv) effective at low inducer concentration, that makes it useful for large scale application, (v) rapid, diffusion controlled induction, and (vi) the inducer does not interfere within the cell metabolism. As applications of the expression system in C. necator H16, the growth ability on glycerol was enhanced by constitutively expressing the E. coli glpk gene-encoding for glycerol kinase. Likewise, we used the system to overcome the expression toxicity of mevalonate pathway in C. necator H16. With this system, the mevalonate-genes were successfully introduced in the host and the recombinant strains could produce about 200 mg/l mevalonate.
Collapse
Affiliation(s)
- Elhussiny A Aboulnaga
- CAS Key Laboratory of Bio-based Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 266101 Qingdao, China; Mansoura University, Faculty of Agriculture, 35516 Mansoura, Egypt.
| | - Huibin Zou
- CAS Key Laboratory of Bio-based Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 266101 Qingdao, China; College of Chemical Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - Thorsten Selmer
- Aachen University of Applied Sciences, Campus Juelich, Department of Chemistry and Biotechnology, Heinrich-Mussmann-Str.1, D-52428 Juelich, Germany
| | - Mo Xian
- CAS Key Laboratory of Bio-based Materials, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, 266101 Qingdao, China.
| |
Collapse
|
6
|
Raberg M, Volodina E, Lin K, Steinbüchel A. Ralstonia eutrophaH16 in progress: Applications beside PHAs and establishment as production platform by advanced genetic tools. Crit Rev Biotechnol 2017; 38:494-510. [DOI: 10.1080/07388551.2017.1369933] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Matthias Raberg
- Institut für Molekulare Mikrobiologie und Biotechnologie, Westfälische Wilhelms-Universität Münster, Münster, Germany
| | - Elena Volodina
- Institut für Molekulare Mikrobiologie und Biotechnologie, Westfälische Wilhelms-Universität Münster, Münster, Germany
| | - Kaichien Lin
- Institut für Molekulare Mikrobiologie und Biotechnologie, Westfälische Wilhelms-Universität Münster, Münster, Germany
| | - Alexander Steinbüchel
- Institut für Molekulare Mikrobiologie und Biotechnologie, Westfälische Wilhelms-Universität Münster, Münster, Germany
- Environmental Science Department, King Abdulaziz University, Jeddah, Saudi Arabia
| |
Collapse
|
7
|
Tee KL, Grinham J, Othusitse AM, González-Villanueva M, Johnson AO, Wong TS. An Efficient Transformation Method for the Bioplastic-Producing “Knallgas” Bacterium Ralstonia eutropha
H16. Biotechnol J 2017; 12. [DOI: 10.1002/biot.201700081] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2017] [Revised: 07/14/2017] [Indexed: 01/19/2023]
Affiliation(s)
- Kang Lan Tee
- Department of Chemical and Biological Engineering, ChELSI Institute and Advanced Biomanufacturing Centre; The University of Sheffield; Sheffield United Kingdom
| | - James Grinham
- Department of Chemical and Biological Engineering, ChELSI Institute and Advanced Biomanufacturing Centre; The University of Sheffield; Sheffield United Kingdom
| | - Arona M. Othusitse
- Department of Chemical and Biological Engineering, ChELSI Institute and Advanced Biomanufacturing Centre; The University of Sheffield; Sheffield United Kingdom
| | - Miriam González-Villanueva
- Department of Chemical and Biological Engineering, ChELSI Institute and Advanced Biomanufacturing Centre; The University of Sheffield; Sheffield United Kingdom
| | - Abayomi O. Johnson
- Department of Chemical and Biological Engineering, ChELSI Institute and Advanced Biomanufacturing Centre; The University of Sheffield; Sheffield United Kingdom
| | - Tuck Seng Wong
- Department of Chemical and Biological Engineering, ChELSI Institute and Advanced Biomanufacturing Centre; The University of Sheffield; Sheffield United Kingdom
| |
Collapse
|
8
|
Satagopan S, Tabita FR. RubisCO selection using the vigorously aerobic and metabolically versatile bacterium Ralstonia eutropha. FEBS J 2016; 283:2869-80. [PMID: 27261087 DOI: 10.1111/febs.13774] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Revised: 05/06/2016] [Accepted: 06/03/2016] [Indexed: 11/29/2022]
Abstract
UNLABELLED Recapturing atmospheric CO2 is key to reducing global warming and increasing biological carbon availability. Ralstonia eutropha is a biotechnologically useful aerobic bacterium that uses the Calvin-Benson-Bassham (CBB) cycle and the enzyme ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO) for CO2 utilization, suggesting that it may be a useful host to bioselect RubisCO molecules with improved CO2 -capture capabilities. A host strain of R. eutropha was constructed for this purpose after deleting endogenous genes encoding two related RubisCOs. This strain could be complemented for CO2 -dependent growth by introducing native or heterologous RubisCO genes. Mutagenesis and suppressor selection identified amino acid substitutions in a hydrophobic region that specifically influences RubisCO's interaction with its substrates, particularly O2 , which competes with CO2 at the active site. Unlike most RubisCOs, the R. eutropha enzyme has evolved to retain optimal CO2 -fixation rates in a fast-growing host, despite the presence of high levels of competing O2 . Yet its structure-function properties resemble those of several commonly found RubisCOs, including the higher plant enzymes, allowing strategies to engineer analogous enzymes. Because R. eutropha can be cultured rapidly under harsh environmental conditions (e.g., with toxic industrial flue gas), in the presence of near saturation levels of oxygen, artificial selection and directed evolution studies in this organism could potentially impact efforts toward improving RubisCO-dependent biological CO2 utilization in aerobic environments. ENZYMES d-ribulose 1,5-bisphosphate carboxylase/oxygenase, EC 4.1.1.39; phosphoribulokinase, EC 2.7.1.19.
Collapse
Affiliation(s)
- Sriram Satagopan
- Department of Microbiology, The Ohio State University, Columbus, OH, USA
| | - F Robert Tabita
- Department of Microbiology, The Ohio State University, Columbus, OH, USA
| |
Collapse
|
9
|
Nybo SE, Khan NE, Woolston BM, Curtis WR. Metabolic engineering in chemolithoautotrophic hosts for the production of fuels and chemicals. Metab Eng 2015; 30:105-120. [PMID: 25959019 DOI: 10.1016/j.ymben.2015.04.008] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2015] [Revised: 04/06/2015] [Accepted: 04/29/2015] [Indexed: 12/19/2022]
Abstract
The ability of autotrophic organisms to fix CO2 presents an opportunity to utilize this 'greenhouse gas' as an inexpensive substrate for biochemical production. Unlike conventional heterotrophic microorganisms that consume carbohydrates and amino acids, prokaryotic chemolithoautotrophs have evolved the capacity to utilize reduced chemical compounds to fix CO2 and drive metabolic processes. The use of chemolithoautotrophic hosts as production platforms has been renewed by the prospect of metabolically engineered commodity chemicals and fuels. Efforts such as the ARPA-E electrofuels program highlight both the potential and obstacles that chemolithoautotrophic biosynthetic platforms provide. This review surveys the numerous advances that have been made in chemolithoautotrophic metabolic engineering with a focus on hydrogen oxidizing bacteria such as the model chemolithoautotrophic organism (Ralstonia), the purple photosynthetic bacteria (Rhodobacter), and anaerobic acetogens. Two alternative strategies of microbial chassis development are considered: (1) introducing or enhancing autotrophic capabilities (carbon fixation, hydrogen utilization) in model heterotrophic organisms, or (2) improving tools for pathway engineering (transformation methods, promoters, vectors etc.) in native autotrophic organisms. Unique characteristics of autotrophic growth as they relate to bioreactor design and process development are also discussed in the context of challenges and opportunities for genetic manipulation of organisms as production platforms.
Collapse
Affiliation(s)
- S Eric Nybo
- Department of Pharmaceutical Sciences, College of Pharmacy, Ferris State University, Big Rapids, MI, United States
| | - Nymul E Khan
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, United States
| | - Benjamin M Woolston
- Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, MA, United States
| | - Wayne R Curtis
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, United States.
| |
Collapse
|