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Lyakhovchenko NS, Travkin VM, Senchenkov VY, Solyanikova IP. Bacterial Violacein: Properties, Biosynthesis and Application Prospects. APPL BIOCHEM MICRO+ 2022. [DOI: 10.1134/s0003683822060072] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/07/2022]
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Tong Y, Zhou J, Zhang L, Xu P. A Golden-Gate Based Cloning Toolkit to Build Violacein Pathway Libraries in Yarrowia lipolytica. ACS Synth Biol 2021; 10:115-124. [PMID: 33399465 PMCID: PMC7812646 DOI: 10.1021/acssynbio.0c00469] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
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Violacein is a naturally
occurring anticancer therapeutic compound
with deep purple color. In this work, we harnessed the modular and
combinatorial feature of a Golden Gate assembly method to construct
a library of violacein producing strains in the oleaginous yeast Yarrowia lipolytica, where each gene in the violacein pathway
was controlled by three different promoters with varying transcriptional
strength. After optimizing the linker sequence and the Golden Gate
reaction, we achieved high transformation efficiency and obtained
a panel of representative Y. lipolytica recombinant
strains. By evaluating the gene expression profile of 21 yeast strains,
we obtained three colorful compounds in the violacein pathway: green
(proviolacein), purple (violacein), and pink (deoxyviolacein). Our
results indicated that strong expression of VioB, VioC, and VioD favors violacein production
with minimal byproduct deoxyvioalcein in Y. lipolytica, and high deoxyviolacein production was found strongly associated
with the weak expression of VioD. By further optimizing
the carbon to nitrogen ratio and cultivation pH, the maximum violacein
reached 70.04 mg/L with 5.28 mg/L of deoxyviolacein in shake flasks.
Taken together, the development of Golden Gate cloning protocols to
build combinatorial pathway libraries, and the optimization of culture
conditions set a new stage for accessing the violacein pathway intermediates
and engineering violacein production in Y. lipolytica. This work further expands the toolbox to engineering Y.
lipolytica as an industrially relevant host for plant or
marine natural product biosynthesis.
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Affiliation(s)
- Yingjia Tong
- School of Biotechnology, Jiangnan University, Wuxi, 214122, China
- Chemical, Biochemical and Environmental Engineering, University of Maryland Baltimore County, Baltimore, Maryland 21250, United States
| | - Jingwen Zhou
- School of Biotechnology, Jiangnan University, Wuxi, 214122, China
| | - Liang Zhang
- School of Biotechnology, Jiangnan University, Wuxi, 214122, China
| | - Peng Xu
- Chemical, Biochemical and Environmental Engineering, University of Maryland Baltimore County, Baltimore, Maryland 21250, United States
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Egorova DA, Voronina OL, Solovyev AI, Kunda MS, Aksenova EI, Ryzhova NN, Danilova KV, Rykova VS, Scherbakova AA, Semenov AN, Polyakov NB, Grumov DA, Shevlyagina NV, Dolzhikova IV, Romanova YM, Gintsburg AL. Integrated into Environmental Biofilm Chromobacterium vaccinii Survives Winter with Support of Bacterial Community. Microorganisms 2020; 8:microorganisms8111696. [PMID: 33143246 PMCID: PMC7716238 DOI: 10.3390/microorganisms8111696] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Revised: 09/30/2020] [Accepted: 10/29/2020] [Indexed: 12/27/2022] Open
Abstract
Chromobacterium species are common in tropical and subtropical zones in environmental samples according to numerous studies. Here, we describe an environmental case of resident Chromobacterium vaccinii in biofilms associated with Carex spp. roots in Moscow region, Russia (warm-summer humid continental climate zone). We performed broad characterization of individual properties as well as surrounding context for better understanding of the premise of C. vaccinii survival during the winter season. Genome properties of isolated strains propose some insights into adaptation to habit and biofilm mode of life, including social cheaters carrying ΔluxR mutation. Isolated C. vaccinii differs from previously described strains in some biochemical properties and some basic characteristics like fatty acid composition as well as unique genome features. Despite potential to modulate membrane fluidity and presence of several genes responsible for cold shock response, isolated C. vaccinii did not survive during exposure to 4 °C, while in the complex biofilm sample, it was safely preserved for at least half a year in vitro at 4 °C. The surrounding bacterial community within the same biofilm with C. vaccinii represented a series of psychrophilic bacterial species, which may share resistance to low temperatures with other species within biofilm and provide C. vaccinii an opportunity to survive during the cold winter season.
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Affiliation(s)
- Daria A. Egorova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
- Correspondence: (D.A.E.); (O.L.V.); Tel.: +7-985-312-53-30 (D.A.E.); +7-916-224-86-83 (O.L.V.)
| | - Olga L. Voronina
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
- Correspondence: (D.A.E.); (O.L.V.); Tel.: +7-985-312-53-30 (D.A.E.); +7-916-224-86-83 (O.L.V.)
| | - Andrey I. Solovyev
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Marina S. Kunda
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Ekaterina I. Aksenova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Natalia N. Ryzhova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Ksenya V. Danilova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Valentina S. Rykova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Anastasya A. Scherbakova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Andrey N. Semenov
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Nikita B. Polyakov
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
- Vernadsky Institute of Geochemistry and Analytical Chemistry of Russian Academy of Sciences, 119991 Moscow, Russia
| | - Daniil A. Grumov
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Natalia V. Shevlyagina
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Inna V. Dolzhikova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
| | - Yulia M. Romanova
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
- Sechenov First Moscow State Medical University of the Ministry of Health of the Russian Federation, 119991 Moscow, Russia
| | - Alexander L. Gintsburg
- N.F. Gamaleya National Research Center of Epidemiology and Microbiology, Ministry of Health, 123098 Moscow, Russia; (A.I.S.); (M.S.K.); (E.I.A.); (N.N.R.); (K.V.D.); (V.S.R.); (A.A.S.); (A.N.S.); (N.B.P.); (D.A.G.); (N.V.S.); (I.V.D.); (Y.M.R.); (A.L.G.)
- Sechenov First Moscow State Medical University of the Ministry of Health of the Russian Federation, 119991 Moscow, Russia
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Plakunov VK, Zhurina MV, Gannesen AV, Mart’yanov SV, Nikolaev YA. Antibiofilm Agents: Therminological Ambiguity and Strategy for Search. Microbiology (Reading) 2020. [DOI: 10.1134/s0026261719060146] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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