1
|
Messner K, Yurkov V. Abundance, Characterization and Diversity of Culturable Anoxygenic Phototrophic Bacteria in Manitoban Marshlands. Microorganisms 2024; 12:1007. [PMID: 38792836 PMCID: PMC11123896 DOI: 10.3390/microorganisms12051007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2024] [Revised: 05/10/2024] [Accepted: 05/14/2024] [Indexed: 05/26/2024] Open
Abstract
Marshes are an important ecosystem, acting as a biodiversity hotspot, a carbon sink and a bioremediation site, breaking down anthropogenic waste such as antibiotics, metals and fertilizers. Due to their participation in these metabolic activities and their capability to contribute to primary productivity, the microorganisms in such habitats have become of interest to investigate. Since Proteobacteria were previously found to be abundant and the waters are well aerated and organic-rich, this study on the presence of anoxygenic phototrophic bacteria, purple non-sulfur bacteria and aerobic anoxygenic phototrophs in marshes was initiated. One sample was collected at each of the seven Manitoban sites, and anoxygenic phototrophs were cultivated and enumerated. A group of 14 strains, which represented the phylogenetic diversity of the isolates, was physiologically investigated further. Aerobic anoxygenic phototrophs and purple non-sulfur bacteria were present at each location, and they belonged to the α- and β-Proteobacteria subphyla. Some were closely related to known heavy metal reducers (Brevundimonas) and xenobiotic decomposers (Novosphingobium and Sphingomonas). All were able to synthesize the photosynthetic complexes aerobically. This research highlights the diversity of and the potential contributions that anoxygenic phototrophs make to the essential functions taking place in wetlands.
Collapse
Affiliation(s)
| | - Vladimir Yurkov
- Department of Microbiology, University of Manitoba, Winnipeg, MB R3T 2N2, Canada;
| |
Collapse
|
2
|
Fukala I, Kučera I. Natural Polyhydroxyalkanoates-An Overview of Bacterial Production Methods. Molecules 2024; 29:2293. [PMID: 38792154 PMCID: PMC11124392 DOI: 10.3390/molecules29102293] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2024] [Revised: 05/05/2024] [Accepted: 05/10/2024] [Indexed: 05/26/2024] Open
Abstract
Polyhydroxyalkanoates (PHAs) are intracellular biopolymers that microorganisms use for energy and carbon storage. They are mechanically similar to petrochemical plastics when chemically extracted, but are completely biodegradable. While they have potential as a replacement for petrochemical plastics, their high production cost using traditional carbon sources remains a significant challenge. One potential solution is to modify heterotrophic PHA-producing strains to utilize alternative carbon sources. An alternative approach is to utilize methylotrophic or autotrophic strains. This article provides an overview of bacterial strains employed for PHA production, with a particular focus on those exhibiting the highest PHA content in dry cell mass. The strains are organized according to their carbon source utilization, encompassing autotrophy (utilizing CO2, CO) and methylotrophy (utilizing reduced single-carbon substrates) to heterotrophy (utilizing more traditional and alternative substrates).
Collapse
Affiliation(s)
| | - Igor Kučera
- Department of Biochemistry, Faculty of Science, Masaryk University, Kotlářská 267/2, CZ-61137 Brno, Czech Republic;
| |
Collapse
|
3
|
Samal S, Pati S, Mohapatra S, Maity S, Tanaya K, Devadarshini D, Samantaray D. PHAs production by facultative anaerobic bacteria Bacillus cereus FM5 through submerged and solid-state fermentation under anoxic condition. Antonie Van Leeuwenhoek 2023; 116:521-529. [PMID: 37027093 DOI: 10.1007/s10482-023-01825-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 03/20/2023] [Indexed: 04/08/2023]
Abstract
PHAs (polyhydroxyalkanoates) are the bio-polyester synthesized by different aerobic and anaerobic bacteria as energy storage granule. However, its synthesis by anaerobes or facultative anaerobes is an imperative part of their physiology via assimilating broad range of substrates than aerobes. Thus, three Gram positive facultative anaerobic PHAs producers viz., Enterococcus sp. FM3, Actinomyces sp. CM4 and Bacillus sp. FM5 were selected. Among them, Bacillus sp. FM5 showed higher cell biomass production in MSM (mineral salt medium) comprised of glucose & peptone as carbon & nitrogen source at pH 9, temperature 37 °C, inoculum 10% and incubation period 72 h. Under optimized condition, Bacillus sp. FM5 produced 0.89 and 1.5 g l-1 of PHAs through submerged and solid-state fermentation in anoxic condition. In-silico analysis confirmed the facultative anaerobic PHAs producing bacteria as Bacillus cereus FM5. IR spectra of PHAs illustrated a strong absorption peak at 1718.50 cm-1 representing carbonyl ester (C=O) functional group of PHB (polyhydroxybutyrate), belonging to the family PHAs. It is the first report demonstrating PHAs production by Bacillus cereus FM5 in anoxic condition through different bioprocess technology, which may pave the way in the arena of further biopolymer research.
Collapse
Affiliation(s)
- Swati Samal
- Department of Microbiology, CBSH, OUAT, Bhubaneswar, Odisha, 751003, India
| | - Swayamsidha Pati
- Department of Microbiology, CBSH, OUAT, Bhubaneswar, Odisha, 751003, India
| | - Swati Mohapatra
- School of Science, Gujurat State Fertilizer and Chemical University, Fertilizer Nagar, Vigyan Bhavan, Vadodara, Gujurat, 391750, India
| | - Sudipta Maity
- BIRAC E-YUVA Center, GIET University, Gunupur, Odisha, India
| | - Ksheerabdhi Tanaya
- Department of Microbiology, CBSH, OUAT, Bhubaneswar, Odisha, 751003, India
| | | | | |
Collapse
|
4
|
Sujeeun LY, Goonoo N, Moutou KM, Baichoo S, Bhaw-Luximon A. Predictive modeling as a tool to assess polymer–polymer and polymer–drug interactions for tissue engineering applications. Macromol Res 2023. [DOI: 10.1007/s13233-023-00155-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/05/2023]
|
5
|
Christensen M, Chiciudean I, Jablonski P, Tanase AM, Shapaval V, Hansen H. Towards high-throughput screening (HTS) of polyhydroxyalkanoate (PHA) production via Fourier transform infrared (FTIR) spectroscopy of Halomonas sp. R5-57 and Pseudomonas sp. MR4-99. PLoS One 2023; 18:e0282623. [PMID: 36888636 PMCID: PMC9994712 DOI: 10.1371/journal.pone.0282623] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2022] [Accepted: 02/20/2023] [Indexed: 03/09/2023] Open
Abstract
High-throughput screening (HTS) methods for characterization of microbial production of polyhydroxyalkanoates (PHA) are currently under investigated, despite the advent of such systems in related fields. In this study, phenotypic microarray by Biolog PM1 screening of Halomonas sp. R5-57 and Pseudomonas sp. MR4-99 identified 49 and 54 carbon substrates to be metabolized by these bacteria, respectively. Growth on 15 (Halomonas sp. R5-57) and 14 (Pseudomonas sp. MR4-99) carbon substrates was subsequently characterized in 96-well plates using medium with low nitrogen concentration. Bacterial cells were then harvested and analyzed for putative PHA production using two different Fourier transform infrared spectroscopy (FTIR) systems. The FTIR spectra obtained from both strains contained carbonyl-ester peaks indicative of PHA production. Strain specific differences in the carbonyl-ester peak wavenumber indicated that the PHA side chain configuration differed between the two strains. Confirmation of short chain length PHA (scl-PHA) accumulation in Halomonas sp. R5-57 and medium chain length PHA (mcl-PHA) in Pseudomonas sp. MR4-99 was done using Gas Chromatography-Flame Ionization Detector (GC-FID) analysis after upscaling to 50 mL cultures supplemented with glycerol and gluconate. The strain specific PHA side chain configurations were also found in FTIR spectra of the 50 mL cultures. This supports the hypothesis that PHA was also produced in the cells cultivated in 96-well plates, and that the HTS approach is suitable for analysis of PHA production in bacteria. However, the carbonyl-ester peaks detected by FTIR are only indicative of PHA production in the small-scale cultures, and appropriate calibration and prediction models based on combining FTIR and GC-FID data needs to be developed and optimized by performing more extensive screenings and multivariate analyses.
Collapse
Affiliation(s)
- Mikkel Christensen
- Department of Chemistry, UiT The Arctic University of Norway, Tromso, Norway
- * E-mail: (MC); (HH)
| | - Iulia Chiciudean
- Department of Genetics, Faculty of Biology, University of Bucharest, Bucharest, Romania
| | | | - Ana-Maria Tanase
- Department of Genetics, Faculty of Biology, University of Bucharest, Bucharest, Romania
| | - Volha Shapaval
- Faculty of Science and Technology, Norwegian University of Life Sciences, Aas, Norway
| | - Hilde Hansen
- Department of Chemistry, UiT The Arctic University of Norway, Tromso, Norway
- * E-mail: (MC); (HH)
| |
Collapse
|
6
|
Anh DH, Dumri K, Yen LTH, Punyodom W. The earth-star basidiomycetous mushroom Astraeus odoratus produces polyhydroxyalkanoates during cultivation on malt extract. Arch Microbiol 2022; 205:34. [PMID: 36542149 DOI: 10.1007/s00203-022-03297-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 05/20/2022] [Accepted: 10/19/2022] [Indexed: 12/24/2022]
Abstract
Polyhydroxyalkanoates (PHAs) including poly-3-hydroxybutyrate (P3HB) as secondary metabolisms were in vitro produced by the edible basidiomycetous mushroom Astraeus odoratus during its growth on malt agar extract. Various carbon and nitrogen sources containing cellulose, glucose, glycerol, rice straw powder, soybean meal and peptone were investigated for the growth of basidiomycetous mushrooms. During cultivation, the A. odoratus culture exudated the considerably extracellular fluid up to approx. 2.3 ml on 2% malt extract agar plate within 7 days. The chemical compounds of the exudated fluid were further investigated by Fourier-transform infrared spectroscopy (FTIR) and gas chromatography/mass spectrometry (GC/MS); and its morphology of the lyophilized sample was observed by scanning electron microscope (SEM). FTIR results showed the characteristic bands of OH at 3445 cm-1, CH/CH2/symmetric CH3 (stretch) at 2923 and 2852 cm-1, C=O at 1730 cm-1, asymmetric CH3 (bend) at 1454 and 1414 cm-1, C-O of COO- at 1396 cm-1 and C-O-C at 1223, 1160, 1116, 1058 and 1019 cm-1 which were similar to the absorptive characteristics of P3HB. Methyl ester derivatives of GC/MS results identified 7 compounds including: 3-hydroxybutanoic (monomer of PHB), aminobenzoic, salicylic, hexadecenoic, octadecadienoic, octadecenoic and octadecanoic acids. SEM images revealed a fibriform and porous materials. Hence, the occurrence of PHAs was first described in a basidiomycetous mushroom A. odoratus. Thus, PHAs could be found not only in bacteria and but also in basidiomycetous mushroom, which can be promising target for bioplastics and green environmental studies.
Collapse
Affiliation(s)
- Dau Hung Anh
- Center of Excellence in Materials Science and Technology, Chiang Mai University, Chiang Mai, 50200, Thailand.,Biogreen Material Research & Service Part., Ltd., Chiang Mai, 50140, Thailand
| | - Kanchana Dumri
- Center of Excellence in Materials Science and Technology, Chiang Mai University, Chiang Mai, 50200, Thailand.,Biogreen Material Research & Service Part., Ltd., Chiang Mai, 50140, Thailand.,Department of Chemistry, Faculty of Science, Chiang Mai University, 239 Huay Keaw Road, Suthep, Chiang Mai, 50200, Thailand
| | - Le Thi Hoang Yen
- Laboratory of Fungi Technology, Institute of Microbiology and Biotechnology, Vietnam National University, Hanoi, Vietnam
| | - Winita Punyodom
- Center of Excellence in Materials Science and Technology, Chiang Mai University, Chiang Mai, 50200, Thailand. .,Department of Chemistry, Faculty of Science, Chiang Mai University, 239 Huay Keaw Road, Suthep, Chiang Mai, 50200, Thailand.
| |
Collapse
|
7
|
Yabe S, Muto K, Abe K, Yokota A, Staudigel H, Tebo BM. Vulcanimicrobium alpinus gen. nov. sp. nov., the first cultivated representative of the candidate phylum "Eremiobacterota", is a metabolically versatile aerobic anoxygenic phototroph. ISME COMMUNICATIONS 2022; 2:120. [PMID: 37749227 PMCID: PMC9758169 DOI: 10.1038/s43705-022-00201-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Revised: 11/07/2022] [Accepted: 11/10/2022] [Indexed: 09/27/2023]
Abstract
The previously uncultured phylum "Candidatus Eremiobacterota" is globally distributed and often abundant in oligotrophic environments. Although it includes lineages with the genetic potential for photosynthesis, one of the most important metabolic pathways on Earth, the absence of pure cultures has limited further insights into its ecological and physiological traits. We report the first successful isolation of a "Ca. Eremiobacterota" strain from a fumarolic ice cave on Mt. Erebus volcano (Antarctica). Polyphasic analysis revealed that this organism is an aerobic anoxygenic photoheterotrophic bacterium with a unique lifestyle, including bacteriochlorophyll a production, CO2 fixation, a high CO2 requirement, and phototactic motility using type IV-pili, all of which are highly adapted to polar and fumarolic environments. The cells are rods or filaments with a vesicular type intracytoplasmic membrane system. The genome encodes novel anoxygenic Type II photochemical reaction centers and bacteriochlorophyll synthesis proteins, forming a deeply branched monophyletic clade distinct from known phototrophs. The first cultured strain of the eighth phototrophic bacterial phylum which we name Vulcanimicrobium alpinus gen. nov., sp. nov. advances our understanding of ecology and evolution of photosynthesis.
Collapse
Affiliation(s)
- Shuhei Yabe
- Department of Microbial Resources, Graduate School of Agricultural Sciences, Tohoku University, Sendai, Miyagi, 980-0845, Japan.
- Hazaka Plant Research Center, Kennan Eisei Kogyo Co., Ltd., Sendai, Miyagi, 989-1311, Japan.
| | - Kiyoaki Muto
- Department of Microbial Resources, Graduate School of Agricultural Sciences, Tohoku University, Sendai, Miyagi, 980-0845, Japan
| | - Keietsu Abe
- Department of Microbial Resources, Graduate School of Agricultural Sciences, Tohoku University, Sendai, Miyagi, 980-0845, Japan
| | - Akira Yokota
- Department of Microbial Resources, Graduate School of Agricultural Sciences, Tohoku University, Sendai, Miyagi, 980-0845, Japan
| | - Hubert Staudigel
- Institute of Geophysics and Planetary Physics, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, 92093, USA
| | - Bradley M Tebo
- Department of Chemistry, University of Washington, Box 351700, Seattle, WA, 98195, USA
| |
Collapse
|
8
|
Lascu I, Tănase AM, Jablonski P, Chiciudean I, Preda MI, Avramescu S, Irgum K, Stoica I. Revealing the Phenotypic and Genomic Background for PHA Production from Rapeseed-Biodiesel Crude Glycerol Using Photobacterium ganghwense C2.2. Int J Mol Sci 2022; 23:ijms232213754. [PMID: 36430242 PMCID: PMC9697146 DOI: 10.3390/ijms232213754] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2022] [Revised: 10/27/2022] [Accepted: 11/03/2022] [Indexed: 11/12/2022] Open
Abstract
Polyhydroxyalkanoates (PHA) are promising biodegradable and biocompatible bioplastics, and extensive knowledge of the employed bacterial strain's metabolic capabilities is necessary in choosing economically feasible production conditions. This study aimed to create an in-depth view of the utilization of Photobacterium ganghwense C2.2 for PHA production by linking a wide array of characterization methods: metabolic pathway annotation from the strain's complete genome, high-throughput phenotypic tests, and biomass analyses through plate-based assays and flask and bioreactor cultivations. We confirmed, in PHA production conditions, urea catabolization, fatty acid degradation and synthesis, and high pH variation and osmotic stress tolerance. With urea as a nitrogen source, pure and rapeseed-biodiesel crude glycerol were analyzed comparatively as carbon sources for fermentation at 20 °C. Flask cultivations yielded 2.2 g/L and 2 g/L PHA at 120 h, respectively, with molecular weights of 428,629 g/mol and 81,515 g/mol. Bioreactor batch cultivation doubled biomass accumulation (10 g/L and 13.2 g/L) in 48 h, with a PHA productivity of 0.133 g/(L·h) and 0.05 g/(L·h). Thus, phenotypic and genomic analyses determined the successful use of Photobacterium ganghwense C2.2 for PHA production using urea and crude glycerol and 20 g/L NaCl, without pH adjustment, providing the basis for a viable fermentation process.
Collapse
Affiliation(s)
- Irina Lascu
- Department of Genetics, Faculty of Biology, University of Bucharest, 050095 Bucharest, Romania
| | - Ana Maria Tănase
- Department of Genetics, Faculty of Biology, University of Bucharest, 050095 Bucharest, Romania
- Correspondence:
| | - Piotr Jablonski
- Department of Chemistry, Faculty of Science and Technology, Umeå University, S-90187 Umeå, Sweden
| | - Iulia Chiciudean
- Department of Genetics, Faculty of Biology, University of Bucharest, 050095 Bucharest, Romania
| | - Maria Irina Preda
- Department of Genetics, Faculty of Biology, University of Bucharest, 050095 Bucharest, Romania
| | - Sorin Avramescu
- Department of Organic Chemistry, Biochemistry and Catalysis, Faculty of Chemistry, University of Bucharest, 030018 Bucharest, Romania
| | - Knut Irgum
- Department of Chemistry, Faculty of Science and Technology, Umeå University, S-90187 Umeå, Sweden
| | - Ileana Stoica
- Department of Genetics, Faculty of Biology, University of Bucharest, 050095 Bucharest, Romania
| |
Collapse
|
9
|
From Organic Wastes and Hydrocarbons Pollutants to Polyhydroxyalkanoates: Bioconversion by Terrestrial and Marine Bacteria. SUSTAINABILITY 2022. [DOI: 10.3390/su14148241] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The use of fossil-based plastics has become unsustainable because of the polluting production processes, difficulties for waste management sectors, and high environmental impact. Polyhydroxyalkanoates (PHA) are bio-based biodegradable polymers derived from renewable resources and synthesized by bacteria as intracellular energy and carbon storage materials under nutrients or oxygen limitation and through the optimization of cultivation conditions with both pure and mixed culture systems. The PHA properties are affected by the same principles of oil-derived polyolefins, with a broad range of compositions, due to the incorporation of different monomers into the polymer matrix. As a consequence, the properties of such materials are represented by a broad range depending on tunable PHA composition. Producing waste-derived PHA is technically feasible with mixed microbial cultures (MMC), since no sterilization is required; this technology may represent a solution for waste treatment and valorization, and it has recently been developed at the pilot scale level with different process configurations where aerobic microorganisms are usually subjected to a dynamic feeding regime for their selection and to a high organic load for the intracellular accumulation of PHA. In this review, we report on studies on terrestrial and marine bacteria PHA-producers. The available knowledge on PHA production from the use of different kinds of organic wastes, and otherwise, petroleum-polluted natural matrices coupling bioremediation treatment has been explored. The advancements in these areas have been significant; they generally concern the terrestrial environment, where pilot and industrial processes are already established. Recently, marine bacteria have also offered interesting perspectives due to their advantageous effects on production practices, which they can relieve several constraints. Studies on the use of hydrocarbons as carbon sources offer evidence for the feasibility of the bioconversion of fossil-derived plastics into bioplastics.
Collapse
|
10
|
Christensen M, Jablonski P, Altermark B, Irgum K, Hansen H. High natural PHA production from acetate in Cobetia sp. MC34 and Cobetia marina DSM 4741 T and in silico analyses of the genus specific PhaC 2 polymerase variant. Microb Cell Fact 2021; 20:225. [PMID: 34930259 PMCID: PMC8686332 DOI: 10.1186/s12934-021-01713-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 11/28/2021] [Indexed: 01/09/2023] Open
Abstract
BACKGROUND Several members of the bacterial Halomonadacea family are natural producers of polyhydroxyalkanoates (PHA), which are promising materials for use as biodegradable bioplastics. Type-strain species of Cobetia are designated PHA positive, and recent studies have demonstrated relatively high PHA production for a few strains within this genus. Industrially relevant PHA producers may therefore be present among uncharacterized or less explored members. In this study, we characterized PHA production in two marine Cobetia strains. We further analyzed their genomes to elucidate pha genes and metabolic pathways which may facilitate future optimization of PHA production in these strains. RESULTS Cobetia sp. MC34 and Cobetia marina DSM 4741T were mesophilic, halotolerant, and produced PHA from four pure substrates. Sodium acetate with- and without co-supplementation of sodium valerate resulted in high PHA production titers, with production of up to 2.5 g poly(3-hydroxybutyrate) (PHB)/L and 2.1 g poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV)/L in Cobetia sp. MC34, while C. marina DSM 4741T produced 2.4 g PHB/L and 3.7 g PHBV/L. Cobetia marina DSM 4741T also showed production of 2.5 g PHB/L from glycerol. The genome of Cobetia sp. MC34 was sequenced and phylogenetic analyses revealed closest relationship to Cobetia amphilecti. PHA biosynthesis genes were located at separate loci similar to the arrangement in other Halomonadacea. Further genome analyses revealed some differences in acetate- and propanoate metabolism genes between the two strains. Interestingly, only a single PHA polymerase gene (phaC2) was found in Cobetia sp. MC34, in contrast to two copies (phaC1 and phaC2) in C. marina DSM 4741T. In silico analyses based on phaC genes show that the PhaC2 variant is conserved in Cobetia and contains an extended C-terminus with a high isoelectric point and putative DNA-binding domains. CONCLUSIONS Cobetia sp. MC34 and C. marina DSM 4741T are natural producers of PHB and PHBV from industrially relevant pure substrates including acetate. However, further scale up, optimization of growth conditions, or use of metabolic engineering is required to obtain industrially relevant PHA production titers. The putative role of the Cobetia PhaC2 variant in DNA-binding and the potential implications remains to be addressed by in vitro- or in vivo methods.
Collapse
Affiliation(s)
- Mikkel Christensen
- Department of Chemistry, UiT-The Arctic University of Norway, 9037 Tromsø, Norway
| | - Piotr Jablonski
- Department of Chemistry, Umeå University, 90187 Umeå, Sweden
| | - Bjørn Altermark
- Department of Chemistry, UiT-The Arctic University of Norway, 9037 Tromsø, Norway
| | - Knut Irgum
- Department of Chemistry, Umeå University, 90187 Umeå, Sweden
| | - Hilde Hansen
- Department of Chemistry, UiT-The Arctic University of Norway, 9037 Tromsø, Norway
| |
Collapse
|
11
|
Lascu I, Mereuță I, Chiciudean I, Hansen H, Avramescu SM, Tănase A, Stoica I. Complete genome sequence of Photobacterium ganghwense C2.2: A new polyhydroxyalkanoate production candidate. Microbiologyopen 2021; 10:e1182. [PMID: 33970538 PMCID: PMC8087987 DOI: 10.1002/mbo3.1182] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Revised: 03/12/2021] [Accepted: 03/15/2021] [Indexed: 12/30/2022] Open
Abstract
Polyhydroxyalkanoates (PHAs) are biodegradable bioplastics that can be manufactured sustainably and represent a promising green alternative to petrochemical-based plastics. Here, we describe the complete genome of a new marine PHA-producing bacterium-Photobacterium ganghwense (strain C2.2), which we have isolated from the Black Sea seashore. This new isolate is psychrotolerant and accumulates PHA when glycerol is provided as the main carbon source. Transmission electron microscopy, specific staining with Nile Red visualized via epifluorescence microscopy and gas chromatography analysis confirmed the accumulation of PHA. This is the only PHA-producing Photobacterium for which we now have a complete genome sequence, allowing us to investigate the pathways for PHA production and other secondary metabolite synthesis pathways. The de novo assembly genome, obtained using open-source tools, comprises two chromosomes (3.5, 2 Mbp) and a megaplasmid (202 kbp). We identify the entire PHA synthesis gene cluster that encodes a class I PHA synthase, a phasin, a 3-ketothiolase, and an acetoacetyl-CoA reductase. No conventional PHA depolymerase was identified in strain C2.2, but a putative lipase with extracellular amorphous PHA depolymerase activity was annotated, suggesting that C2.2 is unable to degrade intracellular PHA. A complete pathway for the conversion of glycerol to acetyl-CoA was annotated, in accordance with its ability to convert glycerol to PHA. Several secondary metabolite biosynthetic gene clusters and a low number of genes involved in antibiotic resistance and virulence were also identified, indicating the strain's suitability for biotechnological applications.
Collapse
Affiliation(s)
- Irina Lascu
- Department of GeneticsFaculty of BiologyUniversity of BucharestBucharestRomania
| | - Ioana Mereuță
- Department of GeneticsFaculty of BiologyUniversity of BucharestBucharestRomania
| | - Iulia Chiciudean
- Department of GeneticsFaculty of BiologyUniversity of BucharestBucharestRomania
| | - Hilde Hansen
- Department of ChemistryFaculty of Science and TechnologyUiT The Arctic University of NorwayTromsøNorway
| | - Sorin Marius Avramescu
- Department of Organic Chemistry, Biochemistry and CatalysisFaculty of ChemistryUniversity of BucharestBucharestRomania
| | - Ana‐Maria Tănase
- Department of GeneticsFaculty of BiologyUniversity of BucharestBucharestRomania
| | - Ileana Stoica
- Department of GeneticsFaculty of BiologyUniversity of BucharestBucharestRomania
| |
Collapse
|
12
|
de Paula CBC, de Paula-Elias FC, Rodrigues MN, Coelho LF, de Oliveira NML, de Almeida AF, Contiero J. Polyhydroxyalkanoate Synthesis by Burkholderia glumae into a Sustainable Sugarcane Biorefinery Concept. Front Bioeng Biotechnol 2021; 8:631284. [PMID: 33520976 PMCID: PMC7838591 DOI: 10.3389/fbioe.2020.631284] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2020] [Accepted: 12/15/2020] [Indexed: 11/21/2022] Open
Abstract
Polyhydroxyalkanoate (PHA) bioplastic was synthesized by Burkholderia glumae MA13 from carbon sources and industrial byproducts related to sugarcane biorefineries: sucrose, xylose, molasses, vinasse, bagasse hydrolysate, yeast extract, yeast autolysate, and inactivated dry yeast besides different inorganic nitrogen sources. Sugarcane molasses free of pre-treatment was the best carbon source, even compared to pure sucrose, with intracellular polymer accumulation values of 41.1–46.6% cell dry weight. Whereas, xylose and bagasse hydrolysate were poor inducers of microbial growth and polymer synthesis, the addition of 25% (v/v) sugarcane vinasse to the culture media containing molasses was not deleterious and resulted in a statistically similar maximum polymer content of 44.8% and a maximum PHA yield of 0.18 g/g, at 34°C and initial pH of 6.5, which is economic and ecologically interesting to save water required for the industrial processes and especially to offer a fermentative recycling for this final byproduct from bioethanol industry, as an alternative to its inappropriate disposal in water bodies and soil contamination. Ammonium sulfate was better even than tested organic nitrogen sources to trigger the PHA synthesis with polymer content ranging from 29.7 to 44.8%. GC-MS analysis showed a biopolymer constituted mainly of poly(3-hydroxybutyrate) although low fractions of 3-hydroxyvalerate monomer were achieved, which were not higher than 1.5 mol% free of copolymer precursors. B. glumae MA13 has been demonstrated to be adapted to synthesize bioplastics from different sugarcane feedstocks and corroborates to support a biorefinery concept with value-added green chemicals for the sugarcane productive chain with additional ecologic benefits into a sustainable model.
Collapse
Affiliation(s)
| | | | | | | | | | - Alex Fernando de Almeida
- Graduate Program on Food Science and Technology, Federal University of Tocantins, Gurupi, Brazil
| | - Jonas Contiero
- Institute for Research in Bioenergy, São Paulo State University, Rio Claro, Brazil.,Institute of Biosciences, São Paulo State University, Rio Claro, Brazil
| |
Collapse
|
13
|
George DM, Vincent AS, Mackey HR. An overview of anoxygenic phototrophic bacteria and their applications in environmental biotechnology for sustainable Resource recovery. BIOTECHNOLOGY REPORTS (AMSTERDAM, NETHERLANDS) 2020; 28:e00563. [PMID: 33304839 PMCID: PMC7714679 DOI: 10.1016/j.btre.2020.e00563] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/16/2020] [Revised: 10/12/2020] [Accepted: 11/18/2020] [Indexed: 12/14/2022]
Abstract
Anoxygenic phototrophic bacteria (APB) are a phylogenetically diverse group of organisms that can harness solar energy for their growth and metabolism. These bacteria vary broadly in terms of their metabolism as well as the composition of their photosynthetic apparatus. Unlike oxygenic phototrophic bacteria such as algae and cyanobacteria, APB can use both organic and inorganic electron donors for light-dependent fixation of carbon dioxide without generating oxygen. Their versatile metabolism, ability to adapt in extreme conditions, low maintenance cost and high biomass yield make APB ideal for wastewater treatment, resource recovery and in the production of high value substances. This review highlights the advantages of APB over algae and cyanobacteria, and their applications in photo-bioelectrochemical systems, production of poly-β-hydroxyalkanoates, single-cell protein, biofertilizers and pigments. The ecology of ABP, their distinguishing factors, various physiochemical parameters governing the production of high-value substances and future directions of APB utilization are also discussed.
Collapse
Key Words
- ALA, 5-Aminolevulinic acid
- APB, Anoxygenic phototrophic bacteria
- Anoxygenic phototrophic bacteria (APB)
- BChl, Bacteriochlorophyll
- BES, Bioelectrochemical systems
- BPV, Biophotovoltaic
- BPh, Bacteriopheophytin
- Bacteriochlorophyll (BChl)
- Chl, Chlorophyll
- CoQ10, Coenzyme Q10
- DET, Direct electron transfer
- DNA, Deoxyribonucleic acid
- DO, Dissolved oxygen
- DXP, 1 deoxy-d-xylulose 5-phosphate
- FPP, Farnesyl pyrophosphate
- Fe-S, Iron-Sulfur
- GNSB, Green non sulfur bacteria
- GSB, Green sulfur bacteria
- IPP, Isopentenyl pyrophosphate isomerase
- LED, light emitting diode
- LH2, light-harvesting component II
- MFC, Microbial fuel cell
- MVA, Mevalonate
- PH3B, Poly-3-hydroxybutyrate
- PHA, Poly-β-hydroxyalkanoates
- PHB, Poly-β-hydroxybutyrate
- PNSB, Purple non sulfur bacteria
- PPB, Purple phototrophic bacteria
- PSB, Purple sulfur bacteria
- Pheo-Q, Pheophytin-Quinone
- Photo-BES, Photosynthetic bioelectrochemical systems
- Photo-MFC, Photo microbial fuel cell
- Poly-β-hydroxyalkanoates (PHA)
- Purple phototrophic bacteria (PPB)
- Resource recovery
- RuBisCO, Ribulose-1,5-biphosphate carboxylase/oxygenase
- SCP, Single-cell protein
- SOB, Sulfide oxidizing bacteria
- SRB, Sulfate reducing bacteria
- Single-cell proteins (SCP)
Collapse
Affiliation(s)
- Drishya M. George
- College of Health and Life Sciences, Hamad Bin Khalifa University, Qatar Foundation, Doha, Qatar
| | - Annette S. Vincent
- College of Health and Life Sciences, Hamad Bin Khalifa University, Qatar Foundation, Doha, Qatar
- Biological Sciences Program, Carnegie Mellon University in Qatar, Qatar
| | - Hamish R. Mackey
- College of Health and Life Sciences, Hamad Bin Khalifa University, Qatar Foundation, Doha, Qatar
- Division of Sustainable Development, College of Science and Engineering, Hamad Bin Khalifa University, Qatar Foundation, Doha, Qatar
| |
Collapse
|
14
|
Kutscha R, Pflügl S. Microbial Upgrading of Acetate into Value-Added Products-Examining Microbial Diversity, Bioenergetic Constraints and Metabolic Engineering Approaches. Int J Mol Sci 2020; 21:ijms21228777. [PMID: 33233586 PMCID: PMC7699770 DOI: 10.3390/ijms21228777] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Revised: 10/29/2020] [Accepted: 11/18/2020] [Indexed: 01/20/2023] Open
Abstract
Ecological concerns have recently led to the increasing trend to upgrade carbon contained in waste streams into valuable chemicals. One of these components is acetate. Its microbial upgrading is possible in various species, with Escherichia coli being the best-studied. Several chemicals derived from acetate have already been successfully produced in E. coli on a laboratory scale, including acetone, itaconic acid, mevalonate, and tyrosine. As acetate is a carbon source with a low energy content compared to glucose or glycerol, energy- and redox-balancing plays an important role in acetate-based growth and production. In addition to the energetic challenges, acetate has an inhibitory effect on microorganisms, reducing growth rates, and limiting product concentrations. Moreover, extensive metabolic engineering is necessary to obtain a broad range of acetate-based products. In this review, we illustrate some of the necessary energetic considerations to establish robust production processes by presenting calculations of maximum theoretical product and carbon yields. Moreover, different strategies to deal with energetic and metabolic challenges are presented. Finally, we summarize ways to alleviate acetate toxicity and give an overview of process engineering measures that enable sustainable acetate-based production of value-added chemicals.
Collapse
|
15
|
Suzuki M, Tachibana Y, Kasuya KI. Biodegradability of poly(3-hydroxyalkanoate) and poly(ε-caprolactone) via biological carbon cycles in marine environments. Polym J 2020. [DOI: 10.1038/s41428-020-00396-5] [Citation(s) in RCA: 55] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
AbstractApproximately 4.8–12.7 million tons of plastic waste has been estimated to be discharged into marine environments annually by wind and river currents. The Ellen MacArthur Foundation warns that the total weight of plastic waste in the oceans will exceed the total weight of fish in 2050 if the environmental runoff of plastic continues at the current rate. Hence, biodegradable plastics are attracting attention as a solution to the problems caused by plastic waste. Among biodegradable plastics, polyhydroxyalkanoates (PHAs) and poly(ε-caprolactone) (PCL) are particularly noteworthy because of their excellent marine biodegradability. In this review, the biosynthesis of PHA and cutin, a natural analog of PCL, and the biodegradation of PHA and PCL in carbon cycles in marine ecosystems are discussed. PHA is biosynthesized and biodegraded by various marine microbes in a wide range of marine environments, including coastal, shallow-water, and deep-sea environments. Marine cutin is biosynthesized by marine plants or obtained from terrestrial environments, and PCL and cutin are biodegraded by cutin hydrolytic enzyme-producing microbes in broad marine environments. Thus, biological carbon cycles for PHA and PCL exist in the marine environment, which would allow materials made of PHA and PCL to be quickly mineralized in marine environments.
Collapse
|
16
|
Optimization of the culture conditions for production of Polyhydroxyalkanoate and its characterization from a new Bacillus cereus sp. BNPI-92 strain, isolated from plastic waste dumping yard. Int J Biol Macromol 2020; 156:1064-1080. [DOI: 10.1016/j.ijbiomac.2019.11.138] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Revised: 11/16/2019] [Accepted: 11/17/2019] [Indexed: 11/20/2022]
|
17
|
Metagenomic and Metaproteomic Insights into Photoautotrophic and Heterotrophic Interactions in a Synechococcus Culture. mBio 2020; 11:mBio.03261-19. [PMID: 32071270 PMCID: PMC7029141 DOI: 10.1128/mbio.03261-19] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
The high complexity of in situ ecosystems renders it difficult to study marine microbial photoautotroph-heterotroph interactions. Two-member coculture systems of picocyanobacteria and single heterotrophic bacterial strains have been thoroughly investigated. However, in situ interactions comprise far more diverse heterotrophic bacterial associations with single photoautotrophic organisms. In the present study, combined metagenomic and metaproteomic data supplied the metabolic potentials and activities of uncultured dominant bacterial populations in the coculture system. The results of this study shed light on the nature of interactions between photoautotrophs and heterotrophs, improving our understanding of the complexity of in situ environments. Microbial photoautotroph-heterotroph interactions underlie marine food webs and shape ecosystem diversity and structure in upper ocean environments. Here, bacterial community composition, lifestyle preference, and genomic- and proteomic-level metabolic characteristics were investigated for an open ocean Synechococcus ecotype and its associated heterotrophs over 91 days of cocultivation. The associated heterotrophic bacterial assembly mostly constituted five classes, including Flavobacteria, Bacteroidetes, Phycisphaerae, Gammaproteobacteria, and Alphaproteobacteria. The seven most abundant taxa/genera comprised >90% of the total heterotrophic bacterial community, and five of these displayed distinct lifestyle preferences (free-living or attached) and responses to Synechococcus growth phases. Six high-quality genomes, including Synechococcus and the five dominant heterotrophic bacteria, were reconstructed. The only primary producer of the coculture system, Synechococcus, displayed metabolic processes primarily involved in inorganic nutrient uptake, photosynthesis, and organic matter biosynthesis and release. Two of the flavobacterial populations, Muricauda and Winogradskyella, and an SM1A02 population, displayed preferences for initial degradation of complex compounds and biopolymers, as evinced by high abundances of TonB-dependent transporters (TBDTs), glycoside hydrolase, and peptidase proteins. Polysaccharide utilization loci present in the flavobacterial genomes influence their lifestyle preferences and close associations with phytoplankton. In contrast, the alphaproteobacterium Oricola sp. population mainly utilized low-molecular-weight dissolved organic carbon (DOC) through ATP-binding cassette (ABC), tripartite ATP-independent periplasmic (TRAP), and tripartite tricarboxylate transporter (TTT) transport systems. The heterotrophic bacterial populations exhibited complementary mechanisms for degrading Synechococcus-derived organic matter and driving nutrient cycling. In addition to nutrient exchange, removal of reactive oxygen species and vitamin trafficking might also contribute to the maintenance of the Synechococcus-heterotroph coculture system and the interactions shaping the system.
Collapse
|
18
|
Ranaivoarisoa TO, Singh R, Rengasamy K, Guzman MS, Bose A. Towards sustainable bioplastic production using the photoautotrophic bacterium Rhodopseudomonas palustris TIE-1. J Ind Microbiol Biotechnol 2019; 46:1401-1417. [PMID: 30927110 PMCID: PMC6791910 DOI: 10.1007/s10295-019-02165-7] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2018] [Accepted: 03/23/2019] [Indexed: 12/22/2022]
Abstract
Bacterial synthesis of polyhydroxybutyrates (PHBs) is a potential approach for producing biodegradable plastics. This study assessed the ability of Rhodopseudomonas palustris TIE-1 to produce PHBs under various conditions. We focused on photoautotrophy using a poised electrode (photoelectroautotrophy) or ferrous iron (photoferroautotrophy) as electron donors. Growth conditions were tested with either ammonium chloride or dinitrogen gas as the nitrogen source. Although TIE-1's capacity to produce PHBs varied fairly under different conditions, photoelectroautotrophy and photoferroautotrophy showed the highest PHB electron yield and the highest specific PHB productivity, respectively. Gene expression analysis showed that there was no differential expression in PHB biosynthesis genes. This suggests that the variations in PHB accumulation might be post-transcriptionally regulated. This is the first study to systematically quantify the amount of PHB produced by a microbe via photoelectroautotrophy and photoferroautotrophy. This work could lead to sustainable bioproduction using abundant resources such as light, electricity, iron, and carbon dioxide.
Collapse
Affiliation(s)
- Tahina Onina Ranaivoarisoa
- Department of Biology, Washington University in St. Louis, One Brookings Drive, St. Louis, MO, 63130, USA
| | - Rajesh Singh
- Department of Biology, Washington University in St. Louis, One Brookings Drive, St. Louis, MO, 63130, USA
| | - Karthikeyan Rengasamy
- Department of Biology, Washington University in St. Louis, One Brookings Drive, St. Louis, MO, 63130, USA
| | - Michael S Guzman
- Department of Biology, Washington University in St. Louis, One Brookings Drive, St. Louis, MO, 63130, USA
| | - Arpita Bose
- Department of Biology, Washington University in St. Louis, One Brookings Drive, St. Louis, MO, 63130, USA.
| |
Collapse
|
19
|
An investigation for recovery of polyhydroxyalkanoates (PHA) from Bacillus sp. BPPI-14 and Bacillus sp. BPPI-19 isolated from plastic waste landfill. Int J Biol Macromol 2019; 134:1085-1096. [DOI: 10.1016/j.ijbiomac.2019.05.155] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2019] [Revised: 05/01/2019] [Accepted: 05/21/2019] [Indexed: 11/21/2022]
|
20
|
Hassan EA, Abd‐Alla MH, Zohri AA, Ragaey MM, Ali SM. Production of butanol and polyhydroxyalkanoate from industrial waste by Clostridium beijerinckiiASU10. INTERNATIONAL JOURNAL OF ENERGY RESEARCH 2019; 43:3640-3652. [DOI: 10.1002/er.4514] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/29/2018] [Accepted: 02/26/2019] [Indexed: 09/02/2023]
Affiliation(s)
- Elhagag Ahmed Hassan
- Botany and Microbiology Department, Faculty of ScienceAssiut University Assiut Egypt
| | | | | | - Marwa M. Ragaey
- Botany Department, Faculty of ScienceNew Valley University El‐Kharja Egypt
| | - Shimaa Mohamed Ali
- Botany Department, Faculty of ScienceNew Valley University El‐Kharja Egypt
| |
Collapse
|
21
|
Zheng Q, Lu J, Wang Y, Jiao N. Genomic reconstructions and potential metabolic strategies of generalist and specialist heterotrophic bacteria associated with an estuarySynechococcusculture. FEMS Microbiol Ecol 2019; 95:5303724. [DOI: 10.1093/femsec/fiz017] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2018] [Accepted: 01/26/2019] [Indexed: 11/13/2022] Open
Affiliation(s)
- Qiang Zheng
- State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, People's Republic of China
- College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, People's Republic of China
| | - Jiayao Lu
- State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, People's Republic of China
- College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, People's Republic of China
| | - Yu Wang
- State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, People's Republic of China
- College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, People's Republic of China
| | - Nianzhi Jiao
- State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, People's Republic of China
- College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, People's Republic of China
| |
Collapse
|
22
|
Papageorgiou M, Tselios C, Varotsis C. Photosensitivity responses ofSagittula stellataprobed by FTIR, fluorescence and Raman microspectroscopy. RSC Adv 2019; 9:27391-27397. [PMID: 35529232 PMCID: PMC9070597 DOI: 10.1039/c9ra03630j] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2019] [Accepted: 08/26/2019] [Indexed: 12/05/2022] Open
Abstract
Raman, fluorescence and FTIR experiments of prestine Sagittula stellata and Sagittula stellata–metal ion complexes grown in light and in dark were performed to probe the photosensitivity response of the cellular components in the marine bacterium. In the presence of Cu(ii) and Zn(ii) the frequency shifts of PO2−, C–O–C and C–O–P vibrations indicate metal binding to nucleic acids, carbohydrates and polysaccharides. We assign the observed bands in the 514.1 nm Raman spectra of the prestine S. Stellata and of the extracted carotenoids to the C
Created by potrace 1.16, written by Peter Selinger 2001-2019
]]>
C and C–C stretching vibrations. The fluorescence excitation–emission matrix (EEM) of S. stellata in light, dark and in the presence of metal ions are reported and compared with the Raman and FTIR data. The novel ability of S. stellata although heterotrophic, to show light-dependent metal binding ability may be an important feature property that maintains a stable heterotroph–prototroph interaction and a dynamic system. Raman, fluorescence and FTIR experiments of prestine Sagittula stellata and Sagittula stellata–metal ion complexes grown in light and in dark were performed to probe the photosensitivity response of the cellular components in the marine bacterium.![]()
Collapse
Affiliation(s)
- Marios Papageorgiou
- Department of Environmental Science and Technology
- Cyprus University of Technology
- Lemesos
- Cyprus
| | - Charalampos Tselios
- Department of Environmental Science and Technology
- Cyprus University of Technology
- Lemesos
- Cyprus
| | - Constantinos Varotsis
- Department of Environmental Science and Technology
- Cyprus University of Technology
- Lemesos
- Cyprus
| |
Collapse
|
23
|
Soto LR, Byrne E, van Niel EWJ, Sayed M, Villanueva CC, Hatti-Kaul R. Hydrogen and polyhydroxybutyrate production from wheat straw hydrolysate using Caldicellulosiruptor species and Ralstonia eutropha in a coupled process. BIORESOURCE TECHNOLOGY 2019; 272:259-266. [PMID: 30352368 DOI: 10.1016/j.biortech.2018.09.142] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2018] [Revised: 09/27/2018] [Accepted: 09/28/2018] [Indexed: 06/08/2023]
Abstract
This report presents an integrated biorefinery concept in which wheat straw hydrolysate was treated with co-cultures of osmotolerant thermophilic bacterial strains, Caldicellulosiruptor saccharolyticus and C. owensensis to obtain hydrogen, while the liquid effluent containing acetate and residual glucose was used as feed for polyhydroxybutyrate (PHB) production by Ralstonia eutropha. The Caldicellulosiruptor spp. co-culture consumed 10.8 g/L of pretreated straw sugars, glucose and xylose, producing 134 mmol H2/L. PHB accumulation by R. eutropha was first studied in minimal salts medium using acetate with/without glucose as carbon source. Addition of salts promoted cell growth and PHB production in the effluent. Fed-batch cultivation in a nitrogen limited medium with 40% (v/v) aeration resulted in a cell density of 15.1 g/L with PHB content of 80.1% w/w and PHB concentration of 12.1 g/L, while 20% aeration gave a cell density of 11.3 g/L with 83.4% w/w PHB content and 9.4 g/L PHB concentration.
Collapse
Affiliation(s)
- Luis Romero Soto
- Biotechnology, Department of Chemistry, Center for Chemistry & Chemical Engineering, Lund University, Box 124, SE-221 00 Lund, Sweden; Instituto de Investigación y Desarrollo de Procesos Químicos(3), Facultad de Ingeniería, Universidad Mayor de San Andrés, P.O. Box 12958, La Paz, Bolivia
| | - Eoin Byrne
- Applied Microbiology, Department of Chemistry, Center for Chemistry & Chemical Engineering, Lund University, Box 124, SE-221 00 Lund, Sweden
| | - Ed W J van Niel
- Applied Microbiology, Department of Chemistry, Center for Chemistry & Chemical Engineering, Lund University, Box 124, SE-221 00 Lund, Sweden
| | - Mahmoud Sayed
- Biotechnology, Department of Chemistry, Center for Chemistry & Chemical Engineering, Lund University, Box 124, SE-221 00 Lund, Sweden
| | - Cristhian Carrasco Villanueva
- Instituto de Investigación y Desarrollo de Procesos Químicos(3), Facultad de Ingeniería, Universidad Mayor de San Andrés, P.O. Box 12958, La Paz, Bolivia
| | - Rajni Hatti-Kaul
- Biotechnology, Department of Chemistry, Center for Chemistry & Chemical Engineering, Lund University, Box 124, SE-221 00 Lund, Sweden.
| |
Collapse
|
24
|
Cristea A, Baricz A, Leopold N, Floare C, Borodi G, Kacso I, Tripon S, Bulzu P, Andrei A, Cadar O, Levei E, Banciu H. Polyhydroxybutyrate production by an extremely halotolerant
Halomonas elongata
strain isolated from the hypersaline meromictic Fără Fund Lake (Transylvanian Basin, Romania). J Appl Microbiol 2018; 125:1343-1357. [DOI: 10.1111/jam.14029] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Revised: 06/11/2018] [Accepted: 06/18/2018] [Indexed: 11/27/2022]
Affiliation(s)
- A. Cristea
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology Babeş‐Bolyai University Cluj‐Napoca Romania
- Molecular Biology Center, Institute for Interdisciplinary Research in Bio‐Nano‐Sciences Babeş‐Bolyai University Cluj‐Napoca Romania
| | - A. Baricz
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology Babeş‐Bolyai University Cluj‐Napoca Romania
- Department of Experimental Biology and Biochemistry National Institute of Research and Development for Biological Sciences, Institute of Biological Research Cluj‐Napoca Romania
| | - N. Leopold
- Department of Biomolecular Physics, Faculty of Physics Babeș‐Bolyai University Cluj‐Napoca Romania
| | - C.G. Floare
- Department of Biomolecular and Molecular Physics National Institute for Research and Development of Isotopic and Molecular Technologies Cluj‐Napoca Romania
| | - G. Borodi
- Department of Biomolecular and Molecular Physics National Institute for Research and Development of Isotopic and Molecular Technologies Cluj‐Napoca Romania
| | - I. Kacso
- Department of Biomolecular and Molecular Physics National Institute for Research and Development of Isotopic and Molecular Technologies Cluj‐Napoca Romania
| | - S. Tripon
- Electron Microscopy Center Babeș‐Bolyai University Cluj‐Napoca Romania
| | - P.A. Bulzu
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology Babeş‐Bolyai University Cluj‐Napoca Romania
- Molecular Biology Center, Institute for Interdisciplinary Research in Bio‐Nano‐Sciences Babeş‐Bolyai University Cluj‐Napoca Romania
| | - A.‐Ș. Andrei
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology Babeş‐Bolyai University Cluj‐Napoca Romania
- Department of Aquatic Microbial Ecology Institute of Hydrobiology, Biology Center of the Academy of Sciences of the Czech Republic České Budějovice Czech Republic
| | - O. Cadar
- INCDO‐INOE 2000 Research Institute for Analytical Instrumentation Cluj‐Napoca Romania
| | - E.A. Levei
- INCDO‐INOE 2000 Research Institute for Analytical Instrumentation Cluj‐Napoca Romania
| | - H.L. Banciu
- Department of Molecular Biology and Biotechnology, Faculty of Biology and Geology Babeş‐Bolyai University Cluj‐Napoca Romania
- Molecular Biology Center, Institute for Interdisciplinary Research in Bio‐Nano‐Sciences Babeş‐Bolyai University Cluj‐Napoca Romania
| |
Collapse
|
25
|
Dussud C, Hudec C, George M, Fabre P, Higgs P, Bruzaud S, Delort AM, Eyheraguibel B, Meistertzheim AL, Jacquin J, Cheng J, Callac N, Odobel C, Rabouille S, Ghiglione JF. Colonization of Non-biodegradable and Biodegradable Plastics by Marine Microorganisms. Front Microbiol 2018; 9:1571. [PMID: 30072962 PMCID: PMC6058052 DOI: 10.3389/fmicb.2018.01571] [Citation(s) in RCA: 123] [Impact Index Per Article: 20.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Accepted: 06/25/2018] [Indexed: 11/21/2022] Open
Abstract
Plastics are ubiquitous in the oceans and constitute suitable matrices for bacterial attachment and growth. Understanding biofouling mechanisms is a key issue to assessing the ecological impacts and fate of plastics in marine environment. In this study, we investigated the different steps of plastic colonization of polyolefin-based plastics, on the first one hand, including conventional low-density polyethylene (PE), additivated PE with pro-oxidant (OXO), and artificially aged OXO (AA-OXO); and of a polyester, poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV), on the other hand. We combined measurements of physical surface properties of polymers (hydrophobicity and roughness) with microbiological characterization of the biofilm (cell counts, taxonomic composition, and heterotrophic activity) using a wide range of techniques, with some of them used for the first time on plastics. Our experimental setup using aquariums with natural circulating seawater during 6 weeks allowed us to characterize the successive phases of primo-colonization, growing, and maturation of the biofilms. We highlighted different trends between polymer types with distinct surface properties and composition, the biodegradable AA-OXO and PHBV presenting higher colonization by active and specific bacteria compared to non-biodegradable polymers (PE and OXO). Succession of bacterial population occurred during the three colonization phases, with hydrocarbonoclastic bacteria being highly abundant on all plastic types. This study brings original data that provide new insights on the colonization of non-biodegradable and biodegradable polymers by marine microorganisms.
Collapse
Affiliation(s)
- Claire Dussud
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Cindy Hudec
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Matthieu George
- CNRS/UM, UMR5221, Laboratoire Charles Coulomb (L2C), Montpellier, France
| | - Pascale Fabre
- CNRS/UM, UMR5221, Laboratoire Charles Coulomb (L2C), Montpellier, France
| | - Perry Higgs
- Symphony Environmental Ltd., Hertfordshire, United Kingdom
| | - Stéphane Bruzaud
- Université de Bretagne-Sud, Institut de Recherche Dupuy de Lôme (IRDL), UMR CNRS 6027, Lorient Cedex, France
| | - Anne-Marie Delort
- CNRS, UMR6296, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), Université Clermont Auvergne, Clermont-Ferrand, France
| | - Boris Eyheraguibel
- CNRS, UMR6296, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand (ICCF), Université Clermont Auvergne, Clermont-Ferrand, France
| | - Anne-Leïla Meistertzheim
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Justine Jacquin
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Jingguang Cheng
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Nolwenn Callac
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Charlène Odobel
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| | - Sophie Rabouille
- CNRS, UPMC Univ Paris 06, UMR7093, Laboratoire d'Océanographie de Villefranche (LOV), Sorbonne Universités, Villefranche-sur-Mer, France
| | - Jean-François Ghiglione
- CNRS, UPMC Univ Paris 06, UMR7621, Laboratoire d'Océanographie Microbienne (LOMIC), Observatoire Océanologique de Banyuls, Sorbonne Université, Banyuls-sur-Mer, France
| |
Collapse
|
26
|
Tanadchangsaeng N, Kitmongkolpaisarn S, Boonyagul S, Koobkokkruad T. Chemomechanical and morphological properties with proliferation of keratinocyte cells of electrospun poyhydroxyalkanoate fibers incorporated with essential oil. POLYM ADVAN TECHNOL 2018. [DOI: 10.1002/pat.4348] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
| | | | - Sani Boonyagul
- Faculty of Biomedical Engineering; Rangsit University; Lak-Hok Pathumthani 12000 Thailand
| | - Thongchai Koobkokkruad
- Nanocosmeceutical laboratory, National Nanotechnology Center (NANOTEC); National Science and Technology Development Agency (NSTDA); Pathumthani 12120 Thailand
| |
Collapse
|
27
|
Characterization of polyhydroxyalkanoates produced by Synechocystis salina from digestate supernatant. Int J Biol Macromol 2017; 102:497-504. [DOI: 10.1016/j.ijbiomac.2017.04.054] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2016] [Accepted: 04/12/2017] [Indexed: 11/21/2022]
|
28
|
Bill N, Tomasch J, Riemer A, Müller K, Kleist S, Schmidt-Hohagen K, Wagner-Döbler I, Schomburg D. Fixation of CO 2 using the ethylmalonyl-CoA pathway in the photoheterotrophic marine bacterium Dinoroseobacter shibae. Environ Microbiol 2017; 19:2645-2660. [PMID: 28371065 DOI: 10.1111/1462-2920.13746] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2016] [Revised: 03/25/2017] [Accepted: 03/25/2017] [Indexed: 01/26/2023]
Abstract
The ability of aerobic anoxygenic photoheterotrophs (AAPs) to gain additional energy from sunlight represents a competitive advantage, especially in conditions where light has easy access or under environmental conditions may change quickly, such as those in the world´s oceans. However, the knowledge about the metabolic consequences of aerobic anoxygenic photosynthesis is very limited. Combining transcriptome and metabolome analyses, isotopic labelling techniques, measurements of growth, oxygen uptake rates, flow cytometry, and a number of other biochemical analytical techniques we obtained a comprehensive overview on the complex adaption of the marine bacterium Dinoroseobacter shibae DFL12T during transition from heterotrophy to photoheterotrophy (growth on succinate). Growth in light was characterized by reduced respiration, a decreased metabolic flux through the tricarboxylic acid (TCA) cycle and the assimilation of CO2 via an enhanced flux through the ethylmalonyl-CoA (EMC) pathway, which was shown to be connected to the serine metabolism. Adaptation to photoheterotrophy is mainly characterized by metabolic reactions caused by a surplus of reducing potential and might depend on genes located in one operon, encoding branching point enzymes of the EMC pathway, serine metabolism and the TCA cycle.
Collapse
Affiliation(s)
- Nelli Bill
- Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Rebenring 56, Braunschweig, D-38106, Germany
| | - Jürgen Tomasch
- Department of Microbial Communication, Helmholtz-Centre for Infection Research (HZI), Inhoffenstrasse 7, Braunschweig, D-38124, Germany
| | - Alexander Riemer
- Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Rebenring 56, Braunschweig, D-38106, Germany
| | - Katrin Müller
- Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Rebenring 56, Braunschweig, D-38106, Germany
| | - Sarah Kleist
- Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Rebenring 56, Braunschweig, D-38106, Germany
| | - Kerstin Schmidt-Hohagen
- Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Rebenring 56, Braunschweig, D-38106, Germany
| | - Irene Wagner-Döbler
- Department of Microbial Communication, Helmholtz-Centre for Infection Research (HZI), Inhoffenstrasse 7, Braunschweig, D-38124, Germany
| | - Dietmar Schomburg
- Institute for Biochemistry, Biotechnology and Bioinformatics, Technische Universität Braunschweig, Rebenring 56, Braunschweig, D-38106, Germany
| |
Collapse
|
29
|
Arshad A, Ashraf B, Ali I, Jamil N. Biosynthesis of polyhydroxyalkanoates from styrene by Enterobacter spp. isolated from polluted environment. ACTA ACUST UNITED AC 2017. [DOI: 10.1007/s11515-017-1446-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
|
30
|
Sathiyanarayanan G, Saibaba G, Kiran GS, Yang YH, Selvin J. Marine sponge-associated bacteria as a potential source for polyhydroxyalkanoates. Crit Rev Microbiol 2016; 43:294-312. [DOI: 10.1080/1040841x.2016.1206060] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Ganesan Sathiyanarayanan
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, South Korea
| | - Ganesan Saibaba
- Centre for Pheromone Technology, Department of Animal Science, School of Life Sciences, Bharathidasan University, Tiruchirappalli, India
| | - George Seghal Kiran
- Department of Food Science and Technology, Pondicherry University, Kalapet, India
| | - Yung-Hun Yang
- Department of Biological Engineering, College of Engineering, Konkuk University, Seoul, South Korea
- Microbial Carbohydrate Resource Bank, Konkuk University, Seoul, South Korea
| | - Joseph Selvin
- Department of Microbiology, Pondicherry University, Kalapet, India
| |
Collapse
|
31
|
Higuchi-Takeuchi M, Morisaki K, Numata K. A Screening Method for the Isolation of Polyhydroxyalkanoate-Producing Purple Non-sulfur Photosynthetic Bacteria from Natural Seawater. Front Microbiol 2016; 7:1509. [PMID: 27708640 PMCID: PMC5030216 DOI: 10.3389/fmicb.2016.01509] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Accepted: 09/09/2016] [Indexed: 11/23/2022] Open
Abstract
Polyhydroxyalkanoates (PHAs) are a family of biopolyesters accumulated by a variety of microorganisms as carbon and energy storage under starvation conditions. We focused on marine purple non-sulfur photosynthetic bacteria as host microorganisms for PHA production and developed a method for their isolation from natural seawater. To identify novel PHA-producing marine purple non-sulfur photosynthetic bacteria, natural seawaters were cultured in nutrient-rich medium for purple non-sulfur photosynthetic bacteria, and twelve pink- or red-pigmented colonies were picked up. Gas chromatography mass spectrometry analysis revealed that four isolates synthesized PHA at levels ranging from 0.5 to 24.4 wt% of cell dry weight. The 16S ribosomal RNA sequence analysis revealed that one isolate (HM2) showed 100% identity to marine purple non-sulfur photosynthetic bacteria. In conclusion, we have demonstrated in this study that PHA-producing marine purple non-sulfur photosynthetic bacteria can be isolated from natural seawater under nutrient-rich conditions.
Collapse
Affiliation(s)
- Mieko Higuchi-Takeuchi
- Enzyme Research Team, Biomass Engineering Research Division, RIKEN Center for Sustainable Resource Science Wako, Japan
| | - Kumiko Morisaki
- Enzyme Research Team, Biomass Engineering Research Division, RIKEN Center for Sustainable Resource Science Wako, Japan
| | - Keiji Numata
- Enzyme Research Team, Biomass Engineering Research Division, RIKEN Center for Sustainable Resource Science Wako, Japan
| |
Collapse
|
32
|
Microbial Surface Colonization and Biofilm Development in Marine Environments. Microbiol Mol Biol Rev 2015; 80:91-138. [PMID: 26700108 DOI: 10.1128/mmbr.00037-15] [Citation(s) in RCA: 462] [Impact Index Per Article: 51.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Biotic and abiotic surfaces in marine waters are rapidly colonized by microorganisms. Surface colonization and subsequent biofilm formation and development provide numerous advantages to these organisms and support critical ecological and biogeochemical functions in the changing marine environment. Microbial surface association also contributes to deleterious effects such as biofouling, biocorrosion, and the persistence and transmission of harmful or pathogenic microorganisms and their genetic determinants. The processes and mechanisms of colonization as well as key players among the surface-associated microbiota have been studied for several decades. Accumulating evidence indicates that specific cell-surface, cell-cell, and interpopulation interactions shape the composition, structure, spatiotemporal dynamics, and functions of surface-associated microbial communities. Several key microbial processes and mechanisms, including (i) surface, population, and community sensing and signaling, (ii) intraspecies and interspecies communication and interaction, and (iii) the regulatory balance between cooperation and competition, have been identified as critical for the microbial surface association lifestyle. In this review, recent progress in the study of marine microbial surface colonization and biofilm development is synthesized and discussed. Major gaps in our knowledge remain. We pose questions for targeted investigation of surface-specific community-level microbial features, answers to which would advance our understanding of surface-associated microbial community ecology and the biogeochemical functions of these communities at levels from molecular mechanistic details through systems biological integration.
Collapse
|
33
|
Microbial synthesis of polyhydroxyalkanoate using seaweed-derived crude levulinic acid as co-nutrient. Int J Biol Macromol 2015; 72:487-94. [DOI: 10.1016/j.ijbiomac.2014.08.037] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2014] [Revised: 08/14/2014] [Accepted: 08/20/2014] [Indexed: 11/18/2022]
|
34
|
Xiao N, Jiao N, Liu Y. In vivo and in vitro observations of polyhydroxybutyrate granules formed by Dinoroseobacter sp. JL 1447. Int J Biol Macromol 2014; 74:467-75. [PMID: 25498348 DOI: 10.1016/j.ijbiomac.2014.11.045] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2014] [Revised: 11/24/2014] [Accepted: 11/25/2014] [Indexed: 12/01/2022]
Abstract
Polyhydroxybutyrate (PHB) granules formed by a marine aerobic anoxygenic phototrophic bacterial strain Dinoroseobacter sp. JL 1447 were detected using transmission electron microscopy and atomic force microscopy. When Dinoroseobacter sp. JL 1447 was inoculated into a medium with glucose as the sole carbon source, the formation of PHB granules occurred and accumulated with incubation time, reaching their maximum in the stationary phase cultures. PHB granules, formed in the cytoplasm at the cell poles or future cell poles, were remobilized and used by the cells in late stationary complex cultures. When PHB granules formed, cell length elongated from 0.5 to 1.5 μm and spherical protrusions appeared on the cell surface. The French press method was used to break the cells and isolate the PHB granules. The freshly prepared and intact PHB granules were spherical with a soft, smooth outer envelope without visible substructures. Upon treating PHB granules with sodium dodecyl sulfate, the envelope was destroyed and nearly parted from the granules, and uniform, spherical structures with a central pore appeared on the granule surface.
Collapse
Affiliation(s)
- Na Xiao
- State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen 361102, China; Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, China
| | - Nianzhi Jiao
- State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen 361102, China.
| | - Yongqin Liu
- Key Laboratory of Tibetan Environment Changes and Land Surface Processes, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing 100085, China
| |
Collapse
|
35
|
Cervantes-Uc JM, Catzin J, Vargas I, Herrera-Kao W, Moguel F, Ramirez E, Rincón-Arriaga S, Lizama-Uc G. Biosynthesis and characterization of polyhydroxyalkanoates produced by an extreme halophilic bacterium, Halomonas nitroreducens, isolated from hypersaline ponds. J Appl Microbiol 2014; 117:1056-65. [PMID: 25048168 DOI: 10.1111/jam.12605] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2014] [Revised: 07/17/2014] [Accepted: 07/17/2014] [Indexed: 11/26/2022]
Abstract
AIMS Morphological, biochemical and genotypic characterization of a halophilic bacterium isolated from hypersaline ponds located at Las Coloradas (Río Lagartos, Yucatán, Mexico). Characterization of polymer produced by this strain was also performed. METHODS AND RESULTS Twenty strains were isolated from water samples of salt ponds and selected based on both morphological features and their PHA storage capacity, which were determined by SEM and staining methods with Nile red and Nile blue, respectively; strains were also analysed by the fluorescence imaging technique. Among them, JCCOL25.8 strain showed the highest production of PHA's reason why phenotypic and genotypic characterization was performed; this strain was identified as Halomonas nitroreducens. Polymer produced by this strain was characterized by FTIR, DSC, GPC and EDX spectroscopy. Results indicated that the biosynthesized polymer was polyhydroxybutyrate (PHB) which had a melting peak at 170°C and a crystallinity percentage of about 36%. CONCLUSIONS Based on phenotypic and genotypic aspects, JCCOL25.8 strain was identified as H. nitroreducens and it was capable to accumulate PHB. SIGNIFICANCE AND IMPACT OF THE STUDY To our knowledge, there is only one study published on the biosynthesis of PHA's by H. nitroreducens strains, although the characterization of the obtained polymer was not reported.
Collapse
Affiliation(s)
- J M Cervantes-Uc
- Centro de Investigación Científica de Yucatán, A.C., Unidad de Materiales, Mérida, Yucatán, México
| | | | | | | | | | | | | | | |
Collapse
|
36
|
Draft Genome Sequences of Two Marine Phototrophic Bacteria, Erythrobacter longus Strain DSM 6997 and Erythrobacter litoralis Strain DSM 8509. GENOME ANNOUNCEMENTS 2014; 2:2/4/e00677-14. [PMID: 25059862 PMCID: PMC4110220 DOI: 10.1128/genomea.00677-14] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Aerobic anoxygenic phototrophic bacteria (AAPB) are important functional groups and are widely distributed in the global upper ocean. Here we report the draft genomic sequences of two marine AAPB isolates belonging to the genus Erythrobacter, Erythrobacter longus strain DSM 6997 and Erythrobacter litoralis strain DSM 8509.
Collapse
|
37
|
Wang H, Tomasch J, Jarek M, Wagner-Döbler I. A dual-species co-cultivation system to study the interactions between Roseobacters and dinoflagellates. Front Microbiol 2014; 5:311. [PMID: 25009539 PMCID: PMC4069834 DOI: 10.3389/fmicb.2014.00311] [Citation(s) in RCA: 80] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2014] [Accepted: 06/06/2014] [Indexed: 11/29/2022] Open
Abstract
Some microalgae in nature live in symbiosis with microorganisms that can enhance or inhibit growth, thus influencing the dynamics of phytoplankton blooms. In spite of the great ecological importance of these interactions, very few defined laboratory systems are available to study them in detail. Here we present a co-cultivation system consisting of the toxic phototrophic dinoflagellate Prorocentrum minimum and the photoheterotrophic alphaproteobacterium Dinoroseobacter shibae. In a mineral medium lacking a carbon source, vitamins for the bacterium and the essential vitamin B12 for the dinoflagellate, growth dynamics reproducibly went from a mutualistic phase, where both algae and bacteria grow, to a pathogenic phase, where the algae are killed by the bacteria. The data show a “Jekyll and Hyde” lifestyle that had been proposed but not previously demonstrated. We used RNAseq and microarray analysis to determine which genes of D. shibae are transcribed and differentially expressed in a light dependent way at an early time-point of the co-culture when the bacterium grows very slowly. Enrichment of bacterial mRNA for transcriptome analysis was optimized, but none of the available methods proved capable of removing dinoflagellate ribosomal RNA completely. RNAseq showed that a phasin encoding gene (phaP1) which is part of the polyhydroxyalkanoate (PHA) metabolism operon represented approximately 10% of all transcripts. Five genes for aerobic anoxygenic photosynthesis were down-regulated in the light, indicating that the photosynthesis apparatus was functional. A betaine-choline-carnitine-transporter (BCCT) that may be used for dimethylsulfoniopropionate (DMSP) uptake was the highest up-regulated gene in the light. The data suggest that at this early mutualistic phase of the symbiosis, PHA degradation might be the main carbon and energy source of D. shibae, supplemented in the light by degradation of DMSP and aerobic anoxygenic photosynthesis.
Collapse
Affiliation(s)
- Hui Wang
- Helmholtz-Centre for Infection Research Braunschweig, Germany
| | - Jürgen Tomasch
- Helmholtz-Centre for Infection Research Braunschweig, Germany
| | - Michael Jarek
- Helmholtz-Centre for Infection Research Braunschweig, Germany
| | | |
Collapse
|
38
|
Laass S, Kleist S, Bill N, Drüppel K, Kossmehl S, Wöhlbrand L, Rabus R, Klein J, Rohde M, Bartsch A, Wittmann C, Schmidt-Hohagen K, Tielen P, Jahn D, Schomburg D. Gene regulatory and metabolic adaptation processes of Dinoroseobacter shibae DFL12T during oxygen depletion. J Biol Chem 2014; 289:13219-31. [PMID: 24648520 DOI: 10.1074/jbc.m113.545004] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023] Open
Abstract
Metabolic flexibility is the key to the ecological success of the marine Roseobacter clade bacteria. We investigated the metabolic adaptation and the underlying changes in gene expression of Dinoroseobacter shibae DFL12(T) to anoxic life by a combination of metabolome, proteome, and transcriptome analyses. Time-resolved studies during continuous oxygen depletion were performed in a chemostat using nitrate as the terminal electron acceptor. Formation of the denitrification machinery was found enhanced on the transcriptional and proteome level, indicating that D. shibae DFL12(T) established nitrate respiration to compensate for the depletion of the electron acceptor oxygen. In parallel, arginine fermentation was induced. During the transition state, growth and ATP concentration were found to be reduced, as reflected by a decrease of A578 values and viable cell counts. In parallel, the central metabolism, including gluconeogenesis, protein biosynthesis, and purine/pyrimidine synthesis was found transiently reduced in agreement with the decreased demand for cellular building blocks. Surprisingly, an accumulation of poly-3-hydroxybutanoate was observed during prolonged incubation under anoxic conditions. One possible explanation is the storage of accumulated metabolites and the regeneration of NADP(+) from NADPH during poly-3-hydroxybutanoate synthesis (NADPH sink). Although D. shibae DFL12(T) was cultivated in the dark, biosynthesis of bacteriochlorophyll was increased, possibly to prepare for additional energy generation via aerobic anoxygenic photophosphorylation. Overall, oxygen depletion led to a metabolic crisis with partly blocked pathways and the accumulation of metabolites. In response, major energy-consuming processes were reduced until the alternative respiratory denitrification machinery was operative.
Collapse
Affiliation(s)
- Sebastian Laass
- From the Institute of Microbiology, Technische Universität Braunschweig, Spielmannstrasse 7, D-38106 Braunschweig, Germany
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
39
|
Rex R, Bill N, Schmidt-Hohagen K, Schomburg D. Swimming in light: a large-scale computational analysis of the metabolism of Dinoroseobacter shibae. PLoS Comput Biol 2013; 9:e1003224. [PMID: 24098096 PMCID: PMC3789786 DOI: 10.1371/journal.pcbi.1003224] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2013] [Accepted: 07/31/2013] [Indexed: 01/26/2023] Open
Abstract
The Roseobacter clade is a ubiquitous group of marine α-proteobacteria. To gain insight into the versatile metabolism of this clade, we took a constraint-based approach and created a genome-scale metabolic model (iDsh827) of Dinoroseobacter shibae DFL12T. Our model is the first accounting for the energy demand of motility, the light-driven ATP generation and experimentally determined specific biomass composition. To cover a large variety of environmental conditions, as well as plasmid and single gene knock-out mutants, we simulated 391,560 different physiological states using flux balance analysis. We analyzed our results with regard to energy metabolism, validated them experimentally, and revealed a pronounced metabolic response to the availability of light. Furthermore, we introduced the energy demand of motility as an important parameter in genome-scale metabolic models. The results of our simulations also gave insight into the changing usage of the two degradation routes for dimethylsulfoniopropionate, an abundant compound in the ocean. A side product of dimethylsulfoniopropionate degradation is dimethyl sulfide, which seeds cloud formation and thus enhances the reflection of sunlight. By our exhaustive simulations, we were able to identify single-gene knock-out mutants, which show an increased production of dimethyl sulfide. In addition to the single-gene knock-out simulations we studied the effect of plasmid loss on the metabolism. Moreover, we explored the possible use of a functioning phosphofructokinase for D. shibae. The oceans are home to a large variety of microorganisms, which interact in several ways with world-wide metabolic cycles. A representative of an important group of marine bacteria called the Roseobacter clade is Dinoroseobacter shibae. This organism is known to use a variant of photosynthesis to obtain energy from light. Another feature of D. shibae and many other Roseobacters is the ability to degrade an abundant compound in the ocean called dimethylsulfoniopropionate. Importantly, one degradation pathway of dimethylsulfoniopropionate releases a side product, which affects climate by seeding cloud formation. In this work, we constructed a genome-scale metabolic model of D. shibae and carried out a detailed computational analysis of its metabolism. Our model simulates the light-harvesting capabilities of D. shibae and also accounts for the energy needed to swim. Thanks to our exhaustive simulations we were able to elucidate the effect of light on the growth of D. shibae, to study the consequences of genetic perturbations, and to identify mutants which produce more cloud-seeding compounds. Foremost, our computational results help to understand an important part of the complex processes in the ocean in greater detail. Besides, they can be a valuable guide for future wet-lab experiments.
Collapse
Affiliation(s)
- Rene Rex
- Department of Bioinformatics and Biochemistry, Technische Universität Braunschweig, Braunschweig, Germany
| | - Nelli Bill
- Department of Bioinformatics and Biochemistry, Technische Universität Braunschweig, Braunschweig, Germany
| | - Kerstin Schmidt-Hohagen
- Department of Bioinformatics and Biochemistry, Technische Universität Braunschweig, Braunschweig, Germany
| | - Dietmar Schomburg
- Department of Bioinformatics and Biochemistry, Technische Universität Braunschweig, Braunschweig, Germany
- * E-mail:
| |
Collapse
|
40
|
Biosynthesis of poly(3-hydroxybutyrate-co-3-hydroxyvalerate) with co-expressed propionate permease (prpP), beta-ketothiolase B (bktB), and propionate-CoA synthase (prpE) in Escherichia coli. Biochem Eng J 2013. [DOI: 10.1016/j.bej.2012.12.016] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
|
41
|
Kawase KYF, Luchese RH, Coelho GL. Micronized benzoic acid decreases the concentration necessary to preserve acidic beverages against Alicyclobacillus. J Appl Microbiol 2013; 115:466-74. [PMID: 23594315 DOI: 10.1111/jam.12227] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2012] [Revised: 03/29/2013] [Accepted: 04/14/2013] [Indexed: 11/28/2022]
Abstract
AIMS The aim of this study was a challenge testing the effect of lower concentrations of micronized benzoic acid against two strains of Alicyclobacillus. METHODS AND RESULTS The effect of micronized benzoic acid was compared with the usual levels of untreated commercial sodium benzoate and benzoic acid, at the challenge temperature of 45°C. The size of the benzoic acid particles was determined by scanning electron microscopy. The diameter of the micronized particles was around 10 μm with a maximum length of 200 μm, while the untreated preservative structures were irregular with lengths up to 500 μm. A continuous bactericidal effect against two Alicyclobacillus strains, throughout the 28-day period, was observed with 50 mg l(-1) of micronized benzoic acid, but when the untreated preservative was used, the same lethal effect was not achieved even after doubling its concentration. CONCLUSIONS The antimicrobial activity of benzoic acid was improved by micronization. The process proved to be an effective alternative to reduce the benzoic acid concentration necessary to ensure stability of an orange juice matrix. SIGNIFICANCE AND IMPACT OF THE STUDY The results proved that the micronization process represents an alternative to reduce the required food preservative concentration; this method increased the stability of the compound, which maintains its bioavailability.
Collapse
Affiliation(s)
- K Y F Kawase
- Laboratory of Separation Processes, Department of Chemical Engineering, Federal Rural University of Rio de Janeiro, Seropédica, Rio de Janeiro, Brazil
| | | | | |
Collapse
|
42
|
Mao Y, Wei J, Zheng Q, Xiao N, Li Q, Fu Y, Wang Y, Jiao N. Roseibacterium beibuensis sp. nov., a Novel Member of Roseobacter Clade Isolated from Beibu Gulf in the South China Sea. Curr Microbiol 2012; 65:568-74. [DOI: 10.1007/s00284-012-0192-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2012] [Accepted: 06/25/2012] [Indexed: 11/24/2022]
|
43
|
Abstract
The majority of marine dissolved organic carbon (DOC) is resistant to biological degradation and thus can remain in the water column for thousands of years, constituting carbon sequestration in the ocean. To date the origin of such recalcitrant DOC (RDOC) is unclear. A recently proposed conceptual framework, the microbial carbon pump (MCP), emphasizes the microbial transformation of organic carbon from labile to recalcitrant states. The MCP is concerned with both microbial uptakes and outputs of DOC compounds, covering a wide range from gene to ecosystem levels. In this minireview, the ATP binding cassette (ABC) transporter is used as an example for the microbial processing of DOC at the genetic level. The compositions of the ABC transporter genes of the two major marine bacterial clades Roseobacter and SAR11 demonstrate that they have distinct patterns in DOC utilization: Roseobacter strains have the advantage of taking up carbohydrate DOC, while SAR11 bacteria prefer nitrogen-containing DOC. At the ecosystem level, bacterially derived RDOC based on d-amino acid biomarkers is reported to be responsible for about a quarter of the total marine RDOC pool. Under future global warming scenarios, partitioning of primary production into DOC could be enhanced, and thus the MCP could play an even more important role in carbon sequestration by the ocean. Joint efforts to study the MCP from multiple disciplines are required to obtain a better understanding of ocean carbon cycle and its coupling with global change.
Collapse
|