Acknowledgement
Supported by : National Research Foundation
References
- Grube M, Cardinale M, Jr de Castro JV, Muller H, Berg G. 2009. Species-specific structural and functional diversity of bacterial communities in lichen symbioses. ISME J. 3: 1105-1115. https://doi.org/10.1038/ismej.2009.63
- Bates ST, Cropsey GWG, Caporaso JG, Knight R, Fierer N. 2011. Bacterial communities associated with the lichen symbiosis. Appl. Environ. Microbiol. 77: 1309-1314. https://doi.org/10.1128/AEM.02257-10
- Iskina RY. 1938. On nitrogen fixing bacteria in lichens. Isv. Biol. Inst. Permsk. 11: 133-139.
- Panosyan AK, Nikogosyan VG. 1966. The presence of Azotobacter in lichens. Akad. Nauk. Armian. SSR Biol. Zhurn. Armen. 19: 3-11.
- Henkel PA, Plotnikova TT. 1973. Nitrogen-fixing bacteria in lichens. Izv. Akad. Nauk SSR Ser. Biol. 1973: 807-813.
- Gonzalez I, Ayuso-Sacido A, Anderson A, Genilloud O. 2005. Actinomycetes isolated from lichens: evaluation of their diversity and detection of biosynthetic gene sequences. FEMS Microbiol. Ecol. 54: 401-415. https://doi.org/10.1016/j.femsec.2005.05.004
- Aschenbrenner IA, Cernava T, Berg G, Grube M. 2016. Understanding microbial multi-species symbioses. Front. Microbiol. 7: 180.
- Grube M, Cernava T, Soh J, Fuchs S, Aschenbrenner I, Lassek C, et al. 2015. Exploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omics. ISME J. 9: 412-424. https://doi.org/10.1038/ismej.2014.138
- Nampoothiri KM, Nair NR, John RP. 2010. An overview of the recent developments in polylactide (PLA) research. Bioresour. Technol. 101: 8493-8501. https://doi.org/10.1016/j.biortech.2010.05.092
- Chen G-Q. 2010. Plastics Completely Synthesized by Bacteria: Polyhydroxyalkanoates, pp. 17-37. In Chen G-Q (ed.), Plastics from Bacteria: Natural functions and Applications, vol. 14. Microbiology Monographs, Springer Berlin Heidelberg, Germany.
- Suriyamongkol P, Weselake R, Narine S, Moloney M, Shah S. 2007. Biotechnological approaches for the production of polyhydroxyalkanoates in microorganisms and plants - a review. Biotechnol. Adv. 25: 148-175. https://doi.org/10.1016/j.biotechadv.2006.11.007
- Doi Y, Kitamura S, Abe H. 1995. Microbial synthesis and characterization of poly(3-hydroxybutyrate-co-3-hydroxyhexanoate). Macromolecules 28: 4822-4828. https://doi.org/10.1021/ma00118a007
- Shahid S, Mosrati R, Ledauphin J, Amiel C, Fontaine P, Gaillard J-L, et al. 2013. Impact of carbon source and variable nitrogen conditions on bacterial biosynthesis of polyhydroxyalkanoates: Evidence of an atypical metabolism in Bacillus megaterium DSM 509. J. Biosci. Bioeng. 116: 302-308. https://doi.org/10.1016/j.jbiosc.2013.02.017
- Verlinden R, Hill D, Kenward M, Williams C, Radecka I. 2007 Bacterial synthesis of biodegradable polyhydroxylalkanoates. J. Appl. Microbiol. 102: 1437-1449. https://doi.org/10.1111/j.1365-2672.2007.03335.x
- Gao X, Yuan XX, Shi ZY, Guo YY, Shen XW, Chen JC, et al. 2012. Production of copolyesters of 3-hydroxybutyrate and medium-chain-length 3-hydroxyalkanoates by E. coli containing an optimized PHA synthase gene. Microb. Cell Fact. 11: 130. https://doi.org/10.1186/1475-2859-11-130
- Matias F, Brandt CA, da Silva ES, de Andrade Rodrigues MF. 2017. Polyhydroxybutyrate and polyhydroxydodecanoate produced by Burkholderia contaminans IPT 553. J. Appl. Microbiol. 123: 124-133. https://doi.org/10.1111/jam.13469
- Mohan SV, Reddy MV. 2013. Optimization of critical factors to enhance polyhydroxyalkanoates (PHA) synthesis by mixed culture using Taguchi design of experimental methodology. Bioresour. Technol. 128: 409-416. https://doi.org/10.1016/j.biortech.2012.10.037
- Nikodinovic J, Kenny ST, Babu RP, Woods T, Blau WJ, O'Connor KE. 2008. The conversion of BTEX compounds by single and defined mixed cultures to medium-chain-length polyhydroxyalkanoate. Appl. Microbiol. Biotechnol. 80: 665-673. https://doi.org/10.1007/s00253-008-1593-0
- Narancic T, Kenny ST, Djokic L, Vasiljevic B, O'Connor KE, Nikodinovic-Runic J. 2012. Medium-chain-length polyhydroxyalkanoate production by newly isolated Pseudomonas sp. TN301 from a wide range of polyaromatic and monoaromatic hydrocarbons. J. Appl. Microbiol. 113: 508-520. https://doi.org/10.1111/j.1365-2672.2012.05353.x
- Povolo S, Basaglia M, Fontana F, Morelli A, Casella S. 2015. Poly(hydroxyalkanoate) production by Cupriavidus necator from fatty waste can be enhanced by phaZ1 inactivation. Chem. Biochem. Eng. Q 29: 67-74. https://doi.org/10.15255/CABEQ.2014.2248
- Filonov AE, Puntus IF, Karpov AV, Kosheleva IA, Kashparov KI, Slepenkin AV, et al. 2004. Efficiency of naphthalene biodegradation by Pseudomonas putida G7 in soil. J. Chem. Technol. Biotechnol. 79: 562-569. https://doi.org/10.1002/jctb.998
- Reddy MV, Mawatari Y, Yajima Y, Seki C, Hoshino T, Chang Y-C. 2015. Poly-3-hydroxybutyrate (PHB) production from alkylphenols, mono and poly-aromatic hydrocarbons using Bacillus sp. CYR1: a new strategy for wealth from waste. Bioresour. Technol. 192: 711-717. https://doi.org/10.1016/j.biortech.2015.06.043
- Cernava T, Muller H, Aschenbrenner IA, Grube M, Berg G. 2015a. Analysing the antagonistic potential of the lichen microbiome against pathogens by bridging metagenomic with culture studies. Front. Microbiol. 6: 620.
- Lee YM, Kim EH, Lee HK, Hong SG. 2014. Biodiversity and physiological characteristics of Antarctic and Arctic lichens-associated bacteria. World J. Microbiol. Biotechnol. 30: 2711-2721. https://doi.org/10.1007/s11274-014-1695-z
- Cernava, T. 2015. Exploring the Substantial Contributions and the Global Interactions of the Microbiome in an Ancient Symbiosis. Doctoral thesis, Graz University of Technology, Graz. 15-16.
- Eymann C, Lassek C, Wegner U, Bernhardt J, Fritsch OA, Fuchs S, et al. 2017. Symbiotic interplay of fungi, algae, and bacteria within the lung lichen Lobaria pulmonaria L. Hoffm. as assessed by state-of-the-art metaproteomics. J. Proteome Res. 16: 2160-2173. https://doi.org/10.1021/acs.jproteome.6b00974
- Castro-Sowinski S, Burdman S, Matan O, Okon Y. 2010. Natural functions of bacterial polyhydroxyalkanoates, pp. 39-61. In Chen G-Q (ed.), Plastics from Bacteria: Natural functions and Applications, Microbiology Monographs, Springer, Berlin, Heidelberg.
- Pham TH, Webb JS, Rehm BH. 2004. The role of polyhydroxyalkanoate biosynthesis by Pseudomonas aeruginosa in rhamnolipid and alginate production as well as stress tolerance and biofilm formation. Microbiology 150: 3405-3413. https://doi.org/10.1099/mic.0.27357-0
- Goh YS, Tan IKP. 2012. Polyhydroxyalkanoate production by Antarctic soil bacteria isolated from Casey Station and Signy Island. Microbiol. Res. 167: 211-219. https://doi.org/10.1016/j.micres.2011.08.002
- Wang Q, Nomura CT. 2010. Monitoring differences in gene expression levels and polyhydroxyalkanoate (PHA) production in Pseudomonas putida KT2440 grown on different carbon sources. J. Biosci. Bioeng. 110: 653-659. https://doi.org/10.1016/j.jbiosc.2010.08.001
- Borrero-de Acuna JM, Bielecka A, Haussler S, Schobert M, Jahn M, Wittmann C, et al. 2014. Production of medium chain length polyhydroxyalkanoate in metabolic flux optimized Pseudomonas putida. Microb. Cell Fact. 13: 88. https://doi.org/10.1186/1475-2859-13-88
-
Ostle AG, Holt JG. 1987. Nile blue A as a fluorescent stain for poly-
${\beta}$ -hydroxybutyrate. Appl. Environ. Microbiol. 44: 238-241. https://doi.org/10.1128/aem.44.1.238-241.1982 -
Oehmen A, Keller-Lehmann B, Zeng RJ, Yuan Z, Keller J. 2005. Optimisation of poly-
${\beta}$ -hydroxyalkanoate analysis using gas chromatography for enhanced biological phosphorus removal systems. J. Chromatogr. A 1070: 131-136. https://doi.org/10.1016/j.chroma.2005.02.020 - Dib MA, Bendahou M, Bandiabdellah A, Djabou N, Allali A, Tabti B, et al. 2010. Partial chemical composition and antimicrobial activity of Daucus crinitus Desf. extracts. Grasas Y Aceites 61: 271-278. https://doi.org/10.3989/gya.122609
- Lin W, Wang Y, Gorby Y, Nealson K, Pan Y. 2013. Integrating niche-based process and spatial process in biogeography of magnetotactic bacteria. Sci. Rep. 3: 1643. https://doi.org/10.1038/srep01643
- Kim OS, Cho YJ, Lee K, Yoon SH, Kim M, Na H, et al. 2012. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int. J. Syst. Evol. Microbiol. 62: 716-721. https://doi.org/10.1099/ijs.0.038075-0
- Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic. Acids Res. 25: 4876-4882. https://doi.org/10.1093/nar/25.24.4876
- Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
- Kumar S, Stecher G, Tamura K. 2016. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol. Biol. Evol. 33: 1870-1874. https://doi.org/10.1093/molbev/msw054
- Solaiman DKY, Ashby RD, Foglia TA. 2000. Rapid and specific identification of medium-chain-length polyhydroxyalkanoate synthase gene by polymerase chain reaction. Appl. Microbiol. Biotechnol. 53: 690-694. https://doi.org/10.1007/s002530000332
-
Livak KJ, Schmittgen TD. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2-
${\Delta}{\Delta}CT$ method. Methods 25: 402-408. https://doi.org/10.1006/meth.2001.1262 - Chaudhry WN, Jamil N, Ali I, Ayaz MH, Hasnain S. 2011. Screening for polyhydroxyalkanoate (PHA)-producing bacterial strains and comparison of PHA production from various inexpensive carbon sources. Ann. Microbiol. 61: 623-629. https://doi.org/10.1007/s13213-010-0181-6
- Selbmann L, Zucconi L, Ruisi S, Grube M, Cardinale M, Onofri S. 2010. Culturable bacteria associated with Antarctic lichens: affiliation and psychrotolerance. Polar Biol. 33: 71-83. https://doi.org/10.1007/s00300-009-0686-2
- Cernava T, Aschenbrenner IA, Grube M, Liebminger S, Berg G. 2015. A novel assay for the detection of bioactive volatiles evaluated by screening of lichen-associated bacteria. Front. Microbiol. 6: 398. https://doi.org/10.3389/fmicb.2015.00398
- Honegger R, Edwards D, Axe L. 2013. The earliest records of internally stratified cyanobacterial and algal lichens from the Lower Devonian of the Welsh Borderland. New Phytol. 197: 264-275. https://doi.org/10.1111/nph.12009
- Ramsay BA, Saracovan I, Ramsay JA, Marchessault RH. 1992. Effect of nitrogen limitation on long-side-chain poly-beta-hydroxyalkanoate synthesis by Pseudomonas resinovorans. Appl. Environ. Microbiol. 58: 744-746. https://doi.org/10.1128/AEM.58.2.744-746.1992
- Hoffmann N, Rehm BHA. 2005. Nitrogen-dependent regulation of medium-chain length polyhydroxyalkanoate biosynthesis genes in pseudomonads. Biotechnol. Lett. 27: 279-282. https://doi.org/10.1007/s10529-004-8353-8
-
Thakor NS, Patel MA, Trivedi UB, Patel KC. 2003. Production of poly(
${\beta}$ -hydroxybutyrate) by Comamonas testosteroni during growth on naphthalene. World J. Microbiol. Biotechnol. 19: 185-189. https://doi.org/10.1023/A:1023295009846 - Leneva NA, Kolomytseva MP, Baskunov BP, Golovleva LA. 2010. Enzymes of Naphthalene Metabolism by Pseudomonas fluorescens 26K Strain. Biochemistry (Moscow) 75: 562-570. https://doi.org/10.1134/S0006297910050044
-
Panda B, Jain P, Sharma L, Mallick N. 2006. Optimization of cultural and nutritional conditions for accumulation of poly-
${\beta}$ -hydroxybutyrate in Synechocystis sp. PCC 6803. Bioresour. Technol. 97: 1296-1301. https://doi.org/10.1016/j.biortech.2005.05.013 - Ward PG, Goff M, Donner M, Kaminsky W, O'Connor K. 2006. A two step chemo-biotechnological conversion of polystyrene to a biodegradable plastic. Environ. Sci. Technol. 40: 2433-2437. https://doi.org/10.1021/es0517668
- Tan GYA, Chen CL, Ge L, Li L, Tan SN, Wang JY. 2015. Bioconversion of styrene to poly(hydroxyalkanoate) (PHA) by the new bacterial strain Pseudomonas putida NBUS12. Microbes Environ. 30: 76-85. https://doi.org/10.1264/jsme2.ME14138
-
Chung AL, Jin HL, Huang LJ, Ye HM, Chen JC, Wu Q, et al. 2011. Biosynthesis and characterization of poly (3-hydroxydodecanoate) by
${\beta}$ -oxidation inhibited mutant of Pseudomonas entomophila L48. Biomacromolecules 12: 3559-3566. https://doi.org/10.1021/bm200770m - Elbahloul Y, Steinbuchel A. 2009. Large-scale production of poly(3-hydroxyoctanoic acid) by Pseudomonas putida GPo1 and a simplified downstream process. Appl. Environ. Microbiol. 75: 643-651. https://doi.org/10.1128/AEM.01869-08
- Gao J, Ramsay JA, Ramsay BA. 2016. Fed-batch production of poly-3- hydroxydecanoate from decanoic acid. J. Biotechnol. 218: 102-107. https://doi.org/10.1016/j.jbiotec.2015.12.012
- Reddy MV, Yajima Y, Mawatari Y, Hoshino T, Chang YC. 2015b. Degradation and conversion of toxic compounds into useful bioplastics by Cupriavidus sp. CY-1: relative expression of the PhaC gene under phenol and nitrogen stress. Green Chem. 17: 4560-4569. https://doi.org/10.1039/C5GC01156F
- Follonier S, Henes B, Panke S, Zinn M. 2012. Putting cells under pressure: a simple and efficient way to enhance the productivity of medium-chain-length polyhydroxyalkanoate in processes with Pseudomonas putida KT2440. Biotechnol. Bioeng. 109: 451-461. https://doi.org/10.1002/bit.23312
- Le Meur S, Zinn M, Egli T, Thony-Meyer L, Ren Q. 2012. Production of medium-chain-length polyhydroxyalkanoates by sequential feeding of xylose and octanoic acid in engineered Pseudomonas putida KT2440. BMC Biotechnol. 12: 53. https://doi.org/10.1186/1472-6750-12-53
- Kaur G, Roy I. 2015. Strategies for large-scale production of polyhydroxyalkanoates. Chem. Biochem. Eng. Q. 29: 157-172. https://doi.org/10.15255/CABEQ.2014.2255
- Oksanen I. 2006. Ecological and biotechnological aspects of lichens. Appl. Microbiol. Biotechnol. 73: 723-734. https://doi.org/10.1007/s00253-006-0611-3
- Hoffmann N, Steinbuchel A, Rehm BHA. 2000. Homologous functional expression of cryptic phaG from Pseudomonas oleovorans establishes the transacylasemediated polyhydroxyalkanoate biosynthetic pathway. Appl. Microbiol. Biotechnol. 54: 665-670. https://doi.org/10.1007/s002530000441
- Popp N, Schlomann M, Mau M. 2006. Bacterial diversity in the active stage of a bioremediation system for mineral oil hydrocarbon-contaminated soils. Microbiology 152: 3291-3304. https://doi.org/10.1099/mic.0.29054-0
- Kenny ST, Nikodinovic-Runic J, Kaminsky W, Woods T, Babu RP, Keely CM, et al. 2008. Up-cycling of PET (polyethylene terephthalate) to the biodegradable plastic PHA (polyhydroxyalkanoate). Environ. Sci. Technol. 42: 7696-7701. https://doi.org/10.1021/es801010e
- Feijoo-Siota L, Rosa-Dos-Santos F, de Miguel T, Villa TG. 2008. Biodegradation of naphthalene by Pseudomonas stutzeri in marine environments: Testing cells entrapment in calcium alginate for use in water detoxification. Bioremediat. J. 12: 185-192. https://doi.org/10.1080/10889860802477168
- Karimi B, Habibi M, Esvand M. 2015. Biodegradation of naphthalene using Pseudomonas aeruginosa by up flow anoxic-aerobic continuous flow combined bioreactor. J. Environ. Health. Sci. Eng. 13: 26. https://doi.org/10.1186/s40201-015-0175-1
- Jacques RJS, Santos EC, Bento FM, Peralba MCR, Selbach PA, Sa ELS, et al. 2005. Anthracene biodegradation by Pseudomonas sp. isolated from a petrochemical sludge land farming site. Int. Biodeter. Biodegr. 56: 143-150. https://doi.org/10.1016/j.ibiod.2005.06.005
- Huisman GW, Wonink E, Meima R, Kazemier B, Terpstra P, Witholt B. 1991. Metabolism of poly(3-hydroxyalkanoates) (PHAs) by Pseudomonas oleovorans. Identification and sequences of genes and function of the encoded proteins in the synthesis and degradation of PHA. J. Biol. Chem. 5: 2191-2198.
- Ciesielski S, Cydzik-Kwiatkowska A, Pokoj T, Klimiuk E. 2006. Molecular detection and diversity of medium-chain-length polyhydroxyalkanoates-producing bacteria enriched from activated sludge. J. Appl. Microbiol. 101: 190-199. https://doi.org/10.1111/j.1365-2672.2006.02973.x
- McCool GJ, Cannon MC. 2001. PhaC and PhaR are required for polyhydroxyalkanoic acid synthase activity in Bacillus megaterium. J. Bacteriol.183: 4235-4243. https://doi.org/10.1128/JB.183.14.4235-4243.2001
- Catone MV, Ruiz JA, Castellanos M, Segura D, Espin G, Lopez NI. 2014. High polyhydroxybutyrate production in Pseudomonas extremaustralis is associated with differential expression of horizontally acquired and core genome polyhydroxyalkanoate synthase genes. PLoS One 9: e98873. https://doi.org/10.1371/journal.pone.0098873
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