Mouhamadou B, Faure M, Sage L, Marçais J, Souard F, Geremia RA (2013) Potential of autochthonous fungal strains isolated from contaminated soils for degradation of polychlorinated
biphenyls. Fungal Biol 117:268–274
Nayak V, Pai PV, Pai A, Pai S, Sushma YD, Rao CV (2013) A comparative study of caffeine
degradation by four different fungi. Biorem J 17:79–85
Neilan BA, Pearson LA, Muenchhoff J, Moffitt MC, Dittmann E (2013) Environmental conditions
that influence toxin biosynthesis in cyanobacteria. Environ Microbiol 15:1239–1253
Nikel PI, Martínez-García E, De Lorenzo V (2014) Biotechnological domestication of pseudomonads
using synthetic biology. Nat Rev Microbiol 12:368–379. https://doi.org/10.1038/nrmicro3253
Nostrand JD, He Z, Zhou J (2012) Use of functional gene arrays for elucidating in situ biodegradation. Front Microbiol 3:339. https://doi.org/10.3389/fmicb.2012.00339
Ojuederie OM, Babalola OO (2017) Microbial and plant assisted bioremediation of heavy metal
polluted environments: a review. Int J Environ Res Public Health 14(12):1504
Olaniran AO, Balgobind A, Pillay B (2013) Bioavailability of heavy metals in soil: impact on
microbial biodegradation of organic compounds and possible improvement strategies. Int J Mol
Sci 14(5):10197–10228
Patnaik PR (2005) Perspectives in the modeling and optimization of PHB production by pure and
mixed cultures. Crit Rev Biotechnol 25:153–171
Pazos F, Guijas D, Valencia A, Lorenzo VD (2005) MetaRouter: bioinformatics for bioremediation.
Nucleic Acids Res 33:D588–D592. https://doi.org/10.1093/nar/gki068
Pereira IAC, Ramos AR, Grein F, Marques MC, da Silva SM, Venceslau SS (2011) A comparative
genomic analysis of energy metabolism in sulfate reducing bacteria and archaea. Front
Microbiol 2:69. https://doi.org/10.3389/fmicb.2011.00069
Perez-Garcia O, Bashan Y (2015) Microalgal heterotrophic and mixotrophic culturing for biorefining: from metabolic routes to techno-economics. In: Prokop A, Bajpai RK, Zappi ME (eds)
Algal biorefineries, vol. 2, products and refinery design. Springer, Cham, pp 61–131
Perez-Garcia O, De-Bashan LE, Hernandez J-P, Bashan Y (2010) Efficiency of growth and nutrient
uptake from waste water by heterotrophic, autotrophic and mixotrophic cultivation of Cholerlla
vulgaris immobilized with Azospirillum brasilense. J Phycol 46(4):800–812
Perez-Garcia O, Escalante FME, de- Bashan LE, Bashan Y (2011) Heterotrophic cultures of
microalgae: metabolism and potential products. Water Res 45:11–36. https://doi.org/10.1016/
j.watres.2010.08.037
Perez-Garcia O, Villas-Boas SG, Singhal N (2014a) A method to calibrate metabolic network
models with experimental datasets. Adv Intell Syst Comput 294:183–190
Perez-Garcia O, Villas-Boas SG, Swift S, Chandran K, Singhal N (2014b) Clarifying the regulation
of NO/N2O production in Nitrosomonas europaea during anoxic–oxic transition via flux
balance analysis of a metabolic network model. Water Res 60:267–277
Perez-Garcia O, Chandran K, Villas-Boas SG, Singhal N (2016) Assessment of nitric oxide (NO)
redox reactions contribution to nitrous oxide (N2O) formation during nitrification using a
multispecies metabolic network model. Biotechnol Bioeng 113:1124–1136
Pokorna D, Zabranska J (2015) Sulfur-oxidizing bacteria in environmental technology. Biotechnol
Adv 33:1246–1259
Purnomo AS, Mori T, Putra SR, Kondo R (2013) Biotransformation of heptachlor and heptachlor
epoxide by white-rot fungus Pleurotus ostreatus. Int Biodeter Biodegr 82:40–44
Reid A, Greene SE (2012) How microbes can help feed the world. A report from the American
Academy of microbiology, American Academy of Microbiology, Washington, DC
Reya I, Lakshmi Prabha M, Renitta E (2013) Equilibrium and kinetic studies on biosorption of Cr
(VI) using novel Aspergillus jegita isolated from tannery effluent. Res J Chem Environ
17:72–78
Rittmann BE (2006) Microbial ecology to manage processes in environmental biotechnology.
Trends Biotechnol 24:261–266
Rittmann BE, Krajmalnik-Brown R, Halden RU (2008) Pre-genomic, genomic and post-genomic
study of microbial communities involved in bioenergy. Nat Rev Microbiol 6:604–612
182
J. Tomar
biphenyls. Fungal Biol 117:268–274
Nayak V, Pai PV, Pai A, Pai S, Sushma YD, Rao CV (2013) A comparative study of caffeine
degradation by four different fungi. Biorem J 17:79–85
Neilan BA, Pearson LA, Muenchhoff J, Moffitt MC, Dittmann E (2013) Environmental conditions
that influence toxin biosynthesis in cyanobacteria. Environ Microbiol 15:1239–1253
Nikel PI, Martínez-García E, De Lorenzo V (2014) Biotechnological domestication of pseudomonads
using synthetic biology. Nat Rev Microbiol 12:368–379. https://doi.org/10.1038/nrmicro3253
Nostrand JD, He Z, Zhou J (2012) Use of functional gene arrays for elucidating in situ biodegradation. Front Microbiol 3:339. https://doi.org/10.3389/fmicb.2012.00339
Ojuederie OM, Babalola OO (2017) Microbial and plant assisted bioremediation of heavy metal
polluted environments: a review. Int J Environ Res Public Health 14(12):1504
Olaniran AO, Balgobind A, Pillay B (2013) Bioavailability of heavy metals in soil: impact on
microbial biodegradation of organic compounds and possible improvement strategies. Int J Mol
Sci 14(5):10197–10228
Patnaik PR (2005) Perspectives in the modeling and optimization of PHB production by pure and
mixed cultures. Crit Rev Biotechnol 25:153–171
Pazos F, Guijas D, Valencia A, Lorenzo VD (2005) MetaRouter: bioinformatics for bioremediation.
Nucleic Acids Res 33:D588–D592. https://doi.org/10.1093/nar/gki068
Pereira IAC, Ramos AR, Grein F, Marques MC, da Silva SM, Venceslau SS (2011) A comparative
genomic analysis of energy metabolism in sulfate reducing bacteria and archaea. Front
Microbiol 2:69. https://doi.org/10.3389/fmicb.2011.00069
Perez-Garcia O, Bashan Y (2015) Microalgal heterotrophic and mixotrophic culturing for biorefining: from metabolic routes to techno-economics. In: Prokop A, Bajpai RK, Zappi ME (eds)
Algal biorefineries, vol. 2, products and refinery design. Springer, Cham, pp 61–131
Perez-Garcia O, De-Bashan LE, Hernandez J-P, Bashan Y (2010) Efficiency of growth and nutrient
uptake from waste water by heterotrophic, autotrophic and mixotrophic cultivation of Cholerlla
vulgaris immobilized with Azospirillum brasilense. J Phycol 46(4):800–812
Perez-Garcia O, Escalante FME, de- Bashan LE, Bashan Y (2011) Heterotrophic cultures of
microalgae: metabolism and potential products. Water Res 45:11–36. https://doi.org/10.1016/
j.watres.2010.08.037
Perez-Garcia O, Villas-Boas SG, Singhal N (2014a) A method to calibrate metabolic network
models with experimental datasets. Adv Intell Syst Comput 294:183–190
Perez-Garcia O, Villas-Boas SG, Swift S, Chandran K, Singhal N (2014b) Clarifying the regulation
of NO/N2O production in Nitrosomonas europaea during anoxic–oxic transition via flux
balance analysis of a metabolic network model. Water Res 60:267–277
Perez-Garcia O, Chandran K, Villas-Boas SG, Singhal N (2016) Assessment of nitric oxide (NO)
redox reactions contribution to nitrous oxide (N2O) formation during nitrification using a
multispecies metabolic network model. Biotechnol Bioeng 113:1124–1136
Pokorna D, Zabranska J (2015) Sulfur-oxidizing bacteria in environmental technology. Biotechnol
Adv 33:1246–1259
Purnomo AS, Mori T, Putra SR, Kondo R (2013) Biotransformation of heptachlor and heptachlor
epoxide by white-rot fungus Pleurotus ostreatus. Int Biodeter Biodegr 82:40–44
Reid A, Greene SE (2012) How microbes can help feed the world. A report from the American
Academy of microbiology, American Academy of Microbiology, Washington, DC
Reya I, Lakshmi Prabha M, Renitta E (2013) Equilibrium and kinetic studies on biosorption of Cr
(VI) using novel Aspergillus jegita isolated from tannery effluent. Res J Chem Environ
17:72–78
Rittmann BE (2006) Microbial ecology to manage processes in environmental biotechnology.
Trends Biotechnol 24:261–266
Rittmann BE, Krajmalnik-Brown R, Halden RU (2008) Pre-genomic, genomic and post-genomic
study of microbial communities involved in bioenergy. Nat Rev Microbiol 6:604–612
182
J. Tomar