Abstract
Microbe-assisted organopollutant removal, or in planta crop decontamination, is based on an interactive system between organopollutant-degrading endophytic bacteria (DEBOP) and crops in alleviating organic toxins in plants. This script focuses on the fast-growing body of literature that has recently bloomed in organopollutant control in agricultural plants. The various facets of DEBOP under study include their colonization, distribution, plant growth-promoting mechanisms, and modes of action in the detoxification process in plants. Also, an assessment of the biotechnological advances, advantages, and bottlenecks in accelerating the implementation of this decontamination strategy will be undertaken. The highlighted key research directions from this review will shape the future of agro-environmental sustainability and preservation of human health.
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Abbreviations
- 2,4-D:
-
2,4-Dichlorophenoxyacetic acid
- ACCD:
-
1-Aminocyclopropane-1-carboxylate deaminase
- AMF:
-
Arbuscular mycorrhizal fungi
- CSIA:
-
Compound-specific isotope analysis
- DDBJ:
-
DNA Data Bank of Japan
- DDT:
-
Dichlorodiphenyltrichloroethane
- DEBOP :
-
Organopollutant-degrading endophytic bacteria
- EMBL:
-
European Molecular Biology Laboratory
- EPS:
-
Extracellular polymeric substances
- GenBank® :
-
A genetic sequence database maintained by the National Center for Biotechnology Information (NCBI) arm of the National Institutes of Health (NIH), USA
- GFP:
-
Green fluorescent protein
- GST:
-
Glutathione S-transferase
- HRMS:
-
High-resolution mass spectrometry
- NGS:
-
Next-generation sequencing
- PAHs:
-
Polycyclic aromatic hydrocarbons
- PCBs:
-
Polychlorinated biphenyls
- PGP:
-
Plant growth promotion/plant growth-promoting
- POPs:
-
Persistent organic pollutants
- RefSeq® :
-
Reference sequence, a database by the National Center for Biotechnology Information (NCBI) for single records of each natural biological resource (i.e., RNA, DNA or proteins) of living organisms, such as bacteria, viruses, and eukaryotes
- SGS:
-
Second-generation sequencing
- TCE:
-
Trichloroethylene
- TGS:
-
Third-generation sequencing
- WHO:
-
World Health Organization
References
Abhilash PC, Jamil S, Singh N (2009) Transgenic plants for enhanced biodegradation and phytoremediation of organic xenobiotics. Biotechnol Adv 27:474–488. https://doi.org/10.1016/j.biotechadv.2009.04.002
Afzal M, Yousaf S, Reichenauer TG, Kuffner M, Sessitsch A (2011) Soil type affects plant colonization, activity and catabolic gene expression of inoculated bacterial strains during phytoremediation of diesel. J Hazard Mater 186:1568–1575. https://doi.org/10.1016/j.jhazmat.2010.12.040
Afzal M, Yousaf S, Reichenauer TG, Sessitsch A (2012) The inoculation method affects colonization and performance of bacterial inoculant strains in the phytoremediation of soil contaminated with diesel oil. Int J Phytoremediation 14(1):35–47. https://doi.org/10.1080/15226514.2011.552928
Afzal M, Yousaf S, Reichenauer TG, Sessitsch A (2013a) Ecology of alkane-degrading bacteria and their interaction with the plant. In: de Bruijn FJ (ed) Molecular microbial ecology of the rhizosphere. Wiley, Hoboken, pp 975–989. https://doi.org/10.1002/9781118297674.ch92
Afzal M, Khan S, Iqbal S, Mirza MS, Khan QM (2013b) Inoculation method affects colonization and activity of Burkholderia phytofirmans PsJN during phytoremediation of diesel-contaminated soil. Int Biodeter Biodegr 85:331–336. https://doi.org/10.1016/j.ibiod.2013.08.022
Afzal M, Khan QM, Sessitsch A (2014) Endophytic bacteria: prospects and applications for the phytoremediation of organic pollutants. Chemosphere 117:232–242. https://doi.org/10.1016/j.chemosphere.2014.06.078
Ahemad M, Kibret M (2014) Mechanisms and applications of plant growth promoting rhizobacteria: current perspective. J King Saud Univ-Sci 26:1–20. https://doi.org/10.1016/j.jksus.2013.05.001
Alarcón A, Davies FT, Autenrieth RL, Zuberer DA (2008) Arbuscular mycorrhiza and petroleum-degrading microorganisms enhance phytoremediation of petroleum-contaminated soil. Int J Phytoremediation 10:251–263. https://doi.org/10.1080/15226510802096002
Ali N, Sorkhoh N, Salamah S, Eliyas M, Radwan S (2012) The potential of epiphytic hydrocarbon-utilizing bacteria on legume leaves for attenuation of atmospheric hydrocarbon pollutants. J Environ Manage 93:113–120. https://doi.org/10.1016/j.jenvman.2011.08.014
Ali S, Jin D, Charles TC, Glick BR (2014) A bioinformatics approach to the determination of genes involved in endophytic behavior in Burkholderia spp. J Theor Biol 343:193–198. https://doi.org/10.1016/j.jtbi.2013.10.007
Ali S, Charles TC, Glick BR (2017) Endophytic phytohormones and their role in plant growth promotion. In: Doty SL (ed) Functional importance of the plant microbiome: implications for agriculture, forestry and bioenergy. Springer, Cham, pp 89–105. https://doi.org/10.1007/978-3-319-65897-1_6
Alkorta I, Garbisu C (2001) Phytoremediation of organic contaminants in soils. Bioresour Technol 79:273–276. https://doi.org/10.1016/S0960-8524(01)00016-5
Andria V, Reichenauer TG, Sessitsch A (2009) Expression of alkane monooxygenase (alkB) genes by plant-associated bacteria in the rhizosphere and endosphere of Italian ryegrass (Lolium multiflorum L.) grown in diesel contaminated soil. Environ Pollut 157:3347–3350. https://doi.org/j.envpol.2009.08.023
Arslan M, Imran A, Khan QM, Afzal M (2017) Plant–bacteria partnerships for the remediation of persistent organic pollutants. Environ Sci Pollut Res 24:4322–4336. https://doi.org/10.1007/s11356-015-4935-3
Ashraf MA (2017) Persistent organic pollutants (POPs): a global issue, a global challenge. Environ Sci Pollut Res 24:4223–4227. https://doi.org/10.1007/s11356-015-5225-9
Bacon CW, White J (2000) An overview of endophytic microbes: endophytism defined. In: Bacon CW, White J (eds) Microbial endophytes. Marcel Dekker Inc, New York, pp 3–30
Badri DV, Weir TL, van der Lelie D, Vivanco JM (2009) Rhizosphere chemical dialogues: plant–microbe interactions. Curr Opin Biotechnol 20:642–650. https://doi.org/10.1016/j.copbio.2009.09.014
Bahulikar RA, Torres-Jerez I, Worley E, Craven K, Udvardi MK (2014) Diversity of nitrogen-fixing bacteria associated with switchgrass in the native tallgrass prairie of northern Oklahoma. Appl Environ Microbiol 80:5636–5643. https://doi.org/10.1128/AEM.02091-1
Balseiro-Romero M, Gkorezis P, Kidd PS, Van Hamme J, Weyens N, Monterroso C, Vangronsveld J (2017) Use of plant growth promoting bacterial strains to improve Cytisus striatus and Lupinus luteus development for potential application in phytoremediation. Sci Total Environ 581–582:676–688. https://doi.org/10.1016/j.scitotenv.2016.12.180
Barac T, Taghavi S, Borremans B, Provoost A, Oeyen L, Colpaert JV, Vangronsveld J, van der Lelie D (2004) Engineered endophytic bacteria improve phytoremediation of water-soluble, volatile, organic pollutants. Nat Biotechnol 22:583. https://doi.org/10.1038/nbt960
Barret M, Morrissey JP, O’Gara FJB (2011) Functional genomics analysis of plant growth-promoting rhizobacterial traits involved in rhizosphere competence. Biol Fertil Soils 47:729–743. https://doi.org/s00374-011-0605-x
Beans C (2017) Core concept: phytoremediation advances in the lab but lags in the field. Proc Natl Acad Sci U S A 114:7475–7477. https://doi.org/10.1073/pnas.1707883114
Becerra-Castro C, Kidd PS, Prieto-Fernández Á, Weyens N, Acea M-J, Vangronsveld J (2011) Endophytic and rhizoplane bacteria associated with Cytisus striatus growing on hexachlorocyclohexane-contaminated soil: isolation and characterisation. Plant and Soil 340:413–433. https://doi.org/10.1007/s11104-010-0613-x
Becerra-Castro C, Kidd PS, Rodríguez-Garrido B, Monterroso C, Santos-Ucha P, Prieto-Fernández Á (2013a) Phytoremediation of hexachlorocyclohexane (HCH)-contaminated soils using Cytisus striatus and bacterial inoculants in soils with distinct organic matter content. Environ Pollut 178:202–210. https://doi.org/10.1016/j.envpol.2013.03.027
Becerra-Castro C, Prieto-Fernández Á, Kidd PS, Weyens N, Rodríguez-Garrido B, Touceda-González M, Acea MJ, Vangronsveld J (2013b) Improving performance of Cytisus striatus on substrates contaminated with hexachlorocyclohexane (HCH) isomers using bacterial inoculants: developing a phytoremediation strategy. Plant and Soil 362:247–260. https://doi.org/10.1007/s11104-012-1276-6
Begum SR, Tamilselvi K (2016) Endophytes are plant helpers: an overview. Int J Curr Microbiol App Sci 5:424–436. https://doi.org/10.20546/ijcmas.2016.504.050
Bell TH, Joly S, Pitre FE, Yergeau E (2014) Increasing phytoremediation efficiency and reliability using novel omics approaches. Trends Biotechnol 32(5):271–280. https://doi.org/10.1016/j.tibtech.2014.02.008
Berg G (2009) Plant–microbe interactions promoting plant growth and health: perspectives for controlled use of microorganisms in agriculture. Appl Microbiol Biotechnol 84:11–18. https://doi.org/10.1007/s00253-009-2092-7
Berg G, Müller H, Zachow C, Opelt K, Scherwinski K, Tilcher R, Ulrich A, Hallmann J, Grosch R, Sessitsch A (2008) Endophytes: structural and functional diversity and biotechnological applications in control of plant pathogens. Ecol Genet 6:17–26. https://doi.org/10.17816/ecogen6217-26
Bhattacharyya PN, Jha DK (2012) Plant growth-promoting rhizobacteria (PGPR): emergence in agriculture. World J Microbiol Biotechnol 28:1327–1350. https://doi.org/10.1007/s11274-011-0979-9
Binet P, Portal JM, Leyval C (2000) Dissipation of 3–6-ring polycyclic aromatic hydrocarbons in the rhizosphere of ryegrass. Soil Biol Biochem 32:2011–2017. https://doi.org/10.1016/S0038-0717(00)00100-0
Bittsánszky A, Gullner G, Gyulai G, Komives T (2011) A case study: uptake and accumulation of persistent organic pollutants in Cucurbitaceae species. In: Schröder P, Collins CD (eds) Organic xenobiotics and plants: from mode of action to ecophysiology. Springer, Dordrecht, pp 77–85. https://doi.org/10.1007/978-90-481-9852-8_4
Bloemberg GV, Lugtenberg BJJ (2001) Molecular basis of plant growth promotion and biocontrol by rhizobacteria. Curr Opin Plant Biol 4:343–350. https://doi.org/10.1016/S1369-5266(00)00183-7
Bloemberg GV, Wijfjes AHM, Lamers GEM, Stuurman N, Lugtenberg BJJ (2000) Simultaneous imaging of Pseudomonas fluorescens WCS365 populations expressing three different autofluorescent proteins in the rhizosphere: new perspectives for studying microbial communities. Mol Plant Microbe Interact 13:1170–1176. https://doi.org/10.1094/mpmi.2000.13.11.1170
Brader G, Compant S, Mitter B, Trognitz F, Sessitsch A (2014) Metabolic potential of endophytic bacteria. Curr Opin Biotechnol 27:30–37. https://doi.org/10.1016/j.copbio.2013.09.012
Brader G, Compant S, Vescio K, Mitter B, Trognitz F, Ma L-J, Sessitsch A (2017) Ecology and genomic insights into plant-pathogenic and plant-nonpathogenic endophytes. Annu Rev Phytopathol 55:61–83. https://doi.org/10.1146/annurev-phyto-080516-035641
Burken JG (2004) Uptake and metabolism of organic compounds: green-liver model. In: McCutcheon SC, Schnoor JL (eds) Phytoremediation: transformation and control of contaminants. Wiley, Hoboken, pp 59–84. https://doi.org/10.1002/047127304X.ch2
Burken JG, Shanks JV, Thompson PL (2000) Phytoremediation and plant metabolism of explosives and nitroaromatic compounds. In: Spain JC, Hughes JB, Knackmuss H-J (eds) Biodegradation of nitroaromatic compounds and explosives, 1st edn. CRC Press LLC, Boca Raton, pp 239–276
Cardinale M (2014) Scanning a microhabitat: plant-microbe interactions revealed by confocal laser microscopy. Front Microbiol 5. https://doi.org/10.3389/fmicb.2014.00094
Cardinale M, Berg G (2015) Visualization of plant-microbe interactions. In: Lugtenberg B (ed) Principles of plant-microbe interactions: microbes for sustainable agriculture. Springer, Cham, pp 299–306. https://doi.org/10.1007/978-3-319-08575-3_31
Chaîneau CH, Morel JL, Oudot J (1997) Phytotoxicity and plant uptake of fuel oil hydrocarbons. J Environ Qual 26:1478–1483. https://doi.org/10.2134/jeq1997.00472425002600060005x
Chandra P, Singh E (2016) Applications and mechanisms of plant growth-stimulating rhizobacteria. In: Choudhary D, Varma A, Tuteja N (eds) Plant-microbe interaction: an approach to sustainable agriculture. Springer, Singapore, pp 37–62
Chanway CP (1996) Endophytes: they’re not just fungi! Can J Bot 74:321–322
Chaturvedi H, Singh V, Gupta G (2016) Potential of bacterial endophytes as plant growth promoting factors. J Plant Pathol 7:7–9. https://doi.org/10.4172/2157-7471.1000376
Chen Y, Murrell JC (2010) When metagenomics meets stable-isotope probing: progress and perspectives. Trends Microbiol 18:157–163. https://doi.org/10.1016/j.tim.2010.02.002
Cherian S, Oliveira MM (2005) Transgenic plants in phytoremediation: recent advances and new possibilities. Environ Sci Technol 39:9377–9390. https://doi.org/10.1021/es051134l
Chikere CB, Okpokwasili GC, Chikere BO (2011) Monitoring of microbial hydrocarbon remediation in the soil. 3 Biotech 1:117–138. https://doi.org/10.1007/s13205-011-0014-8
Chiou CT, Sheng G, Manes M (2001) A partition-limited model for the plant uptake of organic contaminants from soil and water. Environ Sci Technol 35:1437–1444. https://doi.org/10.1021/es0017561
Coenye T, Vandamme P (2003) Diversity and significance of Burkholderia species occupying diverse ecological niches. Environ Microbiol 5:719–729. https://doi.org/10.1046/j.1462-2920.2003.00471.x
Collins CD (2008) A semi-quantitative approach to deriving a model structure for the uptake of organic chemicals by vegetation. Int J Phytoremediation 10:371–377. https://doi.org/10.1080/15226510802100440
Collins CD, Fryer M, Grosso A (2006) Plant uptake of non-ionic organic chemicals. Environ Sci Technol 40:45–52. https://doi.org/10.1021/es0508166
Compant S, Duffy B, Nowak J, Clément C, Barka EA (2005) Use of plant growth-promoting bacteria for biocontrol of plant diseases: principles, mechanisms of action, and future prospects. Appl Environ Microbiol 71:4951–4959. https://doi.org/10.1128/AEM.71.9.4951-4959.2005
Compant S, Kaplan H, Sessitsch A, Nowak J, Ait Barka E, Clément C (2008) Endophytic colonization of Vitis vinifera L. by Burkholderia phytofirmans strain PsJN: from the rhizosphere to inflorescence tissues. FEMS Microbiol Ecol 63:84–93. https://doi.org/10.1111/j.1574-6941.2007.00410.x
Compant S, Clément C, Sessitsch A (2010) Plant growth-promoting bacteria in the rhizo- and endosphere of plants: their role, colonization, mechanisms involved and prospects for utilization. Soil Biol Biochem 42:669–678. https://doi.org/10.1016/j.soilbio.2009.11.024
Compant S, Sessitsch A, Mathieu F (2012) The 125th anniversary of the first postulation of the soil origin of endophytic bacteria-a tribute to M.L.V. Galippe. Plant and Soil 356:299–301. https://doi.org/10.1007/s11104-012-1204-9
Compant S, Saikkonen K, Mitter B, Campisano A, Mercado-Blanco J (2016) Editorial special issue: soil, plants and endophytes. Plant and Soil 405:1–11. https://doi.org/10.1007/s11104-016-2927-9
Compant S, Samad A, Faist H et al A review on the plant microbiome: ecology, functions, and emerging trends in microbial application. J Adv Res. https://doi.org/10.1016/j.jare.2019.03.004
De Bary A (1879) Die erscheinung der symbiose. Verlag Trubner, Strassburg
de Mello-Farias PC, ALS C, Lencina CL (2011) Transgenic plants for enhanced phytoremediation–physiological studies. In: Alvarez M (ed) Genetic transformation. InTech, Rijeka, pp 305–328. https://doi.org/10.5772/24355
Dhankher OP, Pilon-Smits EAH, Meagher RB, Doty S (2012) Biotechnological approaches for phytoremediation. In: Altman A, Hasegawa PM (eds) Plant biotechnology and agriculture. Academic Press, San Diego, pp 309–328. https://doi.org/10.1016/B978-0-12-381466-1.00020-1
Dietz AC, Schnoor JL (2001) Advances in phytoremediation. Environ Health Perspect 109:163–168. https://doi.org/10.2307/3434854
Dong R, Gu L, Guo C, Xun F, Liu J (2014) Effect of PGPR Serratia marcescens BC-3 and AMF Glomus intraradices on phytoremediation of petroleum contaminated soil. Ecotoxicology 23:674–680. https://doi.org/10.1007/s10646-014-1200-3
Doty SL (2008) Enhancing phytoremediation through the use of transgenics and endophytes. New Phytol 179:318–333. https://doi.org/10.1111/j.1469-8137.2008.02446.x
Doty SL (2017a) Endophytic N-fixation: controversy and a path forward. In: Doty SL (ed) Functional importance of the plant microbiome: implications for agriculture, forestry and bioenergy. Springer, Cham, pp 7–20
Doty SL (2017b) Functional importance of the plant endophytic microbiome: implications for agriculture, forestry, and bioenergy. In: Doty SL (ed) Functional importance of the plant microbiome: implications for agriculture, forestry and bioenergy. Springer, Cham, pp 1–5
Doty SL, Shang TQ, Wilson AM, Tangen J, Westergreen AD, Newman LA, Strand SE, Gordon MP (2000) Enhanced metabolism of halogenated hydrocarbons in transgenic plants containing mammalian cytochrome P450 2E1. Proc Natl Acad Sci U S A 97:6287–6291. https://doi.org/10.1073/pnas.97.12.6287
Doty SL, James CA, Moore AL, Vajzovic A, Singleton GL, Ma C, Khan Z, Xin G, Kang JW, Park JY, Meilan R, Strauss SH, Wilkerson J, Farin F, Strand SE (2007) Enhanced phytoremediation of volatile environmental pollutants with transgenic trees. Proc Natl Acad Sci U S A 104(43):16816–16821. https://doi.org/10.1073/pnas.0703276104
Doty SL, Khan Z, Kang JW, Knoth J, Roman D, Morrison H, Baum A (2012) Endophytes for enhanced plant growth, pollutant degradation and biofuels. In: In vitro cellular & developmental biology-animal, vol 48, Suppl. 1. Springer, New York, p 21. https://doi.org/10.1007/s11626-012-9506-z
Doty SL, Freeman JL, Cohu CM, Burken JG, Firrincieli A, Simon A, Khan Z, Isebrands JG, Lukas J, Blaylock MJ (2017) Enhanced degradation of TCE on a superfund site using endophyte-assisted poplar tree phytoremediation. Environ Sci Technol 51:10050–10058. https://doi.org/10.1021/acs.est.7b01504
Eapen S, Singh S, D’Souza SF (2007) Advances in development of transgenic plants for remediation of xenobiotic pollutants. Biotechnol Adv 25:442–451. https://doi.org/10.1016/j.biotechadv.2007.05.001
Eevers N, Van Hamme JD, Bottos EM, Weyens N, Vangronsveld J (2015a) Draft genome sequence of Enterobacter aerogenes, a DDE-degrading and plant growth-promoting strain isolated from Cucurbita pepo. Genome Announc 3. https://doi.org/10.1128/genomeA.00317-15
Eevers N, Van Hamme JD, Bottos EM, Weyens N, Vangronsveld J (2015b) Sphingomonas taxi, isolated from Cucurbita pepo, proves to be a DDE-degrading and plant growth-promoting strain. Genome Announc 3. https://doi.org/10.1128/genomeA.00489-15
Eevers N, Van Hamme JD, Bottos EM, Weyens N, Vangronsveld J (2015c) Draft genome sequence of Methylobacterium radiotolerans, a DDE-degrading and plant growth-promoting strain isolated from Cucurbita pepo. Genome Announc 3. https://doi.org/10.1128/genomeA.00488-15
Eevers N, Gielen M, Sánchez-López A, Jaspers S, White JC, Vangronsveld J, Weyens N (2015d) Optimization of isolation and cultivation of bacterial endophytes through addition of plant extract to nutrient media. J Microbial Biotechnol 8:707–715. https://doi.org/10.1111/1751-7915.12291
Eevers N, Hawthorne JR, White JC, Vangronsveld J, Weyens N (2016) Exposure of Cucurbita pepo to DDE-contamination alters the endophytic community: a cultivation dependent vs a cultivation independent approach. Environ Pollut 209:147–154. https://doi.org/10.1016/j.envpol.2015.11.038
Eevers N, White JC, Vangronsveld J, Weyens N (2017) Bio- and phytoremediation of pesticide-contaminated environments: a review. In: Cuypers A, Vangronsveld J (eds) Advances in botanical research, vol 83. Academic Press, London, pp 277–318. https://doi.org/10.1016/bs.abr.2017.01.001
Eevers N, Hawthorne JR, White JC, Vangronsveld J, Weyens N (2018) Endophyte-enhanced phytoremediation of DDE-contaminated using Cucurbita pepo: A field trial, Int J Phytoremediation 20:4, 301–310. https://doi.org/10.1080/15226514.2017.1377150
Eskandary S, Tahmourespour A, Hoodaji M, Abdollahi A (2017) The synergistic use of plant and isolated bacteria to clean up polycyclic aromatic hydrocarbons from contaminated soil. J Environ Health Sci Eng 15(12). https://doi.org/10.1186/s40201-017-0274-2
Etesami H, Alikhani HA, Hosseini HM (2015) Indole-3-acetic acid (IAA) production trait, a useful screening to select endophytic and rhizosphere competent bacteria for rice growth promoting agents. MethodsX 2:72–78. https://doi.org/10.1016/j.mex.2015.02.008
Feng F, Ge J, Li Y, Cheng J, Zhong J, Yu X (2017a) Isolation, colonization, and chlorpyrifos degradation mediation of the endophytic bacterium Sphingomonas strain HJY in Chinese chives (Allium tuberosum). J Agric Food Chem 65:1131–1138. https://doi.org/10.1021/acs.jafc.6b0528
Feng F, Ge J, Li Y, He S, Zhong J, Liu X, Yu X (2017b) Enhanced degradation of chlorpyrifos in rice (Oryza sativa L.) by five strains of endophytic bacteria and their plant growth promotional ability. Chemosphere 184:505–513. https://doi.org/10.1016/j.chemosphere.2017.05.178
Feng F, Li Y, Ge J, Chen J, Jiang W, He S, Liu X, Yu X (2017c) Degradation of chlorpyrifos by an endophytic bacterium of the Sphingomonas genus (strain HJY) isolated from Chinese chives (Allium tuberosum). J Environ Sci Health B 2017:1–9. https://doi.org/10.1080/03601234.2017.1356675
Feng N-X, Yu J, Zhao H-M, Cheng Y-T, Mo C-H, Cai Q-Y, Li Y-W, Li H, Wong M-H (2017d) Efficient phytoremediation of organic contaminants in soils using plant–endophyte partnerships. Sci Total Environ 583:352–368. https://doi.org/10.1016/j.scitotenv.2017.01.075
Fester T, Giebler J, Wick LY, Schlosser D, Kästner M (2014) Plant-microbe interactions as drivers of ecosystem functions relevant for the biodegradation of organic contaminants. Curr Opin Biotechnol 27:168–175. https://doi.org/10.1016/j.copbio.2014.01.017
Fismes J, Perrin-Ganier C, Empereur-Bissonnet P, Morel JL (2002) Soil-to-root transfer and translocation of polycyclic aromatic hydrocarbons by vegetables grown on industrial contaminated soils. J Environ Qual 31:1649–1656. https://doi.org/10.2134/jeq2002.1649
French CE, Rosser SJ, Davies GJ, Nicklin S, Bruce NC (1999) Biodegradation of explosives by transgenic plants expressing pentaerythritol tetranitrate reductase. Nat Biotechnol 17:491. https://doi.org/10.1038/8673
Gagne S, Richard C, Antoun H (1989) Pourvoir pathogne des bactries endoracinaires de la luzerne. Can J Plant Pathol 11:22–27
Gaiero JR, McCall CA, Thompson KA, Day NJ, Best AS, Dunfield KE (2013) Inside the root microbiome: bacterial root endophytes and plant growth promotion. Am J Bot 100:1738–1750. https://doi.org/10.3732/ajb.1200572
Galippe V (1887a) Note sur la présence de micro-organismes dans les tissus végétaux. Comptes Rendus Hebdomadaires de la Société de Biologie, Paris, pp 410–416
Galippe V (1887b) Note sur la présence de micro-organismes dans les tissus végétaux (deuxième note) CR. Seances Soc Biol Fil 39:557–560
Gamalero E, Glick BR (2011) Mechanisms used by plant growth-promoting bacteria. In: Maheshwari DK (ed) Bacteria in agrobiology: plant nutrient management. Springer, Heidelberg, pp 17–46. https://doi.org/10.1007/978-3-642-21061-7_2
Gao Y, Zhu L (2004) Plant uptake, accumulation and translocation of phenanthrene and pyrene in soils. Chemosphere 55(9):1169–1178. https://doi.org/10.1016/j.chemosphere.2004.01.037
Gao Y, Cheng Z, Ling W, Huang J (2010) Arbuscular mycorrhizal fungal hyphae contribute to the uptake of polycyclic aromatic hydrocarbons by plant roots. Bioresour Technol 101:6895–6901. https://doi.org/10.1016/j.biortech.2010.03.122
Gelvin SB (2003) Agrobacterium-mediated plant transformation: the biology behind the “gene-jockeying” tool. Microbiol Mol Biol Rev 67:16–37. https://doi.org/10.1128/MMBR.67.1.16-37.2003
Gerhardt KE, Huang X-D, Glick BR, Greenberg BM (2009) Phytoremediation and rhizoremediation of organic soil contaminants: potential and challenges. Plant Sci 176:20–30. https://doi.org/10.1016/j.plantsci.2008.09.014
Gerhardt KE, Gerwing PD, Huang X, Greenberg BM (2015) Microbe-assisted phytoremediation of petroleum impacted soil. In: Fingas M (ed) Handbook of oil spill science and technology, 1st edn. Wiley, pp 407–427. https://doi.org/10.1002/9781118989982.ch16
Gerhardt KE, Gerwing PD, Greenberg BM (2017) Opinion: taking phytoremediation from proven technology to accepted practice. Plant Sci 256:170–185. https://doi.org/10.1016/j.plantsci.2016.11.016
Germaine KJ, Liu X, Cabellos GG, Hogan JP, Ryan D, Dowling DN (2006) Bacterial endophyte-enhanced phytoremediation of the organochlorine herbicide 2,4-dichlorophenoxyacetic acid. FEMS Microbiol Ecol 57:302–310. https://doi.org/10.1111/j.1574-6941.2006.00121.x
Germaine KJ, Keogh E, Ryan D, Dowling DN (2009) Bacterial endophyte-mediated naphthalene phytoprotection and phytoremediation. FEMS Microbiol Lett 296:226–234. https://doi.org/10.1111/j.1574-6968.2009.01637.x
Gkorezis P (2014) The role of plant-associated bacteria in the remediation of soils and groundwater contaminated with petroleum hydrocarbons. (Doctoral dissertation). Faculty of Sciences, Hasselt University (Universiteit Hasselt), Diepenbeek, Belgium. http://hdl.handle.net/1942/20493
Gkorezis P, Daghio M, Franzetti A, Van Hamme JD, Sillen W, Vangronsveld J (2016) The interaction between plants and bacteria in the remediation of petroleum hydrocarbons: an environmental perspective. Front Microbiol 7:1–27. https://doi.org/10.3389/fmicb.2016.01836
Glick BR (2003) Phytoremediation: synergistic use of plants and bacteria to clean up the environment. Biotechnol Adv 21:383–393. https://doi.org/10.1016/S0734-9750(03)00055-7
Glick BR (2010) Using soil bacteria to facilitate phytoremediation. Biotechnol Adv 28:367–374. https://doi.org/10.1016/j.biotechadv.2010.02.001
Glick BR (2012) Plant growth-promoting bacteria: mechanisms and applications. Scientifica 2012:15. https://doi.org/10.1016/j.micres.2013.09.009
Glick BR (2014) Bacteria with ACC deaminase can promote plant growth and help to feed the world. Microbiol Res 169:30–39. https://doi.org/10.1016/j.micres.2013.09.009
Glick BR (2015) Resource acquisition. In: Glick BR (ed) Beneficial plant-bacterial interactions. Springer, Cham, pp 29–63. https://doi.org/10.1007/978-3-319-13921-0_2
Glick BR, Stearns JC (2011) Making phytoremediation work better: maximizing a plant’s growth potential in the midst of adversity. Int J Phytoremediation 13:4–16. https://doi.org/10.1080/15226514.2011.568533
Goodwin S, Mcpherson JD, McCombie WR (2016) Coming of age: ten years of next-generation sequencing technologies. Nat Rev Genet 17(6):333–351. https://doi.org/10.1038/nrg.2016.49
Gray EJ, Smith DL (2005) Intracellular and extracellular PGPR: commonalities and distinctions in the plant–bacterium signaling processes. Soil Biol Biochem 37:395–412. https://doi.org/10.1016/j.soilbio.2004.08.030
Gupta G, Parihar SS, Ahirwar NK, Snehi SK, Singh V (2015) Plant growth promoting rhizobacteria (PGPR): current and future prospects for development of sustainable agriculture. J Microb Biochem Technol 7:096–102. https://doi.org/10.4172/1948-5948.1000188
Hallmann J (2001) Plant interactions with endophytic bacteria. In: Jeger MJ, Spence NJ (eds) Biotic interactions in plant-pathogen associations. CABI, New York, pp 87–119
Hallmann J, Berg G (2006) Spectrum and population dynamics of bacterial root endophytes. In: Schulz BJE, Boyle CJC, Sieber TN (eds) Microbial root endophytes (soil biology series). Springer, Heidelberg, pp 15–31. https://doi.org/10.1007/3-540-33526-9_2
Hallmann J, Quadt-Hallmann A, Mahaffee WF, Kloepper JW (1997) Bacterial endophytes in agricultural crops. Can Microbiol 43:895–914. https://doi.org/10.1139/m97-131
Hardoim PR, van Elsas JD (2013) Properties of bacterial endophytes leading to maximized host fitness. In: de Bruijn FJ (ed) Molecular microbial ecology of the rhizosphere, vol 1 & 2. Wiley, Hoboken, pp 405–411. https://doi.org/10.1002/9781118297674.ch37
Hardoim PR, van Overbeek LS, Elsas JD (2008) Properties of bacterial endophytes and their proposed role in plant growth. Trends Microbiol 16:463–471. https://doi.org/10.1016/j.tim.2008.07.008
Hardoim PR, van Overbeek LS, Berg G, Pirttilä AM, Compant S, Campisano A, Döring M, Sessitsch A (2015) The hidden world within plants: ecological and evolutionary considerations for defining functioning of microbial endophytes. Microbiol Mol Biol Rev 79:293–320. https://doi.org/10.1128/MMBR.00050-14
Harish S, Kavino M, Kumar N, Balasubramanian P, Samiyappan R (2009) Induction of defense-related proteins by mixtures of plant growth promoting endophytic bacteria against Banana bunchy top virus. Biol Control 51:16–25. https://doi.org/10.1016/j.biocontrol.2009.06.002
Harms H, Bokern M, Kolb M, Bock C (2004) Transformation of organic contaminants by different plant systems. In: McCutcheon SC, Schnoor JL (eds) Phytoremediation: transformation and control of contaminants. Wiley, Hoboken, pp 285–316. https://doi.org/10.1002/047127304X.ch9
Hartmann A, Schmid M, van Tuinen D, Berg G (2009) Plant-driven selection of microbes. Plant and Soil 321:235. https://doi.org/10.1007/s11104-008-9814-y
Hellström A (2004) Uptake of organic pollutants in plants. Dissertation, Swedish University of Agricultural Sciences, Uppsala
Hentschel U, Steinert M, Hacker J (2000) Common molecular mechanisms of symbiosis and pathogenesis. Trends Microbiol 8:226–231. https://doi.org/10.1016/S0966-842X(00)01758-3
Ho Y-N, Shih C-H, Hsiao S-C, Huang C-C (2009) A novel endophytic bacterium, Achromobacter xylosoxidans, helps plants against pollutant stress and improves phytoremediation. J Biosci Bioeng 108:S94. https://doi.org/10.1016/j.jbiosc.2009.08.276
Ho Y-N, Mathew DC, Hsiao S-C, Shih C-H, Chien M-F, Chiang H-M, Huang C-C (2012) Selection and application of endophytic bacterium Achromobacter xylosoxidans strain F3B for improving phytoremediation of phenolic pollutants. J Hazard Mater 219-220:43–49. https://doi.org/10.1016/j.jhazmat.2012.03.035
Ho Y-N, Hsieh J-L, Huang C-C (2013) Construction of a plant–microbe phytoremediation system: combination of vetiver grass with a functional endophytic bacterium, Achromobacter xylosoxidans F3B, for aromatic pollutants removal. Bioresour Technol 145:43–47. https://doi.org/10.1016/j.biortech.2013.02.051
Hollis JP (1949) Bacteria in healthy potato tissue. ETD collection for University of Nebraska – Lincoln. AAIDP13795. http://digitalcommons.unl.edu/dissertations/AAIDP13795
Hollis JP (1951) Bacteria in healthy potato tissue. Phytopathology 41:350–366
Howe D, Costanzo M, Fey P, Gojobori T, Hannick L, Hide W, Hill DP, Kania R, Schaeffer M, St Pierre S, Twigger S, White O, Rhee SY (2008) Big data: the future of biocuration. Nature 455:47–50. https://doi.org/10.1038/455047a
Huss-Danell K (1997) Actinorhizal symbioses and their N2 fixation, vol 136, pp 375–405. https://doi.org/10.1046/j.1469-8137.1997.00755.x
Imadi S, Shazadi K, Gul A, Hakeem K (2015) Sustainable crop production system. In: Hakeem KR, Akhtar MS, Abdullah SNA (eds) Plant, soil and microbes, implications in crop science, vol 1. Springer, Cham, pp 103–116. https://doi.org/10.1007/978-3-319-27455-3_6
Jabeen H, Iqbal S, Ahmad F, Afzal M, Firdous S (2016) Enhanced remediation of chlorpyrifos by ryegrass (Lolium multiflorum) and a chlorpyrifos degrading bacterial endophyte Mezorhizobium sp. HN3. Int J Phytoremediation 18:126–133. https://doi.org/10.1080/15226514.2015.1073666
Jambon I, Thijs S, Weyens N, Vangronsveld J (2018) Harnessing plant-bacteria-fungi interactions to improve plant growth and degradation of organic pollutants. J Plant Interact 13:119–130. https://doi.org/10.1080/17429145.2018.1441450
James EK (2000) Nitrogen fixation in endophytic and associative symbiosis. Field Crop Res 65:197–209. https://doi.org/10.1016/S0378-4290(99)00087-8
Jørgensen TS, Kiil AS, Hansen MA, Sørensen SJ, Hansen LH (2015) Current strategies for mobilome research. Front Microbiol 5. https://doi.org/10.3389/fmicb.2014.00750
Kacálková L, Tlustoš P (2011) The uptake of persistent organic pollutants by plants. Open Life Sci 6(2):223–235. https://doi.org/10.2478/s11535-010-0116-z
Kandel S, Joubert P, Doty S (2017) Bacterial endophyte colonization and distribution within plants. Microorganisms 5:77. https://doi.org/10.3390/microorganisms5040077
Kaul S, Sharma T, Dhar MK (2016) “Omics” tools for better understanding the plant–endophyte interactions. Front Plant Sci 7(955). https://doi.org/10.3389/fpls.2016.00955
Kawahigashi H (2009) Transgenic plants for phytoremediation of herbicides. Curr Opin Biotechnol 20:225–230. https://doi.org/10.1016/j.copbio.2009.01.010
Khan Z, Doty S (2011) Endophyte-assisted phytoremediation. Plant Biol 12:97–105
Khan S, Afzal M, Iqbal S, Khan QM (2013a) Plant–bacteria partnerships for the remediation of hydrocarbon contaminated soils. Chemosphere 90:1317–1332. https://doi.org/10.1016/j.chemosphere.2012.09.045
Khan S, Afzal M, Iqbal S, Mirza MS, Khan QM (2013b) Inoculum pretreatment affects bacterial survival, activity and catabolic gene expression during phytoremediation of diesel contaminated soil. Chemosphere 91:663–668. https://doi.org/10.1016/j.chemosphere.2013.01.025
Kloepper JW, Ryu C-M (2006) Bacterial endophytes as elicitors of induced systemic resistance. In: Schulz BJE, Boyle CJC, Sieber TN (eds) Microbial root endophytes. Springer, Heidelberg, pp 33–52. https://doi.org/10.1007/3-540-33526-9_3
Kloepper JW, Schippers B, Bakker PAHM (1992) Proposed elimination of the term “endorhizosphere”. Phytopathology 82:726–727
Krishnaraj PU, Pasha MA (2017) Metagenome of rhizosphere and endophytic ecosystem. In: Singh RP, Kothari R, Koringa PG, Singh SP (eds) Understanding host-microbiome interactions – an omics approach. Springer, Singapore, pp 125–156. https://doi.org/10.1007/978-981-10-5050-3_9
Kuiper I, Bloemberg GV, Lugtenberg BJ (2001) Selection of a plant-bacterium pair as a novel tool for rhizostimulation of polycyclic aromatic hydrocarbon-degrading bacteria. Mol Plant Microbe Interact 14:1197–1205. https://doi.org/10.1094/mpmi.2001.14.10.1197
Kuiper I, Kravchenko LV, Bloemberg GV, Lugtenberg BJ (2002) Pseudomonas putida strain PCL1444, selected for efficient root colonization and naphthalene degradation, effectively utilizes root exudate components. Mol Plant Microbe Interact 15:734–741. https://doi.org/10.1094/mpmi.2002.15.7.734
Kukla M, Płociniczak T, Piotrowska-Seget Z (2014) Diversity of endophytic bacteria in Lolium perenne and their potential to degrade petroleum hydrocarbons and promote plant growth. Chemosphere 117:40–46. https://doi.org/10.1016/j.chemosphere.2014.05.055
Kvesidatza E, Sadunishvili T, Kvesitadze G (2009) Mechanisms of organic contaminants uptake and degradation in plants. World Acad Sci Eng Technol 55(6):458–468
Kvesitadze G, Gordeziani M, Khatisashvili G, Sadunishvili T, Ramsden J (2001) Some aspects of the enzymatic basis of phytoremediation. J Biol Phys Chem 1:49–57. https://doi.org/10.4024/16KV01R.01.02
Lacava PT, Azevedo JL (2013) Endophytic bacteria: a biotechnological potential in agrobiology system. In: Maheshwari D, Saraf M, Aeron A (eds) Bacteria in agrobiology: crop productivity. Springer, Heidelberg, pp 1–44. https://doi.org/10.1007/978-3-642-37241-4_1
Lagendijk EL, Lamers GEM, Bloemberg GV, Validov S, De Weert S (2010) Genetic tools for tagging Gram-negative bacteria with mCherry for visualization in vitro and in natural habitats, biofilm and pathogenicity studies. FEMS Microbiol Lett 305:81–90. https://doi.org/10.1111/j.1574-6968.2010.01916.x
Li QQ, Loganath A, Chong YS, Tan J, Obbard JP (2006) Persistent organic pollutants and adverse health effects in humans. J Toxicol Environ Health A 69:1987–2005. https://doi.org/10.1080/15287390600751447
Li K, Pidatala VR, Shaik R, Datta R, Ramakrishna W (2014) Integrated metabolomic and proteomic approaches dissect the effect of metal-resistant bacteria on maize biomass and copper uptake. Environ Sci Technol 48:1184. https://doi.org/10.1021/es4047395
Limmer M, Burken J (2016) Phytovolatilization of organic contaminants. Environ Sci Technol 50(13):6632–6643. https://doi.org/10.1021/acs.est.5b04113
Liu H, Carvalhais LC, Crawford M, Singh E, Dennis PG, Pieterse CMJ, Schenk PM (2017) Inner plant values: diversity, colonization and benefits from endophytic bacteria. Front Microbiol 8(2552). https://doi.org/10.3389/fmicb.2017.02552
Liu J, Zhang Z, Sheng Y, Gao Y, Zhao Z (2018) Phenanthrene-degrading bacteria on root surfaces: a natural defense that protects plants from phenanthrene contamination. Plant Soil. 1–16. https://doi.org/10.1007/s11104-018-3575-z
Lodewyckx C, Vangronsveld J, Porteous F, Moore ERB, Taghavi S, Mezgeay M, der Lelie DV (2002) Endophytic bacteria and their potential applications. Crit Rev Plant Sci 21:583–606. https://doi.org/10.1080/0735-260291044377
Loman NJ, Constantinidou C, Chan JZM, Halachev M, Sergeant M, Penn CW, Robinson ER, Pallen MJ (2012a) High-throughput bacterial genome sequencing: an embarrassment of choice, a world of opportunity. Nat Rev Microbiol 10:599–606. https://doi.org/10.1038/nrmicro2850
Loman NJ, Misra RV, Dallman TJ, Constantinidou C, Gharbia SE, Wain J, Pallen MJ (2012b) Performance comparison of benchtop high-throughput sequencing platforms. Nat Biotechnol 30:434–439. https://doi.org/10.1038/nbt.2198
Lugtenberg BJ, Chin-A-Woeng TF, Bloemberg GV (2002) Microbe–plant interactions: principles and mechanisms. Antonie Van Leeuwenhoek 81:373–383. https://doi.org/10.1023/a:1020596903142
Lumactud R, Fulthorpe RR (2018) Endophytic bacterial community structure and function of herbaceous plants from petroleum hydrocarbon contaminated and non-contaminated sites. Front Microbiol 9(1926). https://doi.org/10.3389/fmicb.2018.01926
Lumactud R, Shen SY, Lau M, Fulthorpe R (2016) Bacterial endophytes isolated from plants in natural oil seep soils with chronic hydrocarbon contamination. Front Microbiol 7:1–10. https://doi.org/10.3389/fmicb.2016.00755
Ma X, Burken JG (2003) TCE diffusion to the atmosphere in phytoremediation applications. Environ Sci Technol 37:2534–2539. https://doi.org/10.1021/es026055d
Macek T, Macková M, Káš J (2000) Exploitation of plants for the removal of organics in environmental remediation. Biotechnol Adv 18:23–34. https://doi.org/10.1016/S0734-9750(99)00034-8
Macek T, Kotrba P, Svatos A, Novakova M, Demnerova K, Mackova M (2008) Novel roles for genetically modified plants in environmental protection. Trends Biotechnol 26:146–152. https://doi.org/10.1016/j.tibtech.2007.11.009
Martin FM, Uroz S, Barker DG (2017) Ancestral alliances: plant mutualistic symbioses with fungi and bacteria. Science 356(6340). https://doi.org/10.1126/science.aad4501
Mastretta C, Barac T, Vangronsveld J, Newman L, Taghavi S, Lelie DVD (2006) Endophytic bacteria and their potential application to improve the phytoremediation of contaminated environments. Biotechnol Genet Eng Rev 23:175–188. https://doi.org/10.1080/02648725.2006.10648084
McCully ME (2001) Niches for bacterial endophytes in crop plants: a plant biologist’s view. Aust J Plant Physiol 28(9):983–990. https://doi.org/10.1071/PP01101
McGuinness MC, Mazurkiewicz V, Brennan E, Dowling DN (2007) Dechlorination of pesticides by a specific bacterial glutathione-S-transferase, BphKLB400: potential for bioremediation. Eng Life Sci 7:611–615. https://doi.org/10.1002/elsc.200720218
McKone TE, Maddalena RL (2007) Plant uptake of organic pollutants from soil: bioconcentration estimates based on models and experiments. Environ Toxicol Chem 26:2494–2504. https://doi.org/10.1897/06-269.1
Meena KK, Sorty AM, Bitla UM, Choudhary K, Gupta P, Pareek A, Singh DP, Prabha R, Sahu PK, Gupta VK, Singh HB, Krishanani KK, Minhas PS (2017) Abiotic stress responses and microbe-mediated mitigation in plants: the omics strategies. Front Plant Sci 8. https://doi.org/10.3389/fpls.2017.00172
Megharaj M, Ramakrishnan B, Venkateswarlu K, Sethunathan N, Naidu R (2011) Bioremediation approaches for organic pollutants: a critical perspective. Environ Int 37:1362–1375. https://doi.org/10.1016/j.envint.2011.06.003
Mercado-Blanco J, Lugtenberg B (2014) Biotechnological applications of bacterial endophytes. Curr Biotechnol 3:60–75. https://doi.org/10.2174/22115501113026660038
Mitter B, Petric A, Shin M, Chain PSG, Hauberg-Lotte L, Reinhold-Hurek B, Nowak J, Sessitsch A (2013a) Comparative genome analysis of Burkholderia phytofirmans PsJN reveals a wide spectrum of endophytic lifestyles based on interaction strategies with host plants. Front Plant Sci 4. https://doi.org/10.3389/fpls.2013.00120
Mitter B, Petric A, Chain PSG, Trognitz F, Nowak J, Compant S, Sessitsch A (2013b) Genome analysis, ecology, and plant growth promotion of the endophyte Burkholderia phytofirmans strain PsJN. In: de Bruijn FJ (ed) Molecular microbial ecology of the rhizosphere, vol 1 & 2. Wiley, Hoboken, pp 865–874. https://doi.org/10.1002/9781118297674.ch81
Mitter B, Brader G, Afzal M, Compant S, Naveed M, Trognitz F, Sessitsch A (2013c) Advances in elucidating beneficial interactions between plants, soil, and bacteria. In: Sparks DL (ed) Advances in agronomy, vol 121. Academic Press, Burlington, pp 381–445
Montpetit É, Lachapelle E (2017) New environmental technology uptake and bias toward the status quo: the case of phytoremediation. Environ Technol Innov 7:102–109. https://doi.org/10.1016/j.eti.2016.12.008
Morsy M (2015) Microbial symbionts: a potential bio-boom. J Investig Genet 2:00015. https://doi.org/10.15406/jig.2015.02.00015
Mulas D, Díaz-Alcántara CA, Mulas R, Marcano I, Barquero M, Serrano P, González-Andrés F (2013) Inoculants based in autochthonous microorganisms, a strategy to optimize agronomic performance of biofertilizers. In: Gonzalez BR, Gonzalez-Lopez J (eds) Beneficial plant-microbial interactions: ecology and applications, 1st edn. CRC Press, Boca Raton, pp 309–337. https://doi.org/10.1201/b15251-14
Müller CA, Obermeier MM, Berg G (2016) Bioprospecting plant-associated microbiomes. J Biotechnol 235:171–180. https://doi.org/10.1016/j.jbiotec.2016.03.033
Nadal M, Domingo JL (2013) Sources of human exposure. In: Carpenter J (ed) Effects of persistent and bioactive organic pollutants on human health. Wiley, New York, pp 8–25. https://doi.org/10.1002/9781118679654.ch2
Nekrutenko A, Taylor J (2012) Next-generation sequencing data interpretation: enhancing reproducibility and accessibility. Nat Rev Genet 13(9):667–672. https://doi.org/10.1038/nrg3305
Newman LA, Reynolds CM (2005) Bacteria and phytoremediation: new uses for endophytic bacteria in plants. Trends Biotechnol 23:6–8. https://doi.org/10.1016/j.tibtech.2004.11.010
Newton AC, Fitt BDL, Atkins SD, Walters DR, Daniell TJ (2010) Pathogenesis, parasitism and mutualism in the trophic space of microbe-plant interactions. Trends Microbiol 18:365–373. https://doi.org/10.1016/j.tim.2010.06.002
Olanrewaju OS, Glick BR, Babalola OO (2017) Mechanisms of action of plant growth promoting bacteria. World J Microbiol Biotechnol 33(197). https://doi.org/10.1007/s11274-017-2364-9
Oldroyd GE, Murray JD, Poole PS, Downie JA (2011) The rules of engagement in the legume-rhizobial symbiosis. Annu Rev Genet 45:119–144. https://doi.org/10.1146/annurev-genet-110410-132549
Pandotra P, Raina M, Salgotra RK, Ali S, Mir ZA, Bhat JA, Tyagi A, Upadhahy D (2018) Plant-bacterial partnership: a major pollutants remediation approach. In: Oves M, Khan MZ, Ismail MII (eds) Modern age environmental problems and their remediation. Springer, Cham, pp 169–200. https://doi.org/10.1007/978-3-319-64501-8_10
Pawlik M, Cania B, Thijs S, Vangronsveld J, Piotrowska-Seget Z (2017) Hydrocarbon degradation potential and plant growth-promoting activity of culturable endophytic bacteria of Lotus corniculatus and Oenothera biennis from a long-term polluted site. Environ Sci Pollut Res Int 24:19640–19652. https://doi.org/10.1007/s11356-017-9496-1
Pereira L (2014) Persistent organic chemicals of emerging environmental concern. In: Malik A, Grohmann E, Akhtar R (eds) Environmental deterioration and human health: natural and anthropogenic determinants. Springer, Dordrecht, pp 163–213. https://doi.org/10.1007/978-94-007-7890-0_8
Perotti R (1926) On the limits of biological enquiry in soil science. Proc Int Soc Soil Sci 2:146–161
Phillips LA, Germida JJ, Farrell RE, Greer CW (2008) Hydrocarbon degradation potential and activity of endophytic bacteria associated with prairie plants. Soil Biol Biochem 40:3054–3064. https://doi.org/10.1016/j.soilbio.2008.09.006
Pilon-Smits E (2005) Phytoremediation. Annu Rev Plant Biol 56:15–39. https://doi.org/10.1146/annurev.arplant.56.032604.144214
Pilon-Smits EA, Freeman JL (2006) Environmental cleanup using plants: biotechnological advances and ecological considerations. Front Ecol Environ 4:203–210. https://doi.org/10.1890/1540-9295(2006)004[0203:ECUPBA]2.0.CO;2
Piński A, Hupert-Kocurek K (2016) Genetic basis of endophytic bacteria-plant interactions. Postep Mikrobiol 55(4):404–412
Pirttilä AM, Joensuu P, Pospiech H, Jalonen J, Hohtola A (2004) Bud endophytes of Scots pine produce adenine derivatives and other compounds that affect morphology and mitigate browning of callus cultures. Physiol Plant 121:305–312. https://doi.org/10.1111/j.0031-9317.2004.00330.x
Puri A, Padda KP, Chanway CP (2017) Nitrogen-fixation by endophytic bacteria in agricultural crops: recent advances, nitrogen in agriculture – updates, Amanullah and Shah Fahad, IntechOpen, https://doi.org/10.5772/intechopen.71988. https://www.intechopen.com/books/nitrogen-in-agriculture-updates/nitrogen-fixation-by-endophytic-bacteria-in-agricultural-crops-recent-advances
Rashid S, Charles TC, Glick BR (2012) Isolation and characterization of new plant growth-promoting bacterial endophytes. Appl Soil Ecol 61:217–224. https://doi.org/10.1016/j.apsoil.2011.09.011
Reichenauer TG, Germida JJ (2008) Phytoremediation of organic contaminants in soil and groundwater. ChemSusChem 1:708–717. https://doi.org/10.1002/cssc.200800125
Reinhold-Hurek B, Hurek T (2011) Living inside plants: bacterial endophytes. Curr Opin Plant Biol 14:435–443. https://doi.org/10.1016/j.pbi.2011.04.004
Reinhold-Hurek B, Bünger W, Burbano CS, Sabale M, Hurek T (2015) Roots shaping their microbiome: global hotspots for microbial activity. Annu Rev Phytopathol 53:403–424. https://doi.org/10.1146/annurev-phyto-082712-102342
Rosenblueth M, Martínez-Romero E (2006) Bacterial endophytes and their interactions with hosts. Mol Plant Microbe Interact 19(8):827–837. https://doi.org/10.1094/MPMI-19-0827
Rosser SJ, French CE, Bruce NC (2001) Engineering plants for the phytodetoxification of explosives. In Vitro Cell Dev Biol-Plant 37:330–333. https://doi.org/10.1007/s11627-001-0059-1
Ryan RP, Germaine K, Franks A, Ryan DJ, Dowling DN (2008) Bacterial endophytes: recent developments and applications. FEMS Microbiol Lett 278:1–9. https://doi.org/10.1111/j.1574-6968.2007.00918.x
Rylott EL (2014) Endophyte consortia for xenobiotic phytoremediation: the root to success? Plant and Soil 385:389–394. https://doi.org/10.1007/s11104-014-2296-1
Salt DE, Smith RD, Raskin I (1998) Phytoremediation. Annu Rev Plant Physiol Plant Mol Biol 49:643–668. https://doi.org/10.1146/annurev.arplant.49.1.643
Sandermann HJ (1994) Higher plant metabolism of xenobiotics: the ‘green liver’ concept. Pharmacogenet Genomics 4:225–241
Sandermann H (1999) Plant metabolism of organic xenobiotics. Status and prospects of the ‘green liver’ concept. In: Altman A, Ziv M, Izhar S (eds) Plant biotechnology and in vitro biology in the 21st century: Proceedings of the IXth International Congress of the International Association of Plant Tissue Culture and Biotechnology, Jerusalem, Israel, 14–19 June 1998. Springer, Dordrecht, pp 321–328. https://doi.org/10.1007/978-94-011-4661-6_74
Santoyo G, Moreno-Hagelsieb G, del Carmen Orozco-Mosqueda M, Glick BR (2016) Plant growth-promoting bacterial endophytes. Microbiol Res 183:92–99. https://doi.org/10.1016/j.micres.2015.11.008
Schäffner A, Messner B, Langebartels C, Sandermann H (2002) Genes and enzymes for in-planta phytoremediation of air, water and soil. Acta Biotechnol 22:141–151. https://doi.org/10.1002/1521-3846(200205)22:1/2<141::AID-ABIO141>3.0.CO;2-7
Schröder P (2007) Exploiting plant metabolism for the phytoremediation of organic xenobiotics. In: Willey N (ed) Phytoremediation: methods in biotechnology, vol 23. Humana Press, New York, pp 251–263. https://doi.org/10.1007/978-1-59745-098-0_20
Schwitzguébel J-P (2017) Phytoremediation of soils contaminated by organic compounds: hype, hope and facts. J Soil Sediment 17:1492–1502. https://doi.org/10.1007/s11368-015-1253-9
Seghers D, Wittebolle L, Top EM, Verstraete W, Siciliano SD (2004) Impact of agricultural practices on the Zea mays L. endophytic community. Appl Environ Microbiol 70:1475–1482. https://doi.org/10.1007/s11356-017-9496-1
Segura A, Ramos JL (2013) Plant–bacteria interactions in the removal of pollutants. Curr Opin Biotechnol 24:467–473. https://doi.org/10.1016/j.copbio.2012.09.011
Sessitsch A, Hardoim P, Döring J, Weilharter A, Krause A, Woyke T, Mitter B, Hauberg-Lotte L, Friedrich F, Rahalkar M, Hurek T, Sarkar A, Bodrossy L, van Overbeek L, Brar D, van Elsas JD, Reinhold-Hurek B (2011) Functional characteristics of an endophyte community colonizing rice roots as revealed by metagenomic analysis. Mol Plant Microbe Interact 25:28–36. https://doi.org/10.1094/MPMI-08-11-0204
Sessitsch A, Smalla K, Johnson L, Mitter B (2016) Editorial: special thematic issue on microbe-assisted crop production. FEMS Microbiol Ecol 92(11):fiw167. https://doi.org/10.1093/femsec/fiw167
Sessitsch A, Pfaffenbichler N, Mitter B (2019) Microbiome applications from lab to field: facing complexity. Trends Plant Sci 24:194–198. https://doi.org/10.1016/j.tplants.2018.12.004
Sheng X, Chen X, He L (2008) Characteristics of an endophytic pyrene-degrading bacterium of Enterobacter sp. 12J1 from Allium macrostemon Bunge. Int Biodeter Biodegr 62:88–95. https://doi.org/10.1016/j.ibiod.2007.12.003
Shokralla S, Spall JL, Gibson JF, Hajibabaei M (2012) Next-generation sequencing technologies for environmental DNA research. Mol Ecol 21:1794–1805. https://doi.org/10.1111/j.1365-294X.2012.05538.x
Siciliano SD, Germida JJ (1998) Mechanisms of phytoremediation: biochemical and ecological interactions between plants and bacteria. Environ Rev 6:65–79. https://doi.org/10.1139/a98-005
Siciliano SD, Fortin N, Mihoc A, Wisse G, Labelle S, Beaumier D, Ouellette D, Roy R, Whyte LG, Banks MK, Schwab P, Lee K, Greer CW (2001) Selection of specific endophytic bacterial genotypes by plants in response to soil contamination. Appl Environ Microbiol 67:2469–2475. https://doi.org/10.1128/AEM.67.6.2469-2475.2001
Siebers M, Brands M, Wewer V, Duan Y, Hölzl G, Dörmann P (2016) Lipids in plant–microbe interactions. BBA-Mol Cell Biol L 1861:1379–1395. https://doi.org/10.1016/j.bbalip.2016.02.021
Singer AC, Crowley DE, Thompson IP (2003) Secondary plant metabolites in phytoremediation and biotransformation. Trends Biotechnol 21:123–130. https://doi.org/10.1016/S0167-7799(02)00041-0
Singh OV, Jain RK (2003) Phytoremediation of toxic aromatic pollutants from soil. Appl Microbiol Biotechnol 63:128–135. https://doi.org/10.1007/s00253-003-1425-1
Smith EF (1911) Bacteria in relation to plant diseases, vol 2. Carnegie Institution of Washington, Washington
Stephenson C, Black CR (2014) One step forward, two steps back: the evolution of phytoremediation into commercial technologies. Biosci Horiz Int J Stud Res 7:1–15. https://doi.org/10.1093/biohorizons/hzu009
Strobel G, Daisy B (2003) Bioprospecting for microbial endophytes and their natural products. Microbiol Mol Biol Rev 67:491–502. https://doi.org/10.1128/MMBR.67.4.491-502.2003
Sturz AV, Christie BR, Nowak J (2000) Bacterial endophytes: potential role in developing sustainable systems of crop production. Crit Rev Plant Sci 19:1–30. https://doi.org/10.1080/07352680091139169
Sun K, Liu J, Gao Y, Jin L, Gu Y, Wang W (2014a) Isolation, plant colonization potential, and phenanthrene degradation performance of the endophytic bacterium Pseudomonas sp. Ph6-gfp. Sci Rep 4:5462. https://doi.org/10.1038/srep05462
Sun K, Liu J, Jin L, Gao Y (2014b) Utilizing pyrene-degrading endophytic bacteria to reduce the risk of plant pyrene contamination. Plant and Soil 374:251–262. https://doi.org/10.1007/s11104-013-1875-x
Sun K, Liu J, Gao Y, Sheng Y, Kang F, Waigi MG (2015a) Inoculating plants with the endophytic bacterium Pseudomonas sp. Ph6-gfp to reduce phenanthrene contamination. Environ Sci Pollut Res 22:19529–19537. https://doi.org/10.1007/s11356-015-5128-9
Sun R, Crowley DE, Wei G (2015b) Study of phenanthrene utilizing bacterial consortia associated with cowpea (Vigna unguiculata) root nodules. World J Microbiol Biotechnol 31:415–433. https://doi.org/10.1007/s11274-014-1796-8
Sun K, Habteselassie MY, Liu J, Li S, Gao Y (2018) Subcellular distribution and biotransformation of phenanthrene in pakchoi after inoculation with endophytic Pseudomonas sp. as probed using HRMS coupled with isotope-labeling. Environ Pollut 237:858–867. https://doi.org/10.1016/j.envpol.2017.11.039
Susarla S, Medina VF, McCutcheon SC (2002) Phytoremediation: an ecological solution to organic chemical contamination. Ecol Eng 18:647–658. https://doi.org/10.1016/S0925-8574(02)00026-5
Sutton NB, Maphosa F, Morillo JA, Abu AS, Langenhoff AA, Grotenhuis T, Rijnaarts HH, Smidt H (2013) Impact of long-term diesel contamination on soil microbial community structure. Appl Environ Microbiol 79:619. https://doi.org/10.1128/AEM.02747-12
Taghavi S, van der Lelie D (2013) Growth-promoting endophytic bacterium Enterobacter sp. 638. In: de Bruijn FJ (ed) Molecular microbial ecology of the rhizosphere. Wiley, Hoboken. pp 899–908. https://doi.org/10.1002/9781118297674.ch84
Taghavi S, Barac T, Greenberg B, Borremans B, Vangronsveld J, van der Lelie D (2005) Horizontal gene transfer to endogenous endophytic bacteria from poplar improves phytoremediation of toluene. Appl Environ Microbiol 71:8500–8505. https://doi.org/10.1128/aem.71.12.8500-8505.2005
Taghavi S, Garafola C, Monchy S, Newman L, Hoffman A, Weyens N, Barac T, Vangronsveld J, van der Lelie D (2009) Genome survey and characterization of endophytic bacteria exhibiting a beneficial effect on growth and development of poplar trees. Appl Environ Microbiol 75:748–757. https://doi.org/10.1128/AEM.02239-08
Taghavi S, van der Lelie D, Hoffman A, Zhang YB, Walla MD, Vangronsveld J, Newman LA, Monchy S (2010) Genome sequence of the plant growth promoting endophytic bacterium Enterobacter sp. 638. PLoS Genet 6:e1000943. https://doi.org/10.1371/journal.pgen.1000943
Tardif S, Yergeau É, Tremblay J, Legendre P, Whyte LG, Greer CW (2016) The willow microbiome is influenced by soil petroleum-hydrocarbon concentration with plant compartment-specific effects. Front Microbiol 7(1363). https://doi.org/10.3389/fmicb.2016.01363
Tervet IW, Hollis JP (1948) Bacteria in the storage organs of healthy plants. Phytopathology 38:960–967
Tétard-Jones C, Edwards R (2016) Potential roles for microbial endophytes in herbicide tolerance in plants. Pest Manag Sci 72:203–209. https://doi.org/10.1002/ps.4147
Thijs S, Sillen W, Weyens N, Vangronsveld J (2016a) Phytoremediation: state-of-the-art and a key role for the plant microbiome in future trends and research prospects. Int J Phytoremediation 19:23–38. https://doi.org/10.1080/15226514.2016.1216076
Thijs S, Sillen W, Rineau F, Weyens N, Vangronsveld J (2016b) Towards an enhanced understanding of plant–microbiome interactions to improve phytoremediation: engineering the metaorganism. Front Microbiol 7. https://doi.org/10.3389/fmicb.2016.00341
Thijs S, Weyens N, Gkorezis P, Vangronsveld J (2018) Plant-endophyte partnerships to assist petroleum hydrocarbon remediation. In: Steffan R (ed) Consequences of microbial interactions with hydrocarbons, oils, and lipids: biodegradation and bioremediation. Handbook of hydrocarbon and lipid microbiology. Springer, Cham, pp 1–34. https://doi.org/10.1007/978-3-319-44535-9_9-1
Tripathi V, Edrisi SA, Chen B, Gupta VK, Vilu R, Gathergood N, Abhilash PC (2017) Biotechnological advances for restoring degraded land for sustainable development. Trends Biotechnol 35:847–859. https://doi.org/10.1016/j.tibtech.2017.05.001
Uhlik O, Leewis MC, Strejcek M, Musilova L, Mackova M, Leigh MB, Macek T (2013) Stable isotope probing in the metagenomics era: a bridge towards improved bioremediation. Biotechnol Adv 31:154–165. https://doi.org/10.1016/j.biotechadv.2012.09.003
van Aken B (2008) Transgenic plants for phytoremediation: helping nature to clean up environmental pollution. Trends Biotechnol 26:225–227. https://doi.org/10.1016/j.tibtech.2008.02.001
van Aken B (2009) Transgenic plants for enhanced phytoremediation of toxic explosives. Curr Opin Biotechnol 20:231–236. https://doi.org/10.1016/j.copbio.2009.01.011
van Aken B (2011) Transgenic plants and associated bacteria for phytoremediation of organic pollutants. In: Moo-Young M (ed) Comprehensive biotechnology, 2nd edn. Academic Press, Burlington, pp 223–237. https://doi.org/10.1016/B978-0-08-088504-9.00330-5
van Aken B, Correa PA, Schnoor JL (2010) Phytoremediation of polychlorinated biphenyls: new trends and promises. Environ Sci Technol 44:2767–2776. https://doi.org/10.1021/es902514d
van Aken B, Tehrani R, Schnoor JL (2011) Endophyte-assisted phytoremediation of explosives in poplar trees by Methylobacterium populi BJ001T. In: Pirttilä AM, Frank AC (eds) Endophytes of forest trees: biology and applications. Springer, Dordrecht, pp 217–234. https://doi.org/10.1007/978-94-007-1599-8_14
van der Lelie D, Barac T, Taghavi S, Vangronsveld J (2005) Response to Newman: new uses of endophytic bacteria to improve phytoremediation. Trends Biotechnol 23:8–9. https://doi.org/10.1016/j.tibtech.2004.11.008
van der Lelie D, Taghavi S, Monchy S, Schwender J, Miller L, Ferrieri R, Rogers A, Wu X, Zhu W, Weyens N, Vangronsveld J, Newman L (2009) Poplar and its bacterial endophytes: coexistence and harmony. Crit Rev Plant Sci 28:346–358. https://doi.org/10.1080/07352680903241204
Vejan P, Abdullah R, Khadiran T, Ismail S, Nasrulhaq Boyce A (2016) Role of plant growth promoting rhizobacteria in agricultural sustainability – a review. Molecules 21:573. https://doi.org/10.3390/molecules21050573
Vishal K, Mehak B, Singh PK, Pratyoosh S (2016) Recent developments in systems biology and metabolic engineering of plant–microbe interactions. Front Plant Sci 7. https://doi.org/10.3389/fpls.2016.01421
Waigi MG, Sun K, Gao Y (2017) Sphingomonads in microbe-assisted phytoremediation: tackling soil pollution. Trends Biotechnol 35:883–899. https://doi.org/10.1016/j.tibtech.2017.06.014
Wang Y, Xiao M, Geng X, Liu J, Chen J (2007) Horizontal transfer of genetic determinants for degradation of phenol between the bacteria living in plant and its rhizosphere. Appl Microbiol Biotechnol 77:733–739. https://doi.org/10.1007/s00253-007-1187-2
Wang Y, Li H, Zhao W, He X, Chen J, Geng X, Xiao M (2010) Induction of toluene degradation and growth promotion in corn and wheat by horizontal gene transfer within endophytic bacteria. Soil Biol Biochem 42:1051–1057. https://doi.org/10.1016/j.soilbio.2010.03.002
Wang J, Zhang X, Ling W, Liu R, Liu J, Kang F, Gao Y (2017a) Contamination and health risk assessment of PAHs in soils and crops in industrial areas of the Yangtze River Delta region, China. Chemosphere 168:976–987. https://doi.org/10.1016/j.chemosphere.2016.10.113
Wang J, Liu J, Ling W, Huang Q, Gao Y (2017b) Composite of PAH-degrading endophytic bacteria reduces contamination and health risks caused by PAHs in vegetables. Sci Total Environ 598:471–478. https://doi.org/10.1016/j.scitotenv.2017.04.126
Weilharter A, Mitter B, Shin MV, Chain PSG, Nowak J, Sessitsch A (2011) Complete genome sequence of the plant growth-promoting endophyte Burkholderia phytofirmans strain PsJN. J Bacteriol 193:3383–3384. https://doi.org/10.1128/JB.05055-11
Weir E, Doty S (2016) Social acceptability of phytoremediation: the role of risk and values. Int J Phytoremediation 18:1029–1036. https://doi.org/10.1080/15226514.2016.1183571
Weyens N, van der Lelie D, Artois T, Smeets K, Taghavi S, Newman L, Carleer R, Vangronsveld J (2009a) Bioaugmentation with engineered endophytic bacteria improves contaminant fate in phytoremediation. Environ Sci Technol 43:9413–9418. https://doi.org/10.1021/es901997z
Weyens N, van der Lelie D, Taghavi S, Newman L, Vangronsveld J (2009b) Exploiting plant–microbe partnerships to improve biomass production and remediation. Trends Biotechnol 27:591–598. https://doi.org/10.1016/j.tibtech.2009.07.006
Weyens N, van der Lelie D, Taghavi S, Vangronsveld J (2009c) Phytoremediation: plant–endophyte partnerships take the challenge. Curr Opin Biotechnol 20:248–254. https://doi.org/10.1016/j.copbio.2009.02.012
Weyens N, Croes S, Dupae J, Newman L, van der Lelie D, Carleer R, Vangronsveld J (2010a) Endophytic bacteria improve phytoremediation of Ni and TCE co-contamination. Environ Pollut 158:2422–2427. https://doi.org/10.1016/j.envpol.2010.04.004
Weyens N, Truyens S, Dupae J, Newman L, Taghavi S, van der Lelie D, Carleer R, Vangronsveld J (2010b) Potential of the TCE-degrading endophyte Pseudomonas putida W619-TCE to improve plant growth and reduce TCE phytotoxicity and evapotranspiration in poplar cuttings. Environ Pollut 158:2915–2919. https://doi.org/10.1016/j.envpol.2010.06.004
Weyens N, Boulet J, Adriaensen D, Timmermans J-P, Prinsen E, Sandra VO, D’Haen J, Smeets K, van der Lelie D, Taghavi S, Vangronsveld J (2012) Contrasting colonization and plant growth promoting capacity between wild type and a gfp-derivative of the endophyte Pseudomonas putida W619 in hybrid poplar. Plant and Soil 356:217–230. https://doi.org/10.1007/s11104-011-0831-x
Witters N, Mendelsohn R, Van Passel S, Van Slycken S, Weyens N, Schreurs E, Meers E, Tack F, Vanheusden B, Vangronsveld J (2012a) Phytoremediation, a sustainable remediation technology? II: economic assessment of CO2 abatement through the use of phytoremediation crops for renewable energy production. Biomass Bioenergy 39:470–477. https://doi.org/10.1016/j.biombioe.2011.11.017
Witters N, Mendelsohn RO, Van Slycken S, Weyens N, Schreurs E, Meers E, Tack F, Carleer R, Vangronsveld J (2012b) Phytoremediation, a sustainable remediation technology? Conclusions from a case study. I: energy production and carbon dioxide abatement. Biomass Bioenergy 39:454–469. https://doi.org/10.1016/j.biombioe.2011.08.016
World Health Organization (2018) Persistent organic pollutants (POPs) WHO Department of Food Safety and Zoonoses (FOS). http://www.who.int/foodsafety/areas_work/chemical-risks/pops/en/. Accessed 28 Nov 2018
Wu CH, Bernard SM, Andersen GL, Chen W (2009) Developing microbe-plant interactions for applications in plant-growth promotion and disease control, production of useful compounds, remediation and carbon sequestration. J Microbial Biotechnol 2:428–440. https://doi.org/10.1111/j.1751-7915.2009.00109.x
Yousaf S, Andria V, Reichenauer TG, Smalla K, Sessitsch A (2010a) Phylogenetic and functional diversity of alkane degrading bacteria associated with Italian ryegrass (Lolium multiflorum) and Birdsfoot trefoil (Lotus corniculatus) in a petroleum oil-contaminated environment. J Hazard Mater 184:523–532. https://doi.org/10.1016/j.jhazmat.2010.08.067
Yousaf S, Ripka K, Reichenauer TG, Andria V, Afzal M, Sessitsch A (2010b) Hydrocarbon degradation and plant colonization by selected bacterial strains isolated from Italian ryegrass and birdsfoot trefoil. J Appl Microbiol 109:1389–1401. https://doi.org/10.1111/j.1365-2672.2010.04768.x
Yousaf S, Afzal M, Reichenauer TG, Brady CL, Sessitsch A (2011) Hydrocarbon degradation, plant colonization and gene expression of alkane degradation genes by endophytic Enterobacter ludwigii strains. Environ Pollut 159:2675–2683. https://doi.org/10.1016/j.envpol.2011.05.031
Zhang C, Feng Y, Liu Y-W, Chang H-Q, Li Z-J, Xue J-M (2017) Uptake and translocation of organic pollutants in plants: a review. J Integr Agric 16:1659–1668. https://doi.org/10.1016/S2095-3119(16)61590-3
Zhu X, Ni X, Liu J, Gao Y (2014) Application of endophytic bacteria to reduce persistent organic pollutants contamination in plants. CLEAN-Soil Air Water 42:306–310. https://doi.org/10.1002/clen.201200314
Zhu X, Jin L, Sun K, Li S, Ling W, Li X (2016a) Potential of endophytic bacterium Paenibacillus sp. PHE-3 isolated from Plantago asiatica L. for reduction of PAH contamination in plant tissues. Int J Environ Res Public Health 13:633. https://doi.org/10.3390/ijerph13070633
Zhu X, Jin L, Kai S, Li S, Li X, Ling W (2016b) Phenanthrene and pyrene modify the composition and structure of the cultivable endophytic bacterial community in ryegrass (Lolium multiflorum Lam). Int J Environ Res Public Health 13:1081. https://doi.org/10.3390/ijerph13111081
Zhu X, Wang W, Sun K, Lin X, Li S, Waigi MG, Ling W (2017a) Inoculating wheat (Triticum aestivum L.) with the endophytic bacterium Serratia sp. PW7 to reduce pyrene contamination. Int J Phytoremediation 19:718–724. https://doi.org/10.1080/15226514.2017.1284747
Zhu X, Wang W, Crowley DE, Sun K, Hao S, Waigi MG, Gao Y (2017b) The endophytic bacterium Serratia sp. PW7 degrades pyrene in wheat. Environ Sci Pollut Res 24:6648–6656. https://doi.org/10.1007/s11356-016-8345-y
Zinniel DK, Lambrecht P, Harris NB, Feng Z, Kuczmarski D, Higley P, Ishimaru CA, Arunakumari A, Barletta RG, Vidaver AK (2002) Isolation and characterization of endophytic colonizing bacteria from agronomic crops and prairie plants. Appl Environ Microbiol 68:2198–2208. https://doi.org/10.1128/AEM.68.5.2198-2208.2002
Acknowledgments
This work was financially supported by the National Key Research and Development Program of China (2016YFD0800203), the National Natural Science Foundation of China (41877125, 41771523), and the Jiangsu Provincial Key Research and Development Plan, China (BE2017718). The authors are also appreciative of the valuable suggestions that the editor and the anonymous reviewers made in improving the quality of this manuscript.
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Waigi, M.G. et al. (2019). Endophytic Bacteria in in planta Organopollutant Detoxification in Crops. In: de Voogt, P. (eds) Reviews of Environmental Contamination and Toxicology Volume 252. Reviews of Environmental Contamination and Toxicology, vol 252. Springer, Cham. https://doi.org/10.1007/398_2019_33
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