|
|
|
Transmembrane transport of polycyclic aromatic hydrocarbons by bacteria and functional regulation of membrane proteins |
Hongqi Wang1(), Ruhan Jiang1, Dekang Kong1, Zili Liu1, Xiaoxiong Wu1, Jie Xu1, Yi Li2,3() |
1. College of Water Sciences, Beijing Normal University, Beijing 100875, China 2. Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Ministry of Education), Guangxi Normal University, Guilin 541004, China 3. College of Environment and Resource, Guangxi Normal University, Guilin 541004, China |
|
|
|
Abstract: • Explaintheadsorption, uptake and transmembrane transport of PAHs by bacteria. • Analyze functional regulation of membrane proteins inthe transmembrane transport. • Proteomics technology such as iTRAQ labeling was used to access expressed proteins. • Single cell analysis technology wereused to study the morphological structure. In recent years, increasing research has been conducted on transmembrane transport processes and the mechanisms behind the microbial breakdown of polycyclic aromatic hydrocarbons (PAHs), including the role of membrane proteins in transmembrane transport and the mode of transmission. This article explains the adsorption, uptake and transmembrane transport of PAHs by bacteria, the regulation of membrane protein function during the transmembrane transport. There are three different regulation mechanisms for uptake, depending on the state and size of the oil droplets relative to the size of the microbial cells, which are (i) direct adhesion, (ii) emulsification and pseudosolubilization, and (iii) interfacial uptake. Furthermore, two main transmembrane transport modes are introduced, which are (i) active transport and (ii) passive uptake and active efflux mechanism. Meanwhile, introduce the proteomics and single cell analysis technology used to address these areas of research, such as Isobaric tags for relative and absolute quantitation (iTRAQ) technology and Nano Secondary ion mass spectrometry (Nano-SIMS). Additionally, analyze the changes in morphology and structure and the characteristics of microbial cell membranes in the process of transmembrane transport. Finally, recognize the microscopic mechanism of PAHs biodegradation in terms of cell and membrane proteins are of great theoretical and practical significance for understanding the factors that influence the efficient degradation of PAHs contaminants in soil and for remediating the PAHs contamination in this area with biotechnology. |
Keywords
Polycyclic aromatic hydrocarbons
Transmembrane transport
Adsorption and uptake of hydrocarbons
Proteomics
Functional regulation of membrane protein
Single cell analysis technology
|
发布日期: 2019-10-31
|
|
|
1 |
K O Abdalla, M S Rafudeen (2012). Analysis of the nuclear proteome of the resurrection plant Xerophyta viscosa in response to dehydration stress using iTRAQ with 2DLC and tandem mass spectrometry. Journal of Proteomics, 75(8): 2361–2374
https://doi.org/10.1016/j.jprot.2012.02.006
pmid: 22361341
|
2 |
M Abouseoud, A Yataghene, A Amrane, R Maachi (2010). Effect of pH and salinity on the emulsifying capacity and naphthalene solubility of a biosurfactant produced by Pseudomonas fluorescens. Journal of Hazardous Materials, 180(1-3): 131–136
https://doi.org/10.1016/j.jhazmat.2010.04.003
pmid: 20430520
|
3 |
M S Almén, K J V Nordström, R Fredriksson, H B Schiöth (2009). Mapping the human membrane proteome: a majority of the human membrane proteins can be classified according to function and evolutionary origin. BMC Biology, 7(1): 1–14
https://doi.org/10.1186/1741-7007-7-50
pmid: 19678920
|
4 |
Z Aspridou, A Balomenos, P Tsakanikas, E Manolakos, K Koutsoumanis (2019). Heterogeneity of single cell inactivation: Assessment of the individual cell time to death and implications in population behavior. Food Microbiology, 80: 85–92
https://doi.org/10.1016/j.fm.2018.12.011
pmid: 30704600
|
5 |
A S Azevedo, C Almeida, B Pereira, P Madureira, J Wengel, N F Azevedo (2015). Detection and discrimination of biofilm populations using locked nucleic acid/2'-O-methyl-RNA fluorescence in situ hybridization (LNA/2'OMe-FISH). Biochemical Engineering Journal, 104: 64–73
https://doi.org/10.1016/j.bej.2015.04.024
|
6 |
V Bansal, K H Kim (2015). Review of PAH contamination in food products and their health hazards. Environment International, 84: 26–38
https://doi.org/10.1016/j.envint.2015.06.016
pmid: 26203892
|
7 |
J N Bateman, B Speer, L Feduik, R A Hartline (1986). Naphthalene association and uptake in Pseudomonas putida. Journal of Bacteriology, 166(1): 155–161
https://doi.org/10.1128/jb.166.1.155-161.1986
pmid: 3957866
|
8 |
L F Bautista, R Sanz, M C Molina, N Gonzalez, D Sanchez (2009). Effect of different non-ionic surfactants on the biodegradation of PAHs by diverse aerobic bacteria. International Biodeterioration & Biodegradation, 63(7): 913–922
https://doi.org/10.1016/j.ibiod.2009.06.013
|
9 |
E Borbás, B Sinkó, O Tsinman, K Tsinman, É Kiserdei, B Démuth, A Balogh, B Bodák, A Domokos, G Dargó, G T Balogh, Z K Nagy (2016). Investigation and Mathematical Description of the Real Driving Force of Passive Transport of Drug Molecules from Supersaturated Solutions. Molecular Pharmaceutics, 13(11): 3816–3826
https://doi.org/10.1021/acs.molpharmaceut.6b00613
pmid: 27611057
|
10 |
M Bouchez, D Blanchet, J P Vandecasteele (1997). An interfacial uptake mechanism for the degradation of pyrene by a Rhodococcus strain. Microbiology, 143(4): 1087–1093
https://doi.org/10.1099/00221287-143-4-1087
|
11 |
M Bouchez Naïtali, H Rakatozafy, R Marchal, J Y Leveau, J P Vandecasteele (1999). Diversity of bacterial strains degrading hexadecane in relation to the mode of substrate uptake. Journal of Applied Microbiology, 86(3): 421–428
https://doi.org/10.1046/j.1365-2672.1999.00678.x
pmid: 10196747
|
12 |
M Bouchez-Naïtali, J P Vandecasteele (2008). Biosurfactants, an help in the biodegradation of hexadecane? The case of Rhodococcus and Pseudomonas strains. World Journal of Microbiology & Biotechnology, 24(9): 1901–1907
https://doi.org/10.1007/s11274-008-9691-9
|
13 |
D A P Bramwell, S Laha (2000). Effects of surfactant addition on the biomineralization and microbial toxicity of phenanthrene. Biodegradation, 11(4): 263–277
|
14 |
T Bugg, J M Foght, M A Pickard, M R Gray (2000). Uptake and active efflux of polycyclic aromatic hydrocarbons by Pseudomonas fluorescens LP6a. Applied and Environmental Microbiology, 66(12): 5387–5392
https://doi.org/10.1128/AEM.66.12.5387-5392.2000
pmid: 11097918
|
15 |
T P Call, M K Akhtar, F Baganz, C Grant (2016). Modulating the import of medium-chain alkanes in E. coli through tuned expression of FadL. Journal of Biological Engineering, 10(1): 5
https://doi.org/10.1186/s13036-016-0026-3
pmid: 27053948
|
16 |
M Cao, A Cao, Y Li, W Wang, Y Wang, L Cai (2019). Effects of magnetic nanoparticles plus microwave on the thawing of largemouth bass (Micropterus salmoides) fillets based on iTRAQ quantitative proteomics. Food Chemistry, 286: 506–514
https://doi.org/10.1016/j.foodchem.2019.02.051
pmid: 30827639
|
17 |
B Chen, J Ding (2012). Biosorption and biodegradation of phenanthrene and pyrene in sterilized and unsterilized soil slurry systems stimulated by Phanerochaete chrysosporium. Journal of Hazardous Materials, 229-230: 159–169
https://doi.org/10.1016/j.jhazmat.2012.05.090
pmid: 22709850
|
18 |
B Chen, Y Wang, D Hu (2010). Biosorption and biodegradation of polycyclic aromatic hydrocarbons in aqueous solutions by a consortium of white-rot fungi. Journal of Hazardous Materials, 179(1-3): 845–851
https://doi.org/10.1016/j.jhazmat.2010.03.082
pmid: 20381959
|
19 |
F Chen, Y Yuan, Q Li, Z He (2007). Proteomic analysis of rice plasma membrane reveals proteins involved in early defense response to bacterial blight. Proteomics, 7(9): 1529–1539
https://doi.org/10.1002/pmic.200500765
pmid: 17407182
|
20 |
T Chen, L Zhang, H Shang, S Liu, J Peng, W Gong, Y Shi, S Zhang, J Li, J Gong, Q Ge, A Liu, H Ma, X Zhao, Y Yuan (2016). iTRAQ-based quantitative proteomic analysis of cotton roots and leaves reveals pathways associated with salt stress. PLoS One, 11(2): 1–15
https://doi.org/10.1371/journal.pone.0148487
pmid: 26841024
|
21 |
P M Chong, T Lynch, S McCorrister, P Kibsey, M Miller, D Gravel, G R Westmacott, M R Mulvey, Canadian Nosocomial Infection Surveillance Program (CNISP) (2014). Proteomic analysis of a NAP1 Clostridium difficile clinical isolate resistant to metronidazole. PLoS One, 9(1): 1–10
https://doi.org/10.1371/journal.pone.0082622
pmid: 24400070
|
22 |
J Chunyun, L Peijun, L Xiaojun, T Peidong, L Wan, G Zongqiang (2011). Degradation of pyrene in soils by extracellular polymeric substances (EPS) extracted from liquid cultures. Process Biochemistry, 46(8): 1627–1631
|
23 |
R W Eaton (1994). Organization and evolution of naphthalene catabolic pathways: Sequence of the DNA encoding 2-hydroxychromene-2-carboxylate isomerase and trans-o-hydroxybenzylidenepyruvate hydratase-aldolase from the NAH7 plasmid. Journal of Bacteriology, 176(24): 7757–7762
https://doi.org/10.1128/jb.176.24.7757-7762.1994
pmid: 8002605
|
24 |
D A Edwards, Z Liu, R G Luthy (1992). Interactions between nonionic surfactant monomers, hydrophobic organic-compounds and soil. Water Science and Technology, 26(1-2): 147–158
https://doi.org/10.2166/wst.1992.0395
|
25 |
D A Edwards, Z B Liu, R G Luthy (1994). Experimental-data and modeling for surfactant micelles, hocs, and soil. Journal of Environmental Engineering, 120(1): 23–41
https://doi.org/10.1061/(ASCE)0733-9372(1994)120:1(23)
|
26 |
J Fan, C Chen, Q Yu, R H Brlansky, Z G Li, F G Gmitter Jr (2011). Comparative iTRAQ proteome and transcriptome analyses of sweet orange infected by “Candidatus Liberibacter asiaticus”. Physiologia Plantarum, 143(3): 235–245
https://doi.org/10.1111/j.1399-3054.2011.01502.x
pmid: 21838733
|
27 |
K J Foster, S J Miklavcic (2016). Modeling Root Zone Effects on Preferred Pathways for the Passive Transport of Ions and Water in Plant Roots. Frontiers in plant science, 7: 914
https://doi.org/10.3389/fpls.2016.00914
pmid: 27446144
|
28 |
A H Franks, H J M Harmsen, G C Raangs, G J Jansen, F Schut, G W Welling (1998). Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes. Applied and Environmental Microbiology, 64(9): 3336–3345
pmid: 9726880
|
29 |
F Fukumori, H Hirayama, H Takami, A Inoue, K Horikoshi (1998). Isolation and transposon mutagenesis of a Pseudomonas putida KT2442 toluene-resistant variant: involvement of an efflux system in solvent resistance. Extremophiles, 2(4): 395–400
https://doi.org/10.1007/s007920050084
pmid: 9827328
|
30 |
S Furuno, K Päzolt, C Rabe, T R Neu, H Harms, L Y Wick (2010). Fungal mycelia allow chemotactic dispersal of polycyclic aromatic hydrocarbon-degrading bacteria in water-unsaturated systems. Environmental Microbiology, 12(6): 1391–1398
pmid: 19691501
|
31 |
S Gan, E V Lau, H K Ng (2009). Remediation of soils contaminated with polycyclic aromatic hydrocarbons (PAHs). Journal of Hazardous Materials, 172(2-3): 532–549
https://doi.org/10.1016/j.jhazmat.2009.07.118
pmid: 19700241
|
32 |
X Gan, Y Teng, L Zhao, W Ren, W Chen, J Hao, P Christie, Y Luo (2018). Influencing mechanisms of hematite on benzo(a)pyrene degradation by the PAH-degrading bacterium Paracoccus sp. Strain HPD-2: insight from benzo(a)pyrene bioaccessibility and bacteria activity. Journal of Hazardous Materials, 359: 348–355
https://doi.org/10.1016/j.jhazmat.2018.07.070
pmid: 30048949
|
33 |
D Gao, X Huang, Y J C R I B Tao (2015). A critical review of NanoSIMS in analysis of microbial metabolic activities at single-cell level. Critical Reviews in Biotechnology, 36(5): 1
|
34 |
F Gao, F Nan, J Feng, J Lv, Q Liu, S J R B Xie (2016). Identification and characterization of microRNAs in Eucheuma denticulatum by high-throughput sequencing and bioinformatics analysis. RNA biology, 13(3): 343–352
|
35 |
M García-Junco, E De Olmedo, J J Ortega-Calvo (2001). Bioavailability of solid and non-aqueous phase liquid (NAPL)-dissolved phenanthrene to the biosurfactant-producing bacterium Pseudomonas aeruginosa 19SJ. Environmental Microbiology, 3(9): 561–569
https://doi.org/10.1046/j.1462-2920.2001.00223.x
pmid: 11683866
|
36 |
J Geddes, F Eudes, A Laroche, L B Selinger (2008). Differential expression of proteins in response to the interaction between the pathogen Fusarium graminearum and its host, Hordeum vulgare. Proteomics, 8(3): 545–554
https://doi.org/10.1002/pmic.200700115
pmid: 18232057
|
37 |
P Goswami, H D Singh (1991). Different modes of hydrocarbon uptake by two Pseudomonas species. Biotechnology and Bioengineering, 37(1): 1–11
https://doi.org/10.1002/bit.260370103
pmid: 18597301
|
38 |
P C Goswami, H D Singh, S D Bhagat, J N Baruah (1983). Mode of uptake of insoluble solid substrates by microorganisms. I: Sterol uptake by an arthrobacter species. Biotechnology and Bioengineering, 25(12): 2929–2943
https://doi.org/10.1002/bit.260251210
pmid: 18548628
|
39 |
D Gupta, M Mohammed, L P Mekala, S Chintalapati, V R Chintalapati (2019). iTRAQ-based quantitative proteomics reveals insights into metabolic and molecular responses of glucose-grown cells of Rubrivivax benzoatilyticus JA2. Journal of Proteomics, 194: 49–59
https://doi.org/10.1016/j.jprot.2018.12.027
pmid: 30597313
|
40 |
E M Hearn, D R Patel, B van den Berg (2008). Outer-membrane transport of aromatic hydrocarbons as a first step in biodegradation. Proceedings of the National Academy of Sciences of the United States of America, 105(25): 8601–8606
https://doi.org/10.1073/pnas.0801264105
pmid: 18559855
|
41 |
H Hong, D R Patel, L K Tamm, B van den Berg (2006). The outer membrane protein OmpW forms an eight-stranded -barrel with a hydrophobic channel. The Journal of biological chemistry, 281(11): 7568–7577
https://doi.org/10.1074/jbc.M512365200
pmid: 16414958
|
42 |
K Hori, Y Matsuzaki, Y Tanji, H Unno (2002). Effect of dispersing oil phase on the biodegradability of a solid alkane dissolved in non-biodegradable oil. Applied Microbiology and Biotechnology, 59(4-5): 574–579
https://doi.org/10.1007/s00253-002-1021-9
pmid: 12172628
|
43 |
F Hua, H Wang (2012). Uptake modes of octadecane by Pseudomonas sp. DG17 and synthesis of biosurfactant. Journal of Applied Microbiology, 112(1): 25–37
https://doi.org/10.1111/j.1365-2672.2011.05178.x
pmid: 22008053
|
44 |
F Hua, H Q Wang (2014). Uptake and trans-membrane transport of petroleum hydrocarbons by microorganisms. Biotechnology, Biotechnological Equipment, 28(2): 165–175
https://doi.org/10.1080/13102818.2014.906136
pmid: 26740752
|
45 |
S Inakollu, H C Hung, G S Shreve (2004). Biosurfactant enhancement of microbial degradation of various structural classes of hydrocarbon in mixed waste systems. Environmental Engineering Science, 21(4): 463–469
https://doi.org/10.1089/1092875041358467
|
46 |
S Isken, J A De Bont (2000). The solvent efflux system of Pseudomonas putida S12 is not involved in antibiotic resistance. Applied Microbiology and Biotechnology, 54(5): 711–714
https://doi.org/10.1007/s002530000453
pmid: 11131400
|
47 |
C Y Jia, P J Li, X J Li, P D Tai, W Liu, Z Q Gong (2011). Degradation of pyrene in soils by extracellular polymeric substances (EPS) extracted from liquid cultures. Process Biochemistry, 46(8): 1627–1631
https://doi.org/10.1016/j.procbio.2011.05.005
|
48 |
A P Jonsson, T L Östberg (2011). The effects of carbon sources and micronutrients in whey and fermented whey on the kinetics of phenanthrene biodegradation in diesel contaminated soil. Journal of Hazardous Materials, 192(3): 1171–1177
https://doi.org/10.1016/j.jhazmat.2011.06.024
pmid: 21741168
|
49 |
H Y Kahng, A M Byrne, R H Olsen, J J Kukor (2000). Characterization and role of tbuX in utilization of toluene by Ralstonia pickettii PKO1. Journal of Bacteriology, 182(5): 1232–1242
https://doi.org/10.1128/JB.182.5.1232-1242.2000
pmid: 10671442
|
50 |
T Kanbayashi, H Miyafuji (2016). Microscopic characterization of tension wood cell walls of Japanese beech (Fagus crenata) treated with ionic liquids. Micron (Oxford, England: 1993), 88: 24–29
https://doi.org/10.1016/j.micron.2016.05.007
pmid: 27285953
|
51 |
Y Kasai, J Inoue, S Harayama (2001). The TOL plasmid pWW0 xylN gene product from Pseudomonas putida is involved in m-xylene uptake. Journal of Bacteriology, 183(22): 6662–6666
https://doi.org/10.1128/JB.183.22.6662-6666.2001
pmid: 11673437
|
52 |
L Ke, L Luo, P Wang, T Luan, N F Y Tam (2010). Effects of metals on biosorption and biodegradation of mixed polycyclic aromatic hydrocarbons by a freshwater green alga Selenastrum capricornutum. Bioresource Technology, 101(18): 6950–6972
https://doi.org/10.1016/j.biortech.2010.04.011
pmid: 20435470
|
53 |
C Kondethimmanahalli, H Liu, R R Ganta (2019). Proteome Analysis Revealed Changes in Protein Expression Patterns Caused by Mutations in Ehrlichia chaffeensis. Frontiers in Cellular and Infection Microbiology, 9: 58
https://doi.org/10.3389/fcimb.2019.00058
pmid: 30937288
|
54 |
S Kumar, T Verma, R Mukherjee, F Ariese, K Somasundaram, S Umapathy (2016). Raman and infra-red microspectroscopy: towards quantitative evaluation for clinical research by ratiometric analysis. Chemical Society Reviews, 45(7): 1879–1900
https://doi.org/10.1039/C5CS00540J
pmid: 26497386
|
55 |
C C Lai, Y C Huang, Y H Wei, J S Chang (2009). Biosurfactant-enhanced removal of total petroleum hydrocarbons from contaminated soil. Journal of Hazardous Materials, 167(1/3): 609–614
https://doi.org/10.1016/j.jhazmat.2009.01.017
pmid: 19217712
|
56 |
C Lechene, F Hillion, G McMahon, D Benson, A M Kleinfeld, J P Kampf, D Distel, Y Luyten, J Bonventre, D Hentschel, K M Park, S Ito, M Schwartz, G Benichou, G Slodzian (2006). High-resolution quantitative imaging of mammalian and bacterial cells using stable isotope mass spectrometry. Journal of Biology, 5(6): 20
https://doi.org/10.1186/jbiol42
pmid: 17010211
|
57 |
C P Lechene, Y Luyten, G McMahon, D L Distel (2007). Quantitative imaging of nitrogen fixation by individual bacteria within animal cells. Science, 317(5844): 1563–1566
https://doi.org/10.1126/science.1145557
pmid: 17872448
|
58 |
C B Lee, Y H Na, T E Hong, E H Choi, H S Uhm, K Y Baik, G Kwon (2014). Evidence of radicals created by plasma in bacteria in water. Applied Physics Letters, 105(7): 073702
https://doi.org/10.1063/1.4893565
|
59 |
M Lee, M K Kim, I Singleton, M Goodfellow, S T Lee (2006). Enhanced biodegradation of diesel oil by a newly identified Rhodococcus baikonurensis EN3 in the presence of mycolic acid. Journal of Applied Microbiology, 100(2): 325–333
https://doi.org/10.1111/j.1365-2672.2005.02756.x
pmid: 16430509
|
60 |
B W Lepore, M Indic, H Pham, E M Hearn, D R Patel, B van den Berg (2011). Ligand-gated diffusion across the bacterial outer membrane. Proceedings of the National Academy of Sciences of the United States of America, 108(25): 10121–10126
https://doi.org/10.1073/pnas.1018532108
pmid: 21593406
|
61 |
W Li, L Wen, C Li, R Chen, Z Ye, J Zhao, J Pan (2016). Contribution of the outer membrane protein OmpW in Escherichia coli to complement resistance from binding to factor H. Microbial Pathogenesis, 98: 57–62
https://doi.org/10.1016/j.micpath.2016.06.024
pmid: 27364548
|
62 |
Y Li, H Wang, F Hua, M Su, Y Zhao (2014). Trans-membrane transport of fluoranthene by Rhodococcus sp. BAP-1 and optimization of uptake process. Bioresource Technology, 155(155C): 213–219
https://doi.org/10.1016/j.biortech.2013.12.117
pmid: 24457306
|
63 |
J Ling, Y F Jiang, Y S Wang, J D Dong, Y Y Zhang, Y Z Zhang (2015). Responses of bacterial communities in seagrass sediments to polycyclic aromatic hydrocarbon-induced stress. Ecotoxicology (London, England), 24(7-8): 1517–1528
https://doi.org/10.1007/s10646-015-1493-x
pmid: 26048240
|
64 |
S Liu, C Guo, Z Dang, X Liang (2017). Comparative proteomics reveal the mechanism of Tween80 enhanced phenanthrene biodegradation by Sphingomonas sp. GY2B. Ecotoxicology and Environmental Safety, 137: 256–264
https://doi.org/10.1016/j.ecoenv.2016.12.015
pmid: 27984820
|
65 |
Y F Lu, M Lu (2015). Remediation of PAH-contaminated soil by the combination of tall fescue, arbuscular mycorrhizal fungus and epigeic earthworms. Journal of Hazardous Materials, 285: 535–541
https://doi.org/10.1016/j.jhazmat.2014.07.021
pmid: 25534968
|
66 |
C T MacLeod, A J Daugulis (2005). Interfacial effects in a two-phase partitioning bioreactor: Degradation of polycyclic aromatic hydrocarbons (PAHs) by a hydrophobic Mycobacterium. Process Biochemistry, 40(5): 1799–1805
https://doi.org/10.1016/j.procbio.2004.06.042
|
67 |
A M Martorana, S Motta, P Sperandeo, P Mauri, A Polissi (2016). Bacterial Cell Wall Homeostasis: Methods and Protocols. Hong H J, ed. New York: Springer, 57–70
|
68 |
C Militon, R Jézéquel, F Gilbert, Y Corsellis, L Sylvi, C Cravo-Laureau, R Duran, P Cuny (2015). Dynamics of bacterial assemblages and removal of polycyclic aromatic hydrocarbons in oil-contaminated coastal marine sediments subjected to contrasted oxygen regimes. Environmental Science and Pollution Research International, 22(20): 15260–15272
https://doi.org/10.1007/s11356-015-4510-y
pmid: 25997808
|
69 |
Y Miura, M Okazaki, S I Hamada, S I Murakawa, R Yugen (1977). Assimilation of liquid hydrocarbon by microorganisms. I. Mechanism of hydrocarbon uptake. Biotechnology and Bioengineering, 19(5): 701–714
https://doi.org/10.1002/bit.260190507
pmid: 322743
|
70 |
N Miyata, K Iwahori, J M Foght, M R Gray (2004). Saturable, energy-dependent uptake of phenanthrene in aqueous phase by Mycobacterium sp. strain RJGII-135. Applied and Environmental Microbiology, 70(1): 363–369
https://doi.org/10.1128/AEM.70.1.363-369.2004
pmid: 14711664
|
71 |
A Moter, U B Göbel (2000). Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms. Journal of Microbiological Methods, 41(2): 85–112
https://doi.org/10.1016/S0167-7012(00)00152-4
pmid: 10991623
|
72 |
H Mulder, A M Breure, J G Van Andel, J T C Grotenhuis, W H Rulkens (1998). Influence of hydrodynamic conditions on naphthalene dissolution and subsequent biodegradation. Biotechnology and Bioengineering, 57(2): 145–154
https://doi.org/10.1002/(SICI)1097-0290(19980120)57:2<145::AID-BIT3>3.0.CO;2-N
pmid: 10099189
|
73 |
R V V S N Murthy, J S Arora, B V S J I J Kumar O a R (2015). Comparative proteome analysis of Brucella abortus under different growth conditions by two dimensional electrophoresis. International Journal of Advanced Research, 3(2): 795–800
|
74 |
S H Nagaraj, H C Harsha, A Reverter, M L Colgrave, R Sharma, N Andronicos, P Hunt, M Menzies, M S Lees, N R Sekhar, A Pandey, A Ingham (2012). Proteomic analysis of the abomasal mucosal response following infection by the nematode, Haemonchus contortus, in genetically resistant and susceptible sheep. Journal of Proteomics, 75(7): 2141–2152
https://doi.org/10.1016/j.jprot.2012.01.016
pmid: 22285630
|
75 |
T Nakahara, L E Erickson, J R Gutierrez (1977). Characteristics of hydrocarbon uptake in cultures with two liquid phases. Biotechnology and Bioengineering, 19(1): 9–25
https://doi.org/10.1002/bit.260190103
pmid: 843616
|
76 |
V J Orphan, C H House, K U Hinrichs, K D McKeegan, E F DeLong (2001). Methane-consuming archaea revealed by directly coupled isotopic and phylogenetic analysis. Science, 293(5529): 484–487
https://doi.org/10.1126/science.1061338
pmid: 11463914
|
77 |
X L Pan, J Liu, W J Song, D Y Zhang (2012). Biosorption of Cu(II) to extracellular polymeric substances (EPS) from Synechoeystis sp.: A fluorescence quenching study. Frontiers of Environmental Science & Engineering, 6(4): 493–497
https://doi.org/10.1007/s11783-012-0416-9
|
78 |
X T Peng, Z X Guo, C H House, S Chen, K W Ta (2016). SIMS and NanoSIMS analyses of well-preserved microfossils imply oxygen-producing photosynthesis in the Mesoproterozoic anoxic ocean. Chemical Geology, 441: 24–34
https://doi.org/10.1016/j.chemgeo.2016.08.011
|
79 |
A Pernthaler, J Pernthaler, R Amann (2002). Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria. Applied and Environmental Microbiology, 68(6): 3094–3101
https://doi.org/10.1128/AEM.68.6.3094-3101.2002
pmid: 12039771
|
80 |
F Polak, M Urik, P Matus (2019). Low molecular weight organic acids in soil environment. Chemické Listy, 113: 307–314
|
81 |
J M Radziwill-Bienkowska, P Talbot, J B J Kamphuis, V Robert, C Cartier, I Fourquaux, E Lentzen, J N Audinot, F Jamme, M Réfrégiers, J K Bardowski, P Langella, M Kowalczyk, E Houdeau, M Thomas, M Mercier-Bonin (2018). Toxicity of Food-Grade TiO2 to commensal intestinal and transient food-borne bacteria: New Insights using nano-SIMS and synchrotron UV fluorescence imaging. Frontiers in Microbiology, 9: 794
https://doi.org/10.3389/fmicb.2018.00794
pmid: 29740421
|
82 |
J L Ramos, E Duque, P Godoy, A Segura (1998). Efflux pumps involved in toluene tolerance in Pseudomonas putida DOT-T1E. Journal of Bacteriology, 180(13): 3323–3329
pmid: 9642183
|
83 |
M I Ramos-González, M Olson, A A Gatenby, G Mosqueda, M Manzanera, M J Campos, S Víchez, J L Ramos (2002). Cross-regulation between a novel two-component signal transduction system for catabolism of toluene in Pseudomonas mendocina and the TodST system from Pseudomonas putida. Journal of Bacteriology, 184(24): 7062–7067
https://doi.org/10.1128/JB.184.24.7062-7067.2002
pmid: 12446657
|
84 |
E Rosenberg (1993). Exploiting microbial growth on hydrocarbons:New markets. Trends in Biotechnology, 11(10): 419–424
https://doi.org/10.1016/0167-7799(93)90005-T
|
85 |
M Rosenberg, D Gutnick, E Rosenberg (1980). Adherence of bacteria to hydrocarbons: A simple method for measuring cell-surface hydrophobicity. FEMS Microbiology Letters, 9(1): 29–33
https://doi.org/10.1111/j.1574-6968.1980.tb05599.x
|
86 |
P L Ross, Y N Huang, J N Marchese, B Williamson, K Parker, S Hattan, N Khainovski, S Pillai, S Dey, S Daniels, S Purkayastha, P Juhasz, S Martin, M Bartlet-Jones, F He, A Jacobson, D J Pappin (2004). Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Molecular & cellular proteomics: MCP, 3(12): 1154–1169
https://doi.org/10.1074/mcp.M400129-MCP200
pmid: 15385600
|
87 |
S Schamfuss, T R Neu, J R van der Meer, R Tecon, H Harms, L Y Wick (2013). Impact of mycelia on the accessibility of fluorene to PAH-degrading bacteria. Environmental Science & Technology, 47(13): 6908–6915
https://doi.org/10.1021/es304378d
pmid: 23452287
|
88 |
A Sharma, D Kachroo, R Kumar (2002). Time dependent influx and efflux of phenol by immobilized microbial consortium. Environmental Monitoring and Assessment, 76(2): 195–211
https://doi.org/10.1023/A:1015532030347
pmid: 12108592
|
89 |
J M Stapleton, J R Mihelcic, D R Lueking (1994). Adsorption and desorption-kinetics of pyrene onto a great lakes sediment. Journal of Great Lakes Research, 20(3): 561–568
https://doi.org/10.1016/S0380-1330(94)71172-2
|
90 |
W T Stringfellow, L Alvarez-Cohen (1999). Evaluating the relationship between the sorption of PAHs to bacterial biomass and biodegradation. Water Research, 33(11): 2535–2544
https://doi.org/10.1016/S0043-1354(98)00497-7
|
91 |
G Stucki, M Alexander (1987). Role of dissolution rate and solubility in biodegradation of aromatic compounds. Applied and Environmental Microbiology, 53(2): 292–297
pmid: 3566268
|
92 |
M Su, Y Li, H Wang, S Diao, M Wang (2016). Subcellular imaging and metabolic analysis of isotopically labeled carbon compounds in biological sample: An ion microprobe (Nano SIMS) study. Journal of Beijing Normal University (Nature and Science), 52(2): 223–227
|
93 |
B Suszek-Łopatka, B Maliszewska-Kordybach, A Klimkowicz-Pawlas, B Smreczak (2016). Influence of temperature on phenanthrene toxicity towards nitrifying bacteria in three soils with different properties. Environmental pollution, 216: 911–918
https://doi.org/10.1016/j.envpol.2016.06.066
pmid: 27394082
|
94 |
M N Taha, M B Krawinkel, G E Morlock (2015). High-performance thin-layer chromatography linked with (bio)assays and mass spectrometry: A suited method for discovery and quantification of bioactive components? Exemplarily shown for turmeric and milk thistle extracts. Journal of Chromatography. A, 1394: 137–147
https://doi.org/10.1016/j.chroma.2015.03.029
pmid: 25846263
|
95 |
M C Tejeda-Agredano, S Gallego, J Vila, M Grifoll, J J Ortega-Calvo, M Cantos (2013). Influence of the sunflower rhizosphere on the biodegradation of PAHs in soil. Soil Biology & Biochemistry, 57: 830–840
https://doi.org/10.1016/j.soilbio.2012.08.008
|
96 |
J M Thomas, J R Yordy, J A Amador, M Alexander (1986). Rates of dissolution and biodegradation of water-insoluble organic compounds. Applied and Environmental Microbiology, 52(2): 290–296
pmid: 3092736
|
97 |
W Tian, J Zhao, Y Zhou, K Qiao, X Jin, Q Liu (2017). Effects of root exudates on gel-beads/reeds combination remediation of high molecular weight polycyclic aromatic hydrocarbons. Ecotoxicology and Environmental Safety, 135: 158–164
https://doi.org/10.1016/j.ecoenv.2016.09.021
pmid: 27736675
|
98 |
X Tian, L Chen, J Wang, J Qiao, W Zhang (2013). Quantitative proteomics reveals dynamic responses of Synechocystis sp. PCC 6803 to next-generation biofuel butanol. Journal of Proteomics, 78: 326–345
https://doi.org/10.1016/j.jprot.2012.10.002
pmid: 23079071
|
99 |
J B van Beilen, G Eggink, H Enequist, R Bos, B Witholt (1992). DNA sequence determination and functional characterization of the OCT-plasmid-encoded alkJKL genes of Pseudomonas oleovorans. Molecular Microbiology, 6(21): 3121–3136
https://doi.org/10.1111/j.1365-2958.1992.tb01769.x
pmid: 1453953
|
100 |
B van den Berg, P N Black, W M Clemons Jr, T A Rapoport (2004). Crystal structure of the long-chain fatty acid transporter FadL. Science, 304(5676): 1506–1509
https://doi.org/10.1126/science.1097524
pmid: 15178802
|
101 |
N Vedovato, D C Gadsby (2014). Route, mechanism, and implications of proton import during Na+/K+ exchange by native Na+/K+-ATPase pumps. The Journal of general physiology, 143(4): 449–464
https://doi.org/10.1085/jgp.201311148
pmid: 24688018
|
102 |
F Volkering, A M Breure, W H Rulkens (1997). Microbiological aspects of surfactant use for biological soil remediation. Biodegradation, 8(6): 401–417
https://doi.org/10.1023/A:1008291130109
pmid: 15765586
|
103 |
F Volkering, A M Breure, J G van Andel, W H Rulkens (1995). Influence of nonionic surfactants on bioavailability and biodegradation of polycyclic aromatic hydrocarbons. Applied and Environmental Microbiology, 61(5): 1699–1705
pmid: 16535016
|
104 |
H Wang, Y Yang, J Xu, D Kong, Y Li (2019). iTRAQ-based comparative proteomic analysis of differentially expressed proteins in Rhodococcus sp. BAP-1 induced by fluoranthene. Ecotoxicology and Environmental Safety, 169: 282–291
https://doi.org/10.1016/j.ecoenv.2018.11.022
pmid: 30458394
|
105 |
X D Wang, M Zhou, X R Meng, L Wang, D X Huang (2016). Effect of protein on PVDF ultrafiltration membrane fouling behavior under different pH conditions: interface adhesion force and XDLVO theory analysis. Frontiers of Environmental Science & Engineering, 10(4): 12
https://doi.org/10.1007/s11783-016-0855-9
|
106 |
Y Wang, L Fang, L Lin, T Luan, N F Y Tam (2014). Effects of low molecular-weight organic acids and dehydrogenase activity in rhizosphere sediments of mangrove plants on phytoremediation of polycyclic aromatic hydrocarbons. Chemosphere, 99: 152–159
https://doi.org/10.1016/j.chemosphere.2013.10.054
pmid: 24287262
|
107 |
Y Wang, M Rawlings, D T Gibson, D Labbé, H Bergeron, R Brousseau, P C K Lau (1995). Identification of a membrane protein and a truncated LysR-type regulator associated with the toluene degradation pathway in Pseudomonas putida F1. Molecular & general genetics: MGG, 246(5): 570–579
https://doi.org/10.1007/BF00298963
pmid: 7535376
|
108 |
C C West, J H Harwell (1992). Surfactants and subsurface remediation. Environmental Science & Technology, 26(12): 2324–2330
https://doi.org/10.1021/es00036a002
|
109 |
S Westgate, G Bell, P J Halling (1995). Kinetics of uptake of organic liquid substrates by microbial cells: A method to distinguish interfacial contact and mass-transfer mechanisms. Biotechnology Letters, 17(10): 1013–1018
https://doi.org/10.1007/BF00143092
|
110 |
L Wu, X Lin, F Wang, D Ye, X Xiao, S Wang, X Peng (2006). OmpW and OmpV are required for NaCl regulation in Photobacterium damsela. Journal of Proteome Research, 5(9): 2250–2257
https://doi.org/10.1021/pr060046c
pmid: 16944937
|
111 |
L Xiao, X Qu, D Zhu (2007). Biosorption of nonpolar hydrophobic organic compounds to Escherichia coli facilitated by metal and proton surface binding. Environmental Science & Technology, 41(8): 2750–2755
https://doi.org/10.1021/es062343o
pmid: 17533834
|
112 |
N Xiao, R Liu, C X Jin, Y Y Dai (2015). Efficiency of five ornamental plant species in the phytoremediation of polycyclic aromatic hydrocarbon (PAH)-contaminated soil. Ecological Engineering, 75: 384–391
https://doi.org/10.1016/j.ecoleng.2014.12.008
|
113 |
Y Xu, G D Sun, J H Jin, Y Liu, M Luo, Z P Zhong, Z P Liu (2014). Successful bioremediation of an aged and heavily contaminated soil using a microbial/plant combination strategy. Journal of Hazardous Materials, 264: 430–438
https://doi.org/10.1016/j.jhazmat.2013.10.071
pmid: 24321347
|
114 |
X M Yin, X Liang, R Zhang, L Yu, G H Xu, Q S Zhou, X H Zhan (2015). Impact of phenanthrene exposure on activities of nitrate reductase, phosphoenolpyruvate carboxylase, vacuolar H+-pyrophosphatase and plasma membrane H+-ATPase in roots of soybean, wheat and carrot. Environmental and Experimental Botany, 113: 59–66
https://doi.org/10.1016/j.envexpbot.2015.02.001
|
115 |
S H Yun, C W Choi, S Y Lee, Y G Lee, J Kwon, S H Leem, Y H Chung, H Y Kahng, S J Kim, K K Kwon, S I Kim (2014). Proteomic characterization of plasmid pLA1 for biodegradation of polycyclic aromatic hydrocarbons in the marine bacterium, Novosphingobium pentaromativorans US6-1. PLoS One, 9(3): e90812
https://doi.org/10.1371/journal.pone.0090812
pmid: 24608660
|
116 |
F Zhang, H Zhong, X Han, Z Guo, W Yang, Y Liu, K Yang, Z Zhuang, S Wang (2015). Proteomic profile of Aspergillus flavus in response to water activity. Fungal Biology, 119(2-3): 114–124
https://doi.org/10.1016/j.funbio.2014.11.005
pmid: 25749363
|
117 |
H Zhang, X Jiang, W Xiao, L Lu (2014). Proteomic strategy for the analysis of the polychlorobiphenyl-degrading cyanobacterium Anabaena PD-1 exposed to Aroclor 1254. PLoS One, 9(3): 1–10
https://doi.org/10.1371/journal.pone.0091162
pmid: 24618583
|
118 |
Y P Zhang, F Wang, X S Zhu, J Zeng, Q G Zhao, X Jiang (2015). Extracellular polymeric substances govern the development of biofilm and mass transfer of polycyclic aromatic hydrocarbons for improved biodegradation. Bioresource Technology, 193: 274–280
https://doi.org/10.1016/j.biortech.2015.06.110
pmid: 26141288
|
119 |
Y L Zhao, Y H Zhou, J Q Chen, Q Y Huang, Q Han, B Liu, G D Cheng, Y H Li (2015). Quantitative proteomic analysis of sub-MIC erythromycin inhibiting biofilm formation of S. suis in vitro. Journal of Proteomics, 116: 1–14
https://doi.org/10.1016/j.jprot.2014.12.019
pmid: 25579403
|
120 |
Q P Zhong, J Tian, J Wang, X Fang, Z L Liao (2018). iTRAQ-based proteomic analysis of the viable but nonculturable state of Vibrio parahaemolyticus ATCC 17802 induced by food preservative and low temperature. Food Control, 85: 369–375
https://doi.org/10.1016/j.foodcont.2017.10.011
|
121 |
J Zhou, K Wang, S Xu, J Wu, P Liu, G Du, J Li, J Chen (2015). Identification of membrane proteins associated with phenylpropanoid tolerance and transport in Escherichia coli BL21. Journal of Proteomics, 113: 15–28
https://doi.org/10.1016/j.jprot.2014.09.012
pmid: 25277045
|
122 |
J Zi, J Zhang, Q Wang, B Zhou, J Zhong, C Zhang, X Qiu, B Wen, S Zhang, X Fu, L Lin, S Liu (2013). Stress responsive proteins are actively regulated during rice (Oryza sativa) embryogenesis as indicated by quantitative proteomics analysis. PLoS One, 8(9): e74229
https://doi.org/10.1371/journal.pone.0074229
pmid: 24058531
|
|
Viewed |
|
|
|
Full text
|
|
|
|
|
Abstract
|
|
|
|
|
Cited |
|
|
|
|
|
Shared |
|
|
|
|
|
Discussed |
|
|
|
|