Regulations of essential amino acids and proteomics of bacterial endophytes Sphingomonas sp. Lk11 during cadmium uptake

Environmental Toxicology

Volumn 31, Issue 7, 2016, Pages 887-896

  Khan, Abdul Latif ^a   Ullah, Ihsan ^b   Hussain, Javid ^a   Kang, Sang Mo ^b   Al Harrasi, Ahmed ^a   Al Rawahi, Ahmed ^a   Lee, In Jung ^b  

^a UNIVERSITY OF NIZWA   (Oman)

^b Kyungpook National University   (South Korea)

Author keywords

Bioaccumulation; Cadmium stress; Endophytism; Protein profile; Sphingomonas sp. LK11

Indexed keywords

AMINO ACIDS; BACTERIA; BACTERIOLOGY; BIOACCUMULATION; BIOCHEMISTRY; CADMIUM; DETOXIFICATION; MANGANESE; METALS; MOLECULAR BIOLOGY; OXYGEN; PHYSIOLOGICAL MODELS; PHYSIOLOGY; ZINC;

BACTERIAL ENDOPHYTES; CADMIUM STRESS; ENDOPHYTISM; ESSENTIAL AMINO ACIDS; PHYSIOLOGICAL RESPONSE; PROTEIN PROFILES; SPHINGOMONAS SP; SUPER OXIDE DISMUTASE;

PROTEINS;

ALUMINUM; ASPARAGINE; AUXIN; BACTERIAL PROTEIN; CADMIUM; COPPER; ESSENTIAL AMINO ACID; GIBBERELLIN; GLUTAMIC ACID; HEAT SHOCK PROTEIN; MANGANESE; PROLINE; RIBOSOME PROTEIN; ZINC; ANTIOXIDANT; CHAPERONE; CULTURE MEDIUM; METAL;

AMINO ACID; BACTERIUM; BIOACCUMULATION; BIOLOGICAL UPTAKE; CADMIUM; DETOXIFICATION; ENDOPHYTE; HEAVY METAL; MANGANESE; PHYSIOLOGICAL RESPONSE; PROTEIN; PROTEOMICS;

ARTICLE; BACTERIAL GROWTH; BIOACCUMULATION; COMPARATIVE STUDY; DETOXIFICATION; ENDOPHYTE; NONHUMAN; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEOMICS; REGULATORY MECHANISM; SPHINGOMONAS; CHEMISTRY; CULTURE MEDIUM; DRUG EFFECTS; GENE EXPRESSION; METABOLISM;

BACTERIA (MICROORGANISMS); SPHINGOMONAS SP.;

AMINO ACIDS, ESSENTIAL; ANTIOXIDANTS; CADMIUM; CULTURE MEDIA; ENDOPHYTES; GENE EXPRESSION; METALS; MOLECULAR CHAPERONES; PROTEOMICS; RIBOSOMAL PROTEINS; SPHINGOMONAS;

EID: 84920202057     PISSN: 15204081     EISSN: 15227278     Source Type: Journal    
DOI: 10.1002/tox.22100     Document Type: Article

References (44)

1. Aslund F, Zheng M, Beckwith J, Storz G. 1999. Regulation of the OxyR transcription factor by hydrogen peroxide and the cellular thiol-disulfide status. Proc Natl Acad Sci 96:6161-6165.
2. Aylward FO, McDonald BR, Adams SM, Valenzuela A, Schmidt RA, Goodwin LA, Woyke T, Currie CR, Suen G, Poulsen M. 2013. Comparison of 26 sphingomonad genomes reveals diverse environmental adaptations and biodegradative capabilities. Appl Environ Microb 79:3724-3733.
3. Bedford M. 2005. Arginine methylation: review: an emerging regulator of protein function. Mol Cell 18:263-272.
4. Berlett BS, Stadtman ER. 1997. Protein oxidation in aging, disease, and oxidative stress. J Biol Chem 272:20313-20316.
5. Bottari E, Festa MR. 1996. Asparagine as a ligand for cadmium (II), lead (II) and zinc (II). Chem Spec Bioavail 8:75-83.
6. Bruins MR, Kapil S, Oehme FW. 2000. Microbial resistance to metals in the environment. Ecotoxicol Environ Saf 45:198-207.
7. Duche O, Tremoulet F, Glaser P, Labadie J. 2002. Salt stress proteins induced in Listeria monocytogenes. Appl Environ Microbiol 68:1491-1498.
8. Glick BR. 2010. Using soil bacteria to facilitate phytoremediation. Biotechnol Adv 28:367-374.
9. Griffin TJ, Gygi SP, Ideker T, Rist B, Eng J, Hood L, Aebersold R. 2002. Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae. Mol Cell Proteomics 1:323-333.
10. Guo H, Luo S, Chen L, Xiao X, Xi Q, Wei W, Zeng G, Liu G, Wan Y, Chen Y, He Y. 2010. Bioremediation of heavy metals by growing hyperaccumulaor endophytic bacterium Bacillus sp. L14. Biores Tech 101:8599-8605.
11. Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH, Aebersold R. 1999. Quantitative analysis of complex protein mixtures using isotope coded affinity tags. Nat Biotechnol 17:994-999.
12. Hall JL. 2002. Cellular mechanisms for heavy metal detoxification and tolerance. J Exp Bot 53:1-11.
13. Harmens H, Den Hartog PR, Ten Bookum WM, Verkleij JAC. 1993. Increased zinc tolerance in Silene vulgaris (Moench.) Garcke is not due to increased production of phytochelatins. Plant Physiol 103:1305-1309.
14. Homer FA, Reeves RD, Brooks RR. 1997. The possible involvement of amino acids in nickel chelation in some nickelaccumulating plants. Curr Top Phytochem 14:31-33.
15. Hu P, Brodie EL, Suzuki Y, McAdams HH, Andersen GL. 2005. Whole-genome transcriptional analysis of heavy metal stresses in Caulobacter crescentus. J Bacteriol 187:8437-8449.
16. Ishihama Y, Oda Y, Tabata T, Sato T, Nagasu T, Rappsilber J, Mann M. 2005. Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Mol Cell Proteomics 4:1265-72.
17. Jermy A. 2011. Bacterial physiology: Stressed bacteria aren't lost without a leader. Nat Rev Microbiol 9:834-835.
18. Juwarkar AA, Misra RR, Sharma KJ. 2014. Recent trends in bioremediation. In geomicrobiology and biogeochemistry. Soil Biol 39:81-100.
19. Khan AL, Waqas M, Kang SM, Al-Harrasi A, Hussain J, Al-Rawahi A, Al-Khizri S, Ali L, Ullah I, Jung HY, IJ Lee . 2014. Bacterial endophyte Sphingomonas sp. LK11 produces gibberellins and IAA and promotes tomato plant growth. J Microbiol 52:689-695.
20. Khan AL, Hussain J, Al-Harrasi A, Al-Rawahi A, Lee IJ. 2013a. Endophytic fungi: a source of gibberellins and crop resistance to abiotic stress. Critical Rev Biotech 0: 1-13 DOI:10.3109/07388551.2013.800018.
21. Khan AL, Lee IJ. 2013b. Endophytic Penicillium funiculosum LHL06 secretes gibberellin that reprograms Glycine max L. growth during copper stress. BMC Plant Biol 13:86.
22. Lacerda CM, Choe LH, Reardon KF. 2007. Metaproteomic analysis of a bacterial community response to cadmium exposure. J Proteome Res 6:1145-1152.
23. Lee HS, Shin SC, Lee J, Kim SJ, Kim BK, Hong SG, Kim EH, Park H. 2012. Genome sequence of Sphingomonas sp. strain PAMC 26621, an arctic-lichen-associated bacterium isolated from a Cetraria sp. J Bacteriol 194:3030-3030.
24. Lucana DOO, Wedderhoff I, Matthew R. 2011. Groves ROS-Mediated signaling in bacteria: Zinc-containing Cys-X-X-Cys redox centres and iron-based oxidative stress. J Signal Transduction 9:834-835.
25. Ma Y, Prasad MNV, Rajkumar M, Freitas H. 2011. Plant growth promoting rhizobacteria and endophytes accelerate phytoremediation of metalliferous soils. Biotech Advances 29:248-258.
26. Miller TR, Delcher AL, Salzberg SL, Saunders E, Detter JC, Halden RU. 2010. Genome sequence of the dioxin-mineralizing bacterium Sphingomonas wittichii RW1. J Bacteriol 22:6101-6102.
27. Miyauchi K, Suh SK, Nagata Y, Takagi M. 1998. Cloning and sequencing of a 2, 5-dichlorohydroquinone reductive dehalogenase gene whose product is involved in degradation of γ-hexachlorocyclohexane by Sphingomonas paucimobilis. J Bacteriol 180:1354-1359.
28. Kaakoush NO, Raftery M, Mendz GL. (2008). Molecular responses of Campylobacter jejuni to cadmium stress. FEBS 275:5021-5033.
29. Nies DH. 1999. Microbial heavy-metal resistance. Appl Microbiol Biotechnol 51:730-750.
30. Picard F, Loubière P, Girbaland L, Cocaign-Bousquet M. 2013. The significance of translation regulation in the stress response. BMC Genomics 14:1-11.
31. Prozialeck WC. 2000. Evidence that E-cadherin may be a target for cadmium toxicity in epithelial cells. Toxicol Appl Pharmacol 164:231-249.
32. Puskarova A, Maria B, Katarina C, Jana H, Edita K, Jana G, Bystrik P, Peter F, Domenico F. 2013. Diversity and PAH growth abilities of bacterial strains isolated from a contaminated soil in Slovakia. Biologia 68: 587-591.
33. Qu YQ, Zhang X, Yu H, Tang H, Shen E, Zhou H, Ma Q, Cao X, Zhou J, Xu P. 2013. Genome Sequence of Sphingomonas xenophaga QYY, an Anthraquinone-Degrading Strain. Genome Announc 1:1-12.
34. Rajkumar M, Freitas H. 2009. Endophytic bacteria and their potential to enhance heavy metal phytoextraction. Chemosphere 77:153-160.
35. Rajkumar M, Narasimha M, Prasad V, Freitas H. 2010. Potential of siderophore-producing bacteria for improving heavy metal phytoextraction. Trends Biotechnol 28:142-149.
36. Farinati S, DalCorso G, Panigati M, Furini A. 2011. Interaction between selected bacterial strains and Arabidopsis halleri modulates shoot proteome and cadmiumand zinc accumulation. J Exp Bot 62:3433-3447.
37. Siripornadulsil S, Siripornadulsil W. 2013. Cadmium-tolerant bacteria reduce the uptake of cadmium in rice: Potential for microbial bioremediation. Ecotox Environ Safety 94:94-103.
38. Smirnoff N. 1993. The role of active oxygen in the response of plants to water deficit and dessication. New Phytologist 125:27-58.
39. Stadtman ER. 1993. Oxidation of free amino acids and amino acid residues in proteins by radiolysis and by metal-catalyzed reactions. Annu Rev Biochem 62:797-821.
40. +. FEMS Microbiol Lett 174:179-184.
41. Tabata M, Ohtsubo Y, Ohhata S, Tsuda M, Nagata Y. 2013. Complete genome sequence of the-hexachlorocyclohexane-degrading bacterium Sphingomonas sp. strain MM-1. Genome Announc 1:1-13.
42. Waqas M, Khan AL, Kang SM, Kim YH, Lee IJ. 2014. Phytohormone-producing fungal endophytes and hardwood-derived biochar interact to ameliorate heavy metal stress in soybeans. Biology Fertility Soils 2:1-13.
43. Wattiau P, Leen B, Rene VH, Ludwin D, Parsons JR, Renard M, Springael D, Cornelis GR. 2001. Fluorene degradation by Sphingomonas sp. LB126 proceeds through protocatechuic acid: a genetic analysis. Research Microbiol 152: 861-872.
44. Wu C. 1995. Heat shock transcription factors: structure and regulation. Ann rev cell developmen biol 11:441-69.