Imaging Mass Spectrometry, Metabolism, and New Views of the Microbial World

Natural Products Analysis: Instrumentation, Methods, and Applications

Volumn 9781118466612, Issue , 2014, Pages 349-396

  Hoefler, B Christopher ^a   Straight, Paul D ^a  

^a TEXAS A AND M UNIVERSITY   (United States)

Author keywords

Fluorescence in situ hybridization (FISH); Imaging mass spectrometry (IMS); Metabolism; Microbial world; Microbiology

Indexed keywords

BACTERIA; BIOCHEMISTRY; ECOLOGY; FISH; FLUORESCENCE; FLUORESCENCE MICROSCOPY; METABOLISM;

BACTERIAL ECOLOGIES; BACTERIAL METABOLISM; FLUORESCENCE IN SITU HYBRIDIZATION; IMAGING MASS SPECTROMETRY; IT FOCUS; MICROBIAL WORLD; NATURAL PRODUCTS; SECONDARY METABOLISM;

METABOLITES;

EID: 84927576346     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1002/9781118876015.ch10     Document Type: Chapter

References (252)

1. Goldberg, M. W. (2010). Immunolabeling for scanning electron microscopy (SEM) and field emission SEM. Methods in Cell Biology 88, 109-130.
2. Min, W., Freudiger, C. W, Lu, S., Xie, X. S. (2010). Coherent nonlinear optical imaging: Beyond fluorescence microscopy. Annual Review of Physical Chemistry 62, 507-530.
3. Zhang, X., Roeffaers, M. B. J., Basu, S., Daniele, J. R., Fu, D., Freudiger, C. W., et al. (2010). Label-free live-cell imaging of nucleic acids using stimulated Raman scattering microscopy. Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry 13, 1054-1059.
4. Seeley, E. H., Schwamborn, K., Caprioli, R. M. (2010). Imaging of intact tissue sections: Moving beyond the microscope. The Journal of Biological Chemistry 286, 25459-25466.
5. Cornett, D. S., Reyzer, M. L., Chaurand, P., Caprioli, R. M. (2007) MALDI imaging mass spectrometry: Molecular snapshots of biochemical systems. Nature Methods 4, 828-833.
6. Balluff, B., Schone, C., Hofler, H., Walch, A. (2010). MALDI imaging mass spectrometry for direct tissue analysis: Technological advancements and recent applications. Histochemistry and Cell Biology 136, 227-244.
7. Caprioli, R. M., Farmer, T. B., Gile, J. (2010). Molecular imaging of biological samples: Localization of peptides and proteins using MALDI-TOF MS. Analytical Chemistry. American Chemical Society 69, 751-760.
8. Stoeckli, M., Chaurand, P., Hallahan, D. E., Caprioli R. M. (2010). Imaging mass spectrometry: A new technology for the analysis of protein expression in mammalian tissues. Nature Medicine 7, 493-496.
9. Kaletaş, B. K., van der Wiel, I. M., Stauber, J., Guzel, C., Kros, J. M., Luider, T. M., et al. (2009). Sample preparation issues for tissue imaging by imaging MS. Proteomics 9, 2622-2633.
10. Agar, N. Y. R., Kowalski, J.-M., Kowalski, P. J., Wong, J. H., Agar, J. N. (2010). Tissue preparation for the in situ MALDI MS imaging of proteins, lipids, and small molecules at cellular resolution. In Methods in Molecular Biology, Vol. 656, S. S. Rubakhin and J. V. Sweedler, eds., Humana Press, Totowa, NJ, pp. 415-431.
11. Goodwin, R. J. A. (2010). Sample preparation for mass spectrometry imaging: Small mistakes can lead to big consequences. Journal of Proteomics 75, 4893-4911.
12. Pol, J., Strohalm, M., Havliček, V., Volny, M. (2010). Molecular mass spectrometry imaging in biomedical and life science research. Histochemistry and Cell Biology Nov; 134, 423-443.
13. Trim, P. J., Djidja, M.-C., Muharib, T., Cole, L. M., Flinders, B., Carolan, V. A., et al. (2012). Instrumentation and software for mass spectrometry imaging-Making the most of what you've got. Journal of Proteomics 75, 4931-4940.
14. Vickerman, J. C. (2011). Molecular imaging and depth profiling by mass spectrometry-SIMS, MALDI or DESI? The Analyst 136, 2199-2217.
15. Watrous, J. D., Dorrestein, P. C. (2010). Imaging mass spectrometry in microbiology. Nature Reviews. Microbiology 9, 683-694.
16. Svatos, A. (2010). Mass spectrometric imaging of small molecules. Trends in Biotechnology 28, 425-434.
17. Greer, T., Sturm, R., Li, L. (2010). Mass spectrometry imaging for drugs and metabolites. Journal of Proteomics 74, 2617-2631.
18. Garrett, T. J., Yost, R. A. (2010). Tandem mass spectrometric methods for phospholipid analysis from brain tissue. In Methods in Molecular Biology, Vol. 656, S. S. Rubakhin and J. V. Sweedler, eds., Humana Press, Totowa, NJ, pp. 209-230.
19. Jones, E. A., Deininger, S.-O., Hogendoorn, P. C. W., Deelder, A. M., McDonnell, L. A. (2010). Imaging mass spectrometry statistical analysis. Journal of Proteomics 75, 4962-4989.
20. Trede, D., Kobarg, J. H., Oetjen, J., Thiele, H., Maass, P., Alexandrov, T. (2012). On the importance of mathematical methods for analysis of MALDI-imaging mass spectrometry data. Journal of Integrative Bioinformatics 9, 189.
21. Jungmann, J. H., Heeren, R. M. A. (2010). Emerging technologies in mass spectrometry imaging. Journal of Proteomics 75, 5077-5092.
22. Chaurand, P. (2010). Imaging mass spectrometry of thin tissue sections: A decade of collective efforts. Journal of Proteomics 75, 4883-4892.
23. Esquenazi, E., Yang, Y.-L., Watrous, J., Gerwick, W. H., Dorrestein, P. C. (2010). Imaging mass spectrometry of natural products. Natural Product Reports 26, 1521-1534.
24. Francese, S., Dani, F. R., Traldi, P., Mastrobuoni, G., Pieraccini, G., Moneti, G. (2010). MALDI mass spectrometry imaging, from its origins up to today: The state of the art. Combinatorial Chemistry & High Throughput Screening 12, 156-174.
25. Heeren, R. M. A., Smith, D. F., Stauber, J., Kukrer-Kaletas, B., MacAleese, L. (2009). Imaging mass spectrometry: Hype or hope? Journal of the American Society for Mass Spectrometry 20, 1006-1014.
26. Amstalden van Hove, E. R., Smith, D. F., Heeren, R. M. A. (2010). A concise review of mass spectrometry imaging. Journal of Chromatography. A 1217, 3946-3954.
27. Liebl, H. (1967). Ion microprobe mass analyzer. Journal of Applied Physics 38, 5277.
28. Castaing, R., Slodzian, G. (2010). Microanalyse par emission ionique secondaire. Journal of Microscopy 1, 395-410.
29. Boxer, S. G., Kraft, M. L., Weber, P. K. (2010). Advances in imaging secondary ion mass spectrometry for biological samples. Annual Review of Biophysics 38, 53-74.
30. Lanni, E. J., Rubakhin, S. S., Sweedler, J. V. (2010). Mass spectrometry imaging and profiling of single cells. Journal of Proteomics 75, 5036-5051.
31. Benninghoven, A. (1969). Analysis of submonolayers on silver by negative secondary ion emission. Physica Status Solidi (b) 34, K169-K171.
32. Benninghoven, A. (2010). New developments in the surface analysis of solids. Applied Physics 1, 3-16.
33. CAMECA NanoSIMS: High Resolution Ion Microprobe for Ultra Fine Feature Analysis [Internet]. [cited 2013 Mar 18]. Available from http://www.cameca.fr/instrumentsforresearch/nanosims.aspx.
34. Moore, K. L., Lombi, E., Zhao, F.-J., Grovenor, C. R. M. (2010). Elemental imaging at the nanoscale: NanoSIMS and complementary techniques for element localisation in plants. Analytical and Bioanalytical Chemistry 402, 3263-3273.
35. Hoshi, T., Kudo, M. (2003). High resolution static SIMS imaging by time of flight SIMS. Applied Surface Science 203-204, 818-824.
36. Chandra, S. (2010). Quantitative imaging of chemical composition in single cells by secondary ion mass spectrometry: Cisplatin affects calcium stores in renal epithelial cells. Methods in Molecular Biology (Clifton, NJ) 656, 113-130.
37. Vickerman, J. C., Gilmore, I. S., eds. (2009). Surface Analysis-The Principal Techniques, John Wiley & Sons, Ltd., Chichester, UK.
38. Nygren, H., Malmberg, P. (2010). High-resolution imaging and proteomics of peptide fragments by TOF-SIMS. Proteomics 10, 1694-1698.
39. Malmberg, P., Jennische, E., Nilsson, D., Nygren, H. (2010). High-resolution, imaging TOF-SIMS: novel applications in medical research. Analytical and Bioanalytical Chemistry 399, 2711-8.
40. Komatsu, M., Murayama, Y., Hashimoto, H. (2010). Protein fragment imaging using ink jet printing digestion technique. Applied Surface Science 255, 1162-1164.
41. Mas, S., Perez, R., Martinez-Pinna, R., Egido, J., Vivanco, F., (2008). Cluster TOF-SIMS imaging: A new light for in situ metabolomics? Proteomics 8, 3735-3745.
42. Weber, P. K., Graham, G. A., Teslich, N. E., Chan, W. M., Ghosal, S., Leighton, T. J., et al. (2010). NanoSIMS imaging of Bacillus spores sectioned by focused ion beam. Journal of Microscopy 238, 189-199.
43. Ghosal, S., Fallon, S. J., Leighton, T. J., Wheeler, K. E., Kristo, M. J., Hutcheon, I. D., et al. (2010). Imaging and 3D elemental characterization of intact bacterial spores by high-resolution secondary ion mass spectrometry. Analytical Chemistry. American Chemical Society 80, 5986-5992.
44. Musat, N., Halm, H., Winterholler, B., Hoppe, P., Peduzzi, S., Hillion, F., et al. (2010). A single-cell view on the ecophysiology of anaerobic phototrophic bacteria. Proceedings of the National Academy of Sciences of the USA 105, 17861-17866.
45. Dekas, A. E., Poretsky, R. S., Orphan, V. J. (2010). Deep-sea archaea fix and share nitrogen in methane-consuming microbial consortia. Science (New York, NY) 326, 422-426.
46. Popa, R., Weber, P. K., Pett-Ridge, J., Finzi, J. A., Fallon, S. J., Hutcheon, I. D., et al. (2010). Carbon and nitrogen fixation and metabolite exchange in and between individual cells of Anabaena oscillarioides. The ISME Journal 1, 354-360.
47. Lechene, C. P., Luyten, Y., McMahon, G., Distel, D. L. (2010). Quantitative imaging of nitrogen fixation by individual bacteria within animal cells. Science (New York, NY) 317, 1563-1566.
48. Finzi-Hart, J. A., Pett-Ridge, J., Weber, P. K., Popa, R., Fallon, S. J., Gunderson, T., et al. (2010). Fixation and fate of C and N in the cyanobacterium Trichodesmium using nanometerscale secondary ion mass spectrometry. Proceedings of the National Academy of Sciences of the USA 106, 6345-6350.
49. DeRito, C. M., Pumphrey, G. M., Madsen, E. L. (2010). Use of field-based stable isotope probing to identify adapted populations and track carbon flow through a phenol-degrading soil microbial community. Applied and environmental microbiology. American Society of Microbiology 71, 7858-7865.
50. Pumphrey, G. M., Hanson, B. T., Chandra, S., Madsen E. L. (2010). Dynamic secondary ion mass spectrometry imaging of microbial populations utilizing C-labelled substrates in pure culture and in soil. Environmental Microbiology 11, 220-229.
51. Thompson, A. W., Foster, R. A., Krupke, A., Carter, B. J., Musat, N., Vaulot, D., et al. (2010). Unicellular cyanobacterium symbiotic with a single-celled eukaryotic alga. Science (New York, NY) 337, 1546-1550.
52. Cerruti, C. D., Benabdellah, F., Laprevote, O., Touboul, D., Brunelle, A. (2010). MALDI imaging and structural analysis of rat brain lipid negative ions with 9-aminoacridine matrix. Analytical Chemistry 84, 2164-2171.
53. Berry, K. A. Z., Hankin, J. A., Barkley, R. M., Spraggins, J. M., Caprioli, R. M., Murphy, R. C. (2010). MALDI imaging of lipid biochemistry in tissues by mass spectrometry. Chemical Reviews 111, 6491-6512.
54. Sparvero, L. J., Amoscato, A. A., Dixon, C. E., Long, J. B., Kochanek, P. M., Pitt, B. R., et al. (2010). Mapping of phospholipids by MALDI imaging (MALDI-MSI): Realities and expectations. Chemistry and Physics of Lipids 165, 545-562.
55. Deutskens, F., Yang, J., Caprioli, R. M. (2010). High spatial resolution imaging mass spectrometry and classical histology on a single tissue section. Journal of Mass Spectrometry 46, 568-571.
56. Schwamborn, K., Caprioli, R. M. (2010). Molecular imaging by mass spectrometry-Looking beyond classical histology. Nature Reviews Cancer 10, 639-646.
57. Schwamborn, K. (2010). Imaging mass spectrometry in biomarker discovery and validation. Journal of Proteomics 75, 4990-4998.
58. Prideaux, B., Stoeckli, M. (2010). Mass Spectrometry imaging for drug distribution studies. Journal of Proteomics 75, 4999-5013.
59. Shahidi-Latham, S. K., Dutta S. M., Prieto Conaway, M. C., Rudewicz, P. J. (2010). Evaluation of an accurate mass approach for the simultaneous detection of drug and metabolite distributions via whole-body mass spectrometric imaging (WB-MSI). Analytical Chemistry 84, 7158-7165.
60. Takai, N., Tanaka, Y., Inazawa, K., Saji, H. (2010). Quantitative analysis of pharmaceutical drug distribution in multiple organs by imaging mass spectrometry. Rapid Communications In Mass Spectrometry 26, 1549-1556.
61. Zenobi, R., Knochenmuss, R. (2010). Ion formation in MALDI mass spectrometry. Mass Spectrometry Reviews 17, 337-366.
62. Chang, W. C., Huang, L. C. L., Wang, Y.-S., Peng, W.-P., Chang, H. C., Hsu, N. Y., et al. (2007). Matrix-assisted laser desorption/ionization (MALDI) mechanism revisited. Analytica Chimica Acta 16, 582, 1-9.
63. Molin, L., Seraglia, R., Czarnocki, Z., Maurin, J. K., Pluciński, F. A., Traldi, P. (2012). On the primary ionization mechanism(s) in matrix-assisted laser desorption ionization. Journal of Analytical Methods in Chemistry 2012, 161865.
64. Knochenmuss, R. (2010). Ion formation mechanisms in UV-MALDI. The Analyst. The Royal Society of Chemistry 131, 966-986.
65. Franck, J., Longuespee, R., Wisztorski, M., Van Remoortere, A., Van Zeijl, R., Deelder, A., et al. (2010). MALDI mass spectrometry imaging of proteins exceeding 30, 000 daltons. Medical Science Monitor: International Medical Journal of Experimental and Clinical Research 16, BR293-BR299.
66. Schriemer, D. C., Li, L. (2010). Detection of high molecular weight narrow polydisperse polymers up to 1.5 million daltons by MALDI mass spectrometry. Analytical chemistry 68, 2721-2725.
67. Yang, J. Y., Phelan, V. V., Simkovsky, R., Watrous, J. D., Trial, R. M., Fleming, T. C., et al. (2010). Primer on agar-based microbial imaging mass spectrometry. Journal of Bacteriology 194, 6023-6028.
68. Puolitaival, S. M., Burnum, K. E., Cornett, D. S., Caprioli, R. M. (2010). Solvent-free matrix dry-coating for MALDI imaging of phospholipids. Journal of the American Society for Mass Spectrometry 19, 882-886.
69. Goodwin, R. J., Macintyre, L., Watson, D. G., Scullion, S. P., Pitt, A. R. (2010). A solventfree matrix application method for matrix-assisted laser desorption/ionization imaging of small molecules. Rapid Communications in Mass Spectrometry 24, 1682-1686.
70. Trimpin, S., Herath, T. N., Inutan, E. D., Wager-Miller, J., Kowalski, P., Claude, E., et al. (2010). Automated solvent-free matrix deposition for tissue imaging by mass spectrometry. Analytical Chemistry 82, 359-367.
71. Laugesen, S., Roepstorff, P. (2010). Combination of two matrices results in improved performance of MALDI MS for peptide mass mapping and protein analysis. Journal of the American Society for Mass Spectrometry 14, 992-1002.
72. Le, C. H., Han, J., Borchers, C. H. (2010). Dithranol as a MALDI matrix for tissue imaging of lipids by Fourier transform ion cyclotron resonance mass spectrometry. Analytical Chemistry 84, 8391-8398.
73. Takats, Z., Wiseman, J. M., Gologan, B., Cooks, R. G. (2010). Mass spectrometry sampling under ambient conditions with desorption electrospray ionization. Science (New York, NY) 306, 471-473.
74. Watrous, J., Hendricks, N., Meehan, M., Dorrestein, P. C. (2010). Capturing bacterial metabolic exchange using thin film desorption electrospray ionization-imaging mass spectrometry. Analytical Chemistry 82, 1598-1600.
75. Ranc, V., Havlicek, V., Bednar, P., Lemr, K. (2007). Desorption electrospray: A modern tool for organic surface analysis. Chemické Listy 101, 524-529.
76. Ranc, V., Havlicek, V., Bednar, P., Lemr, K. (2010). Nano-desorption electrospray and kinetic method in chiral analysis of drugs in whole human blood samples. European Journal of Mass Spectrometry 14, 411-417.
77. Roach, P. J., Laskin, J., Laskin, A. (2010). Nanospray desorption electrospray ionization: An ambient method for liquid-extraction surface sampling in mass spectrometry. The Analyst 135, 2233-2236.
78. Lanekoff, I., Thomas, M., Carson, J. P., Smith, J. N., Timchalk, C., Laskin, J. (2010). Imaging nicotine in rat brain tissue by use of nanospray desorption electrospray ionization mass spectrometry. Analytical Chemistry 85, 882-889.
79. Watrous, J., Roach, P., Alexandrov, T., Heath, B. S, Yang, J. Y., Kersten, R. D., et al. (2012). Mass spectral molecular networking of living microbial colonies. Proceedings of the National Academy of Sciences of the USA 109, E1743-E1752.
80. Laskin, J., Heath, B. S., Roach, P. J., Cazares, L., Semmes, O. J. (2010). Tissue imaging using nanospray desorption electrospray ionization mass spectrometry. Analytical Chemistry 84, 141-148.
81. Lanekoff, I., Heath, B. S., Liyu, A., Thomas, M., Carson, J. P., Laskin, J. (2010). Automated platform for high-resolution tissue imaging using nanospray desorption electrospray ionization mass spectrometry. Analytical Chemistry 84, 8351-6.
82. Dreisewerd, K., Lemaire, R., Pohlentz, G., Salzet, M., Wisztorski, M., Berkenkamp, S., et al. (2010). Molecular profiling of native and matrix-coated tissue slices from rat brain by infrared and ultraviolet laser desorption/ionization orthogonal time-of-flight mass spectrometry. Analytical Chemistry 79, 2463-71.
83. Edwards, J. L., Kennedy, R. T. (2010). Metabolomic analysis of eukaryotic tissue and prokaryotes using negative mode MALDI time-of-flight mass spectrometry. Analytical Chemistry 77, 2201-2209.
84. Xu, Y., Kersten, R. D., Nam, S.-J., Lu, L., Al-Suwailem, A. M., Zheng, H., et al. (2010). Bacterial biosynthesis and maturation of the didemnin anti-cancer agents. Journal of the American Chemical Society 134, 8625-8632.
85. Yang, Y.-L., Xu, Y., Straight, P., Dorrestein, P. C. (2010). Translating metabolic exchange with imaging mass spectrometry. Nature Chemical Biology 5, 885-887.
86. Fonville, J. M., Carter, C., Cloarec, O., Nicholson, J. K., Lindon, J. C., Bunch, J., et al. (2010). Robust data processing and normalization strategy for MALDI mass spectrometric imaging. Analytical Chemistry 84, 1310-1319.
87. Esquenazi, E., Jones, A. C., Byrum, T., Dorrestein, P. C., Gerwick, W. H. (2010). Temporal dynamics of natural product biosynthesis in marine cyanobacteria. Proceedings of the National Academy of Sciences of the USA 108, 5226-5231.
88. Hoefler, B. C., Gorzelnik, K. V., Yang, J. Y., Hendricks, N., Dorrestein, P. C., Straight, P. D. (2010). Enzymatic resistance to the lipopeptide surfactin as identified through imaging mass spectrometry of bacterial competition. Proceedings of the National Academy of Sciences of the USA 109, 13082-13087.
89. Moree, W. J., Phelan, V. V., Wu, C.-H., Bandeira, N., Cornett, D. S., Duggan, B. M., et al. (2010). Interkingdom metabolic transformations captured by microbial imaging mass spectrometry. Proceedings of the National Academy of Sciences of the USA 109, 13811-13816.
90. Steinhauser, M. L., Bailey, A. P., Senyo, S. E., Guillermier, C., Perlstein, T. S., Gould, A. P., et al. (2010). Multi-isotope imaging mass spectrometry quantifies stem cell division and metabolism. Nature 481, 516-519.
91. Yang, J., Chaurand, P., Norris, J. L., Porter, N. A., Caprioli, R. M. (2010). Activity-based probes linked with laser-cleavable mass tags for signal amplification in imaging mass spectrometry: Analysis of serine hydrolase enzymes in mammalian tissue. Analytical Chemistry 84, 3689-3695.
92. Chacon, A., Zagol-Ikapitte, I., Amarnath, V., Reyzer, M. L., Oates, J. A., Caprioli, R. M., et al. (2010). On-tissue chemical derivatization of 3-methoxysalicylamine for MALDIimaging mass spectrometry. Journal of Mass Spectrometry 46, 840-846.
93. Gallon, J. R. (2010). The oxygen sensitivity of nitrogenase: A problem for biochemists and micro-organisms. Trends in Biochemical Sciences 6, 19-23.
94. Kumar, K., Mella-Herrera, R. A., Golden, J. W. Cyanobacterial heterocysts. Cold Spring Harbor Perspectives in Biology 2, a000315.
95. Kupper, H., Ferimazova, N., Setlik, I., Berman-Frank, I. (2010). Traffic lights in Trichodesmium. Regulation of photosynthesis for nitrogen fixation studied by chlorophyll fluorescence kinetic microscopy. Plant Physiology 135, 2120-2133.
96. Berman-Frank, I., Lundgren, P., Chen, Y. B., Kupper, H., Kolber, Z., Bergman, B., et al. (2010). Segregation of nitrogen fixation and oxygenic photosynthesis in the marine cyanobacterium Trichodesmium. Science (New York, NY) 294, 1534-1537.
97. Lin, S., Henze, S., Lundgren, P., Bergman, B., Carpenter, E. (2010). Whole-cell immunolocalization of nitrogenase in marine diazotrophic cyanobacteria, Trichodesmium spp. Applied and Environmental Microbiology 64, 3052-3058.
98. Fredriksson, C., Bergman, B. (2010). Ultrastructural characterisation of cells specialised for nitrogen fixation in a non-heterocystous cyanobacterium, Trichodesmium spp. Protoplasma 197, 76-85.
99. Milligan, A. J., Berman-Frank, I., Gerchman, Y., Dismukes, G. C., Falkowski, P. G. (2010). Light-dependent oxygen consumption in nitrogen-fixing cyanobacteria plays a key role in nitrogenase protection 1. Journal of Phycology 43, 845-852.
100. Saino, T., Hattori, A. (2010). Aerobic nitrogen fixation by the marine non-heterocystous cyanobacterium Trichodesmium (Oscillatoria) spp.: Its protective mechanism against oxygen. Marine Biology 70, 251-254.
101. Simon, R. D. (2010). Cyanophycin granules from the blue-green alga Anabaena cylindrica: A reserve material consisting of copolymers of aspartic acid and arginine. Proceedings of the National Academy of Sciences of the USA 68, 265-267.
102. Golden, J. W., Yoon, H.-S. (2010). Heterocyst development in Anabaena. Current Opinion in Microbiology 6, 557-563.
103. Carpenter, E. J., Culliney, J. L. (2010). Nitrogen fixation in marine shipworms. Science (New York, NY) 187, 551-552.
104. Guerrero, R., Piqueras, M., Berlanga, M. (2010). Microbial mats and the search for minimal ecosystems. International microbiology: The Official Journal of the Spanish Society for Microbiology 5, 177-188.
105. Baumgartner, L. K., Reid, R. P., Dupraz, C., Decho, A. W., Buckley, D. H., Spear, J. R., et al. (2010). Sulfate reducing bacteria in microbial mats: Changing paradigms, new discoveries. Sedimentary Geology 185, 131-145.
106. Fike, D. A., Gammon, C. L., Ziebis, W., Orphan, V. J. (2010). Micron-scale mapping of sulfur cycling across the oxycline of a cyanobacterial mat: A paired nanoSIMS and CARD-FISH approach. The ISME Journal 2, 749-759.
107. Reeburgh, W. S. (2010). Oceanic methane biogeochemistry. Chemical Reviews 107, 486-513.
108. Pernthaler, A., Dekas, A. E., Brown, C. T., Goffredi, S. K., Embaye, T., Orphan, V. J. (2010). Diverse syntrophic partnerships from deep-sea methane vents revealed by direct cell capture and metagenomics. Proceedings of the National Academy of Sciences of the USA 105, 7052-7057.
109. Li, T., Wu, T.-D., Mazeas, L., Toffin, L., Guerquin-Kern, J.-L., Leblon, G., et al. (2010). Simultaneous analysis of microbial identity and function using NanoSIMS. Environmental Microbiology 10, 580-588.
110. Behrens, S., Losekann, T., Pett-Ridge, J., Weber, P. K., Ng, W.-O., Stevenson, B. S., et al. (2010). Linking microbial phylogeny to metabolic activity at the single-cell level by using enhanced element labeling-catalyzed reporter deposition fluorescence in situ hybridization (EL-FISH) and NanoSIMS. Applied and Environmental Microbiology 74, 3143-3150.
111. Stevenson, B. S., Waterbury, J. B. (2010). Isolation and identification of an epibiotic bacterium associated with heterocystous Anabaena cells. The Biological Bulletin 210, 73-77.
112. Halm, H., Musat, N., Lam, P., Langlois, R., Musat, F., Peduzzi, S., et al. (2010). Co-occurrence of denitrification and nitrogen fixation in a meromictic lake, Lake Cadagno (Switzerland). Environmental Microbiology 11, 1945-1958.
113. Hahn, M. W., Hofle, M. G. (2010). Grazing of protozoa and its effect on populations of aquatic bacteria. FEMS Microbiology Ecology 35, 113-121.
114. Sommer, U., ed. (1989). Plankton Ecology, Springer, Berlin.
115. Tyler, B. J., Rangaranjan, S., Moller, J., Beumer, A., Arlinghaus, H. F. (2010). TOFSIMS imaging of chlorhexidine-digluconate transport in frozen hydrated biofilms of the fungus Candida albicans. Applied Surface Science 252, 6712-6715.
116. Vaidyanathan, S., Fletcher, J. S., Goodacre, R., Lockyer, N. P., Micklefield, J., Vickerman, J. C. (2010). Subsurface biomolecular imaging of Streptomyces coelicolor using secondary ion mass spectrometry. Analytical chemistry. American Chemical Society 80, 1942-1951.
117. Branda, S. S., Gonzalez-Pastor, J. E., Ben-Yehuda, S., Losick, R., Kolter, R. (2010). Fruiting body formation by Bacillus subtilis. Proceedings of the National Academy of Sciences of the USA 98, 11621-11626.
118. Angelini, T. E., Roper, M., Kolter, R., Weitz, D. A., Brenner, M. P. (2010). Bacillus subtilis spreads by surfing on waves of surfactant. Proceedings of the National Academy of Sciences of the USA 106, 18109-18113.
119. Kearns, D. B., Losick, R. (2010). Swarming motility in undomesticated Bacillus subtilis. Molecular Microbiology 49, 581-590.
120. Julkowska, D., Obuchowski, M., Holland, I. B., Seror, S. J. (2010). Comparative analysis of the development of swarming communities of Bacillus subtilis 168 and a natural wild type: Critical effects of surfactin and the composition of the medium. Journal of Bacteriology 187, 65-76.
121. Debois, D., Hamze, K., Guerineau, V., Le Caer, J.-P., Holland, I. B., Lopes, P., et al. (2010). In situ localisation and quantification of surfactins in a Bacillus subtilis swarming community by imaging mass spectrometry. Proteomics 8, 3682-3691.
122. Nihorimbere, V., Cawoy, H., Seyer, A., Brunelle, A., Thonart, P., Ongena, M. (2010). Impact of rhizosphere factors on cyclic lipopeptide signature from the plant beneficial strain Bacillus amyloliquefaciens S499. FEMS Microbiology Ecology 79, 176-191.
123. Watrous, J. D., Phelan, V. V., Hsu, C.-C., Moree, W. J., Duggan, B. M., Alexandrov, T., et al. (2010). Microbial metabolic exchange in 3D. The ISME Journal 7, 770-780.
124. Esquenazi, E., Coates, C., Simmons, L., Gonzalez, D., Gerwick, W. H., Dorrestein, P. C. (2010). Visualizing the spatial distribution of secondary metabolites produced by marine cyanobacteria and sponges via MALDI-TOF imaging. Molecular BioSystems 4, 562-570.
125. Engene, N., Rottacker, E. C., Kaštovsky, J., Byrum, T., Choi, H., Ellisman, M. H., et al. (2012). Moorea producens gen. nov., sp. nov. and Moorea bouillonii comb. nov., tropical marine cyanobacteria rich in bioactive secondary metabolites. International Journal of Systematic and Evolutionary Microbiology 62, 1171-1178.
126. Yarnold, J. E., Hamilton, B. R., Welsh, D. T., Pool, G. F., Venter, D. J., Carroll, A. R., (2010). High resolution spatial mapping of brominated pyrrole-2-aminoimidazole alkaloids distributions in the marine sponge Stylissa flabellata via MALDI-mass spectrometry imaging. Molecular BioSystems 8, 2249-2259.
127. Webster, N. S., Luter, H. M., Soo, R. M., Botte, E. S., Simister, R. L., Abdo, D., et al. (2012). Same, same but different: Symbiotic bacterial associations in GBR sponges. Frontiers in Microbiology 3, 444.
128. Luesch, H., Harrigan, G. G., Goetz, G., Horgen, F. D. (2010). The cyanobacterial origin of potent anticancer agents originally isolated from sea hares. Current Medicinal Chemistry 9, 1791-1806.
129. Fischbach, M. A., Walsh, C. T. (2010). Assembly-line enzymology for polyketide and nonribosomal Peptide antibiotics: Logic, machinery, and mechanisms. Chemical Reviews 106, 3468-3496.
130. Ansari, M. Z., Yadav, G., Gokhale, R. S., Mohanty, D. (2004). NRPS-PKS: A knowledgebased resource for analysis of NRPS/PKS megasynthases. Nucleic Acids Research 32, W405-W413.
131. Hibbing, M. E., Fuqua, C., Parsek, M. R., Peterson, S. B. (2010). Bacterial competition: Surviving and thriving in the microbial jungle. Nature Reviews. Microbiology 8, 15-25.
132. Straight, P. D., Fischbach, M. A., Walsh, C. T., Rudner, D. Z., Kolter, R. A. (2010). A singular enzymatic megacomplex from Bacillus subtilis. Proceedings of the National Academy of Sciences of the USA 104, 305-310.
133. Straight, P. D., Willey, J. M., Kolter, R. (2010). Interactions between Streptomyces coelicolor and Bacillus subtilis: Role of surfactants in raising aerial structures. Journal of Bacteriology 188, 4918-4925.
134. Hoffman, L. R., Deziel, E., D'Argenio, D. A., Lepine, F., Emerson, J., McNamara, S., et al. (2010). Selection for Staphylococcus aureus small-colony variants due to growth in the presence of Pseudomonas aeruginosa. Proceedings of the National Academy of Sciences of the USA 103, 19890-19895.
135. Capstick, D. S., Willey, J. M., Buttner, M. J., Elliot, M. A. (2007). SapB and the chaplins: connections between morphogenetic proteins in Streptomyces coelicolor. Molecular Microbiology 64, 602-613.
136. Gaskell, A. A., Giovinazzo, J. A., Fonte, V., Willey, J. M. (2010). Multi-tier regulation of the streptomycete morphogenetic peptide SapB. Molecular Microbiology 84, 501-515.
137. Chater, K. F., Biro, S., Lee, K. J., Palmer, T., Schrempf, H. (2010). The complex extracellular biology of Streptomyces. FEMS Microbiology Reviews 34, 171-198.
138. Patel, P. S., Huang, S., Fisher, S., Pirnik, D., Aklonis, C., Dean, L., et al. (2010). Bacillaene, a novel inhibitor of procaryotic protein synthesis produced by Bacillus subtilis: Production, taxonomy, isolation, physico-chemical characterization and biological activity. The Journal of Antibiotics 48, 997-1003.
139. Butcher, R., Schroeder, F. C., Fischbach, M., Straight, P. D., Kolter, R., Walsh, C. T., et al. (2010). The identification of bacillaene, the product of the PksX megacomplex in Bacillus subtilis. Proceedings of the National Academy of Sciences of the USA 104, 1506-1509.
140. Hashimoto, M., Katsura, H., Kato, R., Kawaide, H., Natsume, M. (2010). Effect of pamamycin-607 on secondary metabolite production by Streptomyces spp. Bioscience, Biotechnology, and Biochemistry 75, 1722-1726.
141. Andres, N., Wolf, H., Zahner, H., Rossner, E., Zeeck, A., Konig, W. A., et al. (2010). Stoffwechselprodukte von Mikroorganismen. 253. Mitteilung. Hormaomycin, ein neues Peptid-lacton mit morphogener Aktivitat auf Streptomyceten. Helvetica Chimica Acta 72, 426-437.
142. Gonzalez, D. J., Haste, N. M., Hollands, A., Fleming, T. C., Hamby, M., Pogliano, K., et al. (2010). Microbial competition between Bacillus subtilis and Staphylococcus aureus monitored by imaging mass spectrometry. Microbiology 157, 2485-2492.
143. Periasamy, S., Joo, H.-S., Duong, A. C., Bach, T.-H. L., Tan, V. Y., Chatterjee, S. S., et al. (2010). How Staphylococcus aureus biofilms develop their characteristic structure. Proceedings of the National Academy of Sciences of the USA 109, 1281-1286.
144. Periasamy, S., Chatterjee, S. S., Cheung, G. Y. C., Otto, M. (2012). Phenol-soluble modulins in staphylococci: What are they originally for? Communicative and Integrative Biology 5, 275-277.
145. Cordero, O. X., Wildschutte, H., Kirkup, B., Proehl, S., Ngo, L., Hussain, F., et al. (2010). Ecological populations of bacteria act as socially cohesive units of antibiotic production and resistance. Science 337, 1228-1231.
146. Chait, R., Vetsigian, K., Kishony, R. (2012). What counters antibiotic resistance in nature? Nature Chemical Biology 8, 2-5.
147. D'Costa, V. M., McGrann, K. M., Hughes, D. W., Wright, G. D. (2010). Sampling the antibiotic resistome. Science (New York, NY) 311, 374-377.
148. Barger, S. R., Hoefler, B. C., Cubillos-Ruiz, A., Russell, W. K., Russell, D. H., Straight, P. D. (2010). Imaging secondary metabolism of Streptomyces sp. Mg1 during cellular lysis and colony degradation of competing Bacillus subtilis. Antonie van Leeuwenhoek 102, 435-445.
149. Aono, R. (2010). Characterization of cell wall components of the alkalophilic Bacillus strain C-125: Identification of a polymer composed of polyglutamate and polyglucuronate. Microbiology 135, 265-271.
150. Troy, F. A. (2010). Chemistry and biosynthesis of the poly(ggr-d-glutamyl) capsule in Bacillus licheniformis. II. Characterization and structural properties of the enzymatically synthesized polymer. Journal of Biology Chemistry 248, 316-324.
151. Goettler, W., Kaltenpoth, M., Herzner, G., Strohm, E. (2010). Morphology and ultrastructure of a bacteria cultivation organ: The antennal glands of female European beewolves, Philanthus triangulum (Hymenoptera, Crabronidae). Arthropod Structure and Development 36, 1-9.
152. Kaltenpoth, M., Goettler, W., Dale, C., Stubblefield, J. W., Herzner, G., Roeser-Mueller, K., et al. (2006). "Candidatus Streptomyces philanthi," an endosymbiotic streptomycete in the antennae of Philanthus digger wasps. International Journal of Systematic and Evolutionary Microbiology 56, 1403-1411.
153. Kaltenpoth, M., Gottler, W., Herzner, G., Strohm, E. (2010). Symbiotic bacteria protect wasp larvae from fungal infestation. Current Biology 15, 475-479.
154. Kroiss, J., Kaltenpoth, M., Schneider, B., Schwinger, M.-G., Hertweck, C., Maddula, R. K., et al. (2010). Symbiotic Streptomycetes provide antibiotic combination prophylaxis for wasp offspring. Nature Chemical Biology 6, 261-263.
155. Holldobler, B., Wilson, E. O. (1990). The Ants, Springer, Berlin, p. 732.
156. Currie, C. R., Scott, J. A., Summerbell, R. C., Malloch, D. (2010). Fungus-growing ants use antibiotic-producing bacteria to control garden parasites. Nature 398, 701-704.
157. Haeder, S., Wirth, R., Herz, H., Spiteller, D. (2010). Candicidin-producing Streptomyces support leaf-cutting ants to protect their fungus garden against the pathogenic fungus Escovopsis. Proceedings of the National Academy of Sciences of the USA 106, 4742-4746.
158. Oh, D.-C., Poulsen, M., Currie, C. R., Clardy, J. (2010). Dentigerumycin: A bacterial mediator of an ant-fungus symbiosis. Nature Chemical Biology 5, 391-393.
159. Barke, J., Seipke, R. F., Gruschow, S., Heavens, D., Drou, N., Bibb, M. J., et al. (2010). A mixed community of actinomycetes produce multiple antibiotics for the fungus farming ant Acromyrmex octospinosus. BMC Biology 8, 109.
160. Schoenian, I., Spiteller, M., Ghaste, M., Wirth, R., Herz, H., Spiteller, D. (2010). Chemical basis of the synergism and antagonism in microbial communities in the nests of leaf-cutting ants. Proceedings of the National Academy of Sciences of the USA 108, 1955-1960.
161. Fisher, P. J., Stradling, D. J., Sutton, B. C., Petrini, L. E. (2010). Microfungi in the fungus gardens of the leaf-cutting ant Atta cephalotes: A preliminary study. Mycological Research 100, 541-546.
162. Little, A. E. F., Robinson, C. J., Peterson, S. B., Raffa, K. F., Handelsman, J. (2010). Rules of engagement: Interspecies interactions that regulate microbial communities. Annual Review of Microbiology 62, 375-401.
163. Simon, C., Daniel, R. (2010). Metagenomic analyses: Past and future trends. Applied and Environmental Microbiology 77, 1153-1161.
164. Yang, Y.-L., Xu, Y., Kersten, R. D., Liu, W.-T., Meehan, M. J., Moore, B. S., et al. (2010). Connecting chemotypes and phenotypes of cultured marine microbial assemblages by imaging mass spectrometry. Angewandte Chemie International Edition 50, 5839-5842.
165. Chu, B. C., Garcia-Herrero, A., Johanson, T. H., Krewulak, K. D., Lau, C. K., Peacock, R. S., et al. (2010). Siderophore uptake in bacteria and the battle for iron with the host; a bird's eye view. Biometals: An international journal on the role of metal ions in biology, biochemistry, and medicine 23, 601-611.
166. Wang, Y., Wilks, J. C., Danhorn, T., Ramos, I., Croal, L., Newman, D. K. (2010). Phenazine-1-carboxylic acid promotes bacterial biofilm development via ferrous iron acquisition. Journal of Bacteriology 193, 3606-3617.
167. Ratledge, C., Dover, L. G. (2010). Iron metabolism in pathogenic bacteria. Annual Review of Microbiology 54, 881-941.
168. Traxler, M. F., Seyedsayamdost M. R., Clardy, J., Kolter, R. (2010). Interspecies modulation of bacterial development through iron competition and siderophore piracy. Molecular Microbiology 86, 628-644.
169. Weaver, V. B., Kolter, R. (2010). Burkholderia spp. alter Pseudomonas aeruginosa physiology through iron sequestration. Journal of Bacteriology 186, 2376-2384.
170. Miethke, M., Marahiel, M. A. (2010). Siderophore-based iron acquisition and pathogen control. Microbiology and Molecular Biology Reviews 71, 413-451.
171. Gonzalez, D. J., Xu, Y., Yang, Y.-L., Esquenazi, E., Liu, W.-T., Edlund, A., et al. (2010). Observing the invisible through imaging mass spectrometry, a window into the metabolic exchange patterns of microbes. Journal of Proteomics 75, 5069-5076.
172. Turnbaugh, P. J., Ley, R. E., Hamady, M., Fraser-Liggett, C. M., Knight, R., Gordon, J. I., (2010). The human microbiome project. Nature 449, 804-810.
173. Huse, S. M., Ye, Y., Zhou, Y., Fodor, A. A. (2012). A core human microbiome as viewed through 16S rRNA sequence clusters. PloS One 7, e34242.
174. Campbell, J. H., Foster, C. M., Vishnivetskaya, T., Campbell, A. G., Yang, Z. K., Wymore, A., et al. (2010). Host genetic and environmental effects on mouse intestinal microbiota. The ISME Journal 6, 2033-2044.
175. Wylie, K. M., Weinstock, G. M., Storch, G. A. (2010). Emerging view of the human virome. Translational Research: The Journal of Laboratory and Clinical Medicine 160, 283-290.
176. Hu, Y., Yang, X., Qin, J., Lu, N., Cheng, G., Wu, N., et al. (2013). Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota. Nature Communications 4, 2151.
177. Beck, J. M., Young, V. B., Huffnagle, G. B. (2010). The microbiome of the lung. Translational Research: The Journal of Laboratory and Clinical Medicine 160, 258-266.
178. Morgan, X. C., Segata, N., Huttenhower, C. (2010). Biodiversity and functional genomics in the human microbiome. Trends in genetics 29, 51-58.
179. Leone, V., Chang, E. B., Devkota, S. (2010). Diet, microbes, and host genetics: The perfect storm in inflammatory bowel diseases. Journal of Gastroenterology 48, 315-321.
180. Markle, J. G. M., Frank, D. N, Mortin-Toth, S., Robertson, C. E., Feazel, L. M., RolleKampczyk, U., et al. (2010). Sex differences in the gut microbiome drive hormonedependent regulation of autoimmunity. Science 339, 1084-1088.
181. Ursell, L. K., Knight, R. (2010). Xenobiotics and the human gut microbiome: Metatranscriptomics reveal the active players. Cell Metabolism 17, 317-318.
182. The Human Microbiome Project Consortium. (2012). Structure, function and diversity of the healthy human microbiome. Nature 486, 207-214.
183. Rath, C. M., Alexandrov, T., Higginbottom, S. K., Song, J., Milla, M. E., Fischbach, M. A., et al. (2010). Molecular analysis of model gut microbiotas by imaging mass spectrometry and nanodesorption electrospray ionization reveals dietary metabolite transformations. Analytical Chemistry 84, 9259-9267.
184. Carroll, I. M., Threadgill, D. W., Threadgill, D. S. (2010). The gastrointestinal microbiome: A malleable, third genome of mammals. Mammalian Genome 20, 395-403.
185. Kelly, P. (2010). Nutrition, intestinal defence and the microbiome. The Proceedings of the Nutrition Society 69, 261-268.
186. Sekirov, I., Russell, S. L., Antunes, L. C. M., Finlay, B. B. (2010). Gut microbiota in health and disease. Physiological Reviews 90, 859-904.
187. Gonzalez-Pastor, J. E., Hobbs, E. C., Losick, R. (2010). Cannibalism by sporulating bacteria. Science 301, 510-513.
188. Liu, W.-T., Yang, Y.-L., Xu, Y., Lamsa, A., Haste, N. M., Yang, J. Y., et al. (2010). Imaging mass spectrometry of intraspecies metabolic exchange revealed the cannibalistic factors of Bacillus subtilis. Proceedings of the National Academy of Sciences of the USA 107, 16286-16290.
189. Ellermeier, C. D., Hobbs, E. C., Gonzalez-Pastor, J. E., Losick, R. (2010). A three-protein signaling pathway governing immunity to a bacterial cannibalism toxin. Cell 124, 549-559.
190. Fujita, M., Gonzalez-Pastor, J. E., Losick, R. (2010). High and low-threshold genes in the Spo0A regulon of Bacillus subtilis. Journal of Bacteriology 187, 1357-1368.
191. Kersten, R. D., Yang Y.-L., Xu, Y., Cimermancic, P., Nam, S.-J., Fenical, W., et al. (2010). A mass spectrometry-guided genome mining approach for natural product peptidogenomics. Nature Chemical Biology 7, 794-802.
192. Liu, W., Kersten, R. D., Yang, Y., Moore, B. S., Dorrestein, P. C. (2010). Imaging mass spectrometry and genome mining via short sequence tagging identified the anti-infective agent arylomycin in Streptomyces roseosporus. Journal of the American Chemical Society 133, 18010-18013.
193. Steenbergen, J. N., Alder, J., Thorne, G. M., Tally, F. P. (2010). Daptomycin: A lipopeptide antibiotic for the treatment of serious Gram-positive infections. The Journal of Antimicrobial Chemotherapy 55, 283-288.
194. Gonzalez, D. J., Okumura, C. Y., Hollands, A., Kersten, R., Akong-Moore, K., Pence, M. A., et al. (2010). Novel phenol-soluble modulin derivatives in community-associated methicillin-resistant Staphylococcus aureus identified through imaging mass spectrometry. The Journal of Biological Chemistry 287, 13889-13898.
195. Joo, H.-S., Cheung, G. Y. C., Otto, M. (2010). Antimicrobial activity of communityassociated methicillin-resistant Staphylococcus aureus is caused by phenol-soluble modulin derivatives. The Journal of Biological Chemistry 286, 8933-8940.
196. Cytoscape: An Open Source Platform for Complex Network Analysis and Visualization [Internet]. [cited 2013 Mar 20]. Available from http://www.cytoscape.org/
197. Anton, J., Lucio, M., Pena, A., Cifuentes, A., Brito-Echeverria, J., Moritz, F., et al. (2013). High metabolomic microdiversity within co-occurring isolates of the extremely halophilic bacterium Salinibacter ruber. Brochier-Armanet C, editor. PLoS One 8, e64701.
198. Liu, G., Chater, K. F., Chandra, G., Niu, G., Tan, H. (2013). Molecular regulation of antibiotic biosynthesis in Streptomyces. Microbiology and Molecular Biology Reviews 77, 112-143.
199. Moree, W. J., Yang, J. Y., Zhao, X., Liu, W.-T., Aparicio, M., Atencio, L., et al. (2010). Imaging mass spectrometry of a coral microbe interaction with fungi. Journal of Chemical Ecology 39, 1045-1054.
200. Nguyen, D. D., Wu, C.-H., Moree, W. J., Lamsa, A., Medema, M. H., Zhao, X., et al. (2013). MS/MS networking guided analysis of molecule and gene cluster families. Proceedings of the National Academy of Sciences of the USA 110, E2611-E2620.
201. Rath, C. M., Yang, J. Y., Alexandrov, T., Dorrestein, P. C. (2010). Data-independent microbial metabolomics with ambient ionization mass spectrometry. Journal of the American Society for Mass Spectrometry 24, 1167-1176.
202. Wolfender, J.-L., Rudaz, S., Choi, Y. H., Kim, H. K. (2010). Plant metabolomics: From holistic data to relevant biomarkers. Current Medicinal Chemistry 20, 1056-1090.
203. Bauernfeind, A., Bertele, R. M., Harms, K., Horl, G., Jungwirth, R., Petermuller, C., et al. (1987) Qualitative and quantitative microbiological analysis of sputa of 102 patients with cystic fibrosis. Infection 15, 270-277.
204. Pierson, L. S., Pierson, E. A. (2010). Metabolism and function of phenazines in bacteria: Impacts on the behavior of bacteria in the environment and biotechnological processes. Applied Microbiology and Biotechnology 86, 1659-1670.
205. Price-Whelan, A., Dietrich, L. E. P., Newman, D. K. (2006). Rethinking "secondary" metabolism: Physiological roles for phenazine antibiotics. Nature Chemical Biology 2, 71-78.
206. Smith, J. E., ed. (1994). Aspergillus. Springer, Boston.
207. Dietrich, L. E. P., Price-Whelan, A., Petersen, A., Whiteley, M., Newman, D. K. (2010). The phenazine pyocyanin is a terminal signalling factor in the quorum sensing network of Pseudomonas aeruginosa. Molecular Microbiology 61, 1308-1321.
208. Lewis, K. (2010). Persister cells. Annual Review of Microbiology 64, 357-372.
209. Vlamakis, H., Chai, Y., Beauregard, P., Losick, R., Kolter, R. (2010). Sticking together: Building a biofilm the Bacillus subtilis way. Nature Reviews Microbiology 11, 157-168.
210. Aguilar, C., Vlamakis, H., Losick, R., Kolter, R. (2010). Thinking about Bacillus subtilis as a multicellular organism. Current Opinion in Microbiology 10, 638-643.
211. Lopez, D., Vlamakis, H., Kolter, R. (2009). Generation of multiple cell types in Bacillus subtilis. FEMS Microbiology Reviews 33, 152-163.
212. Lopez, D., Vlamakis, H., Losick, R., Kolter, R. (2010). Paracrine signaling in a bacterium. Genes and Development 23, 1631-1638.
213. Yim, G., Wang, H. H., Davies, J. (2010). Antibiotics as signalling molecules. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences 362, 1195-200.
214. Lopez, D., Kolter, R. (2010). Extracellular signals that define distinct and coexisting cell fates in Bacillus subtilis. FEMS Microbiology Reviews 34, 134-149.
215. Schober, Y., Guenther, S., Spengler, B., Rompp, A. (2010). Single cell matrix-assisted laser desorption/ionization mass spectrometry imaging. Analytical Chemistry 84, 6293-6297.
216. Zavalin, A., Todd, E. M., Rawhouser, P. D., Yang, J., Norris, J. L., Caprioli, R. M. (2010). Direct imaging of single cells and tissue at sub-cellular spatial resolution using transmission geometry MALDI MS. Journal of Mass Spectrometry: JMS 47, 1473-1481.
217. Spengler, B., Hubert, M. (2010). Scanning microprobe matrix-assisted laser desorption ionization (SMALDI) mass spectrometry: Instrumentation for sub-micrometer resolved LDI and MALDI surface analysis. Journal of the American Society for Mass Spectrometry 13, 735-748.
218. Boggio, K. J., Obasuyi, E., Sugino, K., Nelson, S. B., Agar, N. Y., Agar, J. N. (2010). Recent advances in single-cell MALDI mass spectrometry imaging and potential clinical impact. Expert Review of Proteomics 8, 591-604.
219. Becker, M, Deininger, S. O., Holle, A., Hoehndorf, J., Schurenberg, M., Pineau, C. (2010). High definition MALDI imaging: New analytical capabilities for proteinbiomarker discovery from tissue. Journal of Biomolecular Techniques 21, S33-S34.
220. Yang, J., Caprioli, R. M. (2010). Matrix sublimation/recrystallization for imaging proteins by mass spectrometry at high spatial resolution. Analytical Chemistry 83, 5728-5734.
221. Thomas, A., Charbonneau, J. L., Fournaise, E., Chaurand, P. (2010). Sublimation of new matrix candidates for high spatial resolution imaging mass spectrometry of lipids: Enhanced information in both positive and negative polarities after 1, 5-diaminonapthalene deposition. Analytical Chemistry 84, 2048-2054.
222. Holscher, D., Shroff, R., Knop, K., Gottschaldt, M., Crecelius, A., Schneider, B., et al. (2010). Matrix-free UV-laser desorption/ionization (LDI) mass spectrometric imaging at the single-cell level: Distribution of secondary metabolites of Arabidopsis thaliana and Hypericum species. The Plant Journal 60, 907-918.
223. Akhmetov, A., Moore, J. F., Gasper, G. L., Koin, P. J., Hanley, L. (2010). Laser desorption postionization for imaging MS of biological material. Journal of Mass Spectrometry 45, 137-145.
224. Wang, H.-L., Hu, Y.-J., Xing, D. (2010). Recent progress of two-step laser desorption/ laser ionization mass spectrometry and its application. Chinese Journal of Analytical Chemistry 39, 276-282.
225. Hanley, L., Zimmermann, R. (2010). Light and molecular ions: The emergence of vacuum UV single-photon ionization in MS. Analytical Chemistry 81, 4174-4182.
226. Edirisinghe, P. D., Moore, J. F., Skinner-Nemec, K. A., Lindberg, C., Giometti, C. S., Veryovkin, I. V., et al. (2010). Detection of in situ derivatized peptides in microbial biofilms by laser desorption 7.87 eV postionizaton mass spectrometry. Analytical Chemistry 79, 508-514.
227. Gasper, G. L., Takahashi, L. K., Zhou, J., Ahmed, M., Moore, J. F., Hanley, L. (2010). Laser desorption postionization mass spectrometry of antibiotic-treated bacterial biofilms using tunable vacuum ultraviolet radiation. Analytical Chemistry 82, 7472-7478.
228. Bhardwaj, C., Moore, J. F., Cui, Y., Gasper, G. L., Bernstein, H. C., Carlson, R. P., et al. (2010). Laser desorption VUV postionization MS imaging of a cocultured biofilm. Analytical and Bioanalytical Chemistry 405, 6969-6977.
229. Blaze, M. T. M., Akhmetov, A., Aydin, B., Edirisinghe, P. D., Uygur, G., Hanley, L. (2010). Quantification of antibiotic in biofilm-inhibiting multilayers by 7.87 eV laser desorption postionization MS imaging. Analytical Chemistry 84, 9410-9415.
230. Wiseman, J. M., Ifa, D. R., Song, Q., Cooks, R. G. (2010). Tissue imaging at atmospheric pressure using desorption electrospray ionization (DESI) mass spectrometry. Angewandte Chemie 45, 7188-7192.
231. Wiseman, J. M., Ifa, D. R., Zhu, Y., Kissinger, C. B., Manicke, N. E., Kissinger, P. T., et al. (2010). Desorption electrospray ionization mass spectrometry: Imaging drugs and metabolites in tissues. Proceedings of the National Academy of Sciences of the USA 105, 18120-18125.
232. Kertesz, V., Van Berkel, G. J. (2010). Chemical imaging with desorption electrospray ionization mass spectrometry. In Methods in Molecular Biology, Vol. 656, J. V. Sweedler and S. S. Rubakhin, eds., Humana Press, Totowa, NJ, pp. 231-241.
233. Lane, A. L., Nyadong, L., Galhena, A. S., Shearer, T. L., Stout, E. P., Parry, R. M., et al. (2010). Desorption electrospray ionization mass spectrometry reveals surface-mediated antifungal chemical defense of a tropical seaweed. Proceedings of the National Academy of Sciences of the USA 106, 7314-7319.
234. Lanekoff, I., Geydebrekht, O., Pinchuk, G. E., Konopka, A. E., Laskin, J. (2010). Spatially resolved analysis of glycolipids and metabolites in living Synechococcus sp. PCC 7002 using nanospray desorption electrospray ionization. The Analyst 138, 1971-1978.
235. Schober, Y., Guenther, S., Spengler, B., Rompp, A. (2010). High-resolution matrixassisted laser desorption/ionization imaging of tryptic peptides from tissue. Rapid Communications in Mass Spectrometry: RCM 26, 1141-1146.
236. Schober, Y., Schramm, T., Spengler, B., Rompp, A. (2010). Protein identification by accurate mass matrix-assisted laser desorption/ionization imaging of tryptic peptides. Rapid Communications in Mass Spectrometry: RCM 25, 2475-2483.
237. Blaze, M. T. M., Aydin, B., Carlson, R. P., Hanley, L. (2010). Identification and imaging of peptides and proteins on Enterococcus faecalis biofilms by matrix assisted laser desorption ionization mass spectrometry. The Analyst 137, 5018-5025.
238. Jiao, J., Miao, A., Zhang, X., Cai, Y., Lu, Y., Zhang, Y., et al. (2010). Realization of on-tissue protein identification by highly efficient in situ digestion with graphene-immobilized trypsin for MALDI imaging analysis. The Analyst 138, 1645-1648.
239. Stauber, J., MacAleese, L., Franck, J., Claude, E., Snel, M., Kaletas, B. K., et al. (2010). On-tissue protein identification and imaging by MALDI-ion mobility mass spectrometry. Journal of the American Society for Mass Spectrometry 21, 338-347.
240. Franck, J., El Ayed, M., Wisztorski, M., Salzet, M., Fournier, I. (2010). On-tissue N-terminal peptide derivatizations for enhancing protein identification in MALDI mass spectrometric imaging strategies. Analytical Chemistry 81, 8305-8317.
241. Franck, J., Ayed, M. El, Wisztorski, M., Salzet, M., Fournier, I. (2010). On tissue protein identification improvement by N-terminal peptide derivatization. In Methods in Molecular Biology, Vol. 656, J. V. Sweedler and S. S. Rubakhin, eds., Humana Press, Totowa, NJ, pp. 323-338.
242. Nyadong, L., Hohenstein, E. G, Galhena, A., Lane, A. L., Kubanek, J., Sherrill, C. D., et al. (2010). Reactive desorption electrospray ionization mass spectrometry (DESI-MS) of natural products of a marine alga. Analytical and Bioanalytical Chemistry 394, 245-254.
243. Laskin, J., Eckert, P. A., Roach, P. J., Heath, B. S., Nizkorodov, S. A., Laskin, A. (2010). Chemical analysis of complex organic mixtures using reactive nanospray desorption electrospray ionization mass spectrometry. Analytical Chemistry 84, 7179-7187.
244. Santos, H. M., Capelo, J. L. (2010). Probe-based chemical modulations of tissues for IMS. Journal of Proteomics 75, 4921-4930.
245. Gagnon, H., Franck, J., Wisztorski, M., Day, R., Fournier, I., Salzet, M. (2010). TARGETED MASS spectrometry imaging: Specific targeting mass spectrometry imaging technologies from history to perspective. Progress in Histochemistry and Cytochemistry 47, 133-174.
246. Thiery, G., Mernaugh, R. L., Yan, H., Spraggins, J. M., Yang, J., Parl, F. F., et al. (2010). Targeted multiplex imaging mass spectrometry with single chain fragment variable (scfv) recombinant antibodies. Journal of the American Society for Mass Spectrometry 23, 1689-1696.
247. Dai, C., Cazares, L. H., Wang, L., Chu, Y., Wang, S. L., Troyer, D. et al. (2010). Using boronolectin in MALDI-MS imaging for the histological analysis of cancer tissue expressing the sialyl Lewis X antigen. Chemical Communications 47, 10338-10340.
248. Liu, Y., Patricelli, M. P., Cravatt, B. F. (2010). Activity-based protein profiling: The serine hydrolases. Proceedings of the National Academy of Sciences of the USA 96, 14694-14699.
249. Kuru, E., Hughes, H. V., Brown, P. J., Hall, E., Tekkam, S., Cava, F., et al. (2010). In situ probing of newly synthesized peptidoglycan in live bacteria with fluorescent d-amino acids. Angewandte Chemie 51, 12519-12523.
250. Siegrist, M. S., Whiteside, S., Jewett, J. C., Aditham, A., Cava, F., Bertozzi, C. R. (2010). d-Amino acid chemical reporters reveal peptidoglycan dynamics of an intracellular pathogen. ACS Chemical Biology 8, 500-505.
251. Stauber, J., Ayed, M. El., Wisztorski, M., Salzet, M., Fournier, I. (2010). Specific MALDI-MSI: Tag-mass. In Methods in Molecular Biology, Vol. 656, J. V. Sweedler and S. S. Rubakhin, eds., Humana Press, Totowa, NJ, pp. 339-361.
252. Lemaire, R., Stauber, J., Wisztorski, M., Van Camp, C., Desmons, A., Deschamps, M., et al. (2010). Tag-mass: Specific molecular imaging of transcriptome and proteome by mass spectrometry based on photocleavable tag. Journal of Proteome Research 6, 2057-2067.