Single cell proteomics using frog (Xenopus laevis) blastomeres isolated from early stage embryos, which form a geometric progression in protein content

Analytical Chemistry

Volumn 88, Issue 13, 2016, Pages 6653-6657

  Sun, Liangliang ^a   Dubiak, Kyle M ^a   Peuchen, Elizabeth H ^a   Zhang, Zhenbin ^a   Zhu, Guijie ^a   Huber, Paul W ^a   Dovichi, Norman J ^a  

^a UNIVERSITY OF NOTRE DAME   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL PROLIFERATION; CELLS; CYTOLOGY; ELECTROSPRAY IONIZATION; IONIZATION OF LIQUIDS; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MOLECULAR BIOLOGY;

AFRICAN CLAWED FROG; CELLULAR DIFFERENTIATION; GEOMETRIC PROGRESSIONS; GROUP IDENTIFICATION; PROTEIN EXPRESSIONS; QUANTITATIVE PROTEOMICS; REVERSED PHASE LIQUID-CHROMATOGRAPHY; SINGLECELL ANALYSIS;

PROTEINS;

PROTEOME;

ANIMAL; BLASTOMA; CELL DIFFERENTIATION; CYTOLOGY; ELECTROSPRAY MASS SPECTROMETRY; EMBRYO DEVELOPMENT; GROWTH, DEVELOPMENT AND AGING; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; ISOLATION AND PURIFICATION; METABOLISM; NONMAMMALIAN EMBRYO; PROTEOMICS; REVERSED PHASE LIQUID CHROMATOGRAPHY; SINGLE CELL ANALYSIS; XENOPUS LAEVIS;

ANIMALS; BLASTOMERES; CELL DIFFERENTIATION; CHROMATOGRAPHY, HIGH PRESSURE LIQUID; CHROMATOGRAPHY, REVERSE-PHASE; EMBRYO, NONMAMMALIAN; EMBRYONIC DEVELOPMENT; PROTEOME; PROTEOMICS; SINGLE-CELL ANALYSIS; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; XENOPUS LAEVIS;

EID: 84979034701     PISSN: 00032700     EISSN: 15206882     Source Type: Journal    
DOI: 10.1021/acs.analchem.6b01921     Document Type: Article

References (40)

1. Cohen, D.; Dickerson, J. A.; Whitmore, C. D.; Turner, E. H.; Palcic, M. M.; Hindsgaul, O.; Dovichi, N. J. Annu. Rev. Anal. Chem. 2008, 1, 165-190 10.1146/annurev.anchem.1.031207.113104
2. Schubert, C. Nature 2011, 480, 133-137 10.1038/480133a
3. Rubakhin, S. S.; Romanova, E. V.; Nemes, P.; Sweedler, J. V. Nat. Methods 2011, 8, S20-29 10.1038/nmeth.1549
4. Bendall, S. C.; Nolan, G. P. Nat. Biotechnol. 2012, 30, 639-647 10.1038/nbt.2283
5. Rubakhin, S. S.; Sweedler, J. V. Anal. Chem. 2008, 80, 7128-7136 10.1021/ac8010389
6. Aerts, J. T.; Louis, K. R.; Crandall, S. R.; Govindaiah, G.; Cox, C. L.; Sweedler, J. V. Anal. Chem. 2014, 86, 3203-3208 10.1021/ac500168d
7. Lorenzo Tejedor, M.; Mizuno, H.; Tsuyama, N.; Harada, T.; Masujima, T. Anal. Chem. 2012, 84, 5221-5228 10.1021/ac202447t
8. Chen, F.; Lin, L.; Zhang, J.; He, Z.; Uchiyama, K.; Lin, J. M. Anal. Chem. 2016, 88, 4354-4360 10.1021/acs.analchem.5b04749
9. Nemes, P.; Knolhoff, A. M.; Rubakhin, S. S.; Sweedler, J. V. Anal. Chem. 2011, 83, 6810-6817 10.1021/ac2015855
10. Wei, Z.; Xiong, X.; Guo, C.; Si, X.; Zhao, Y.; He, M.; Yang, C.; Xu, W.; Tang, F.; Fang, X.; Zhang, S.; Zhang, X. Anal. Chem. 2015, 87, 11242-11248 10.1021/acs.analchem.5b02115
11. Ong, T. H.; Kissick, D. J.; Jansson, E. T.; Comi, T. J.; Romanova, E. V.; Rubakhin, S. S.; Sweedler, J. V. Anal. Chem. 2015, 87, 7036-7042 10.1021/acs.analchem.5b01557
12. Onjiko, R. M.; Moody, S. A.; Nemes, P. Proc. Natl. Acad. Sci. U. S. A. 2015, 112, 6545-6550 10.1073/pnas.1423682112
13. Waanders, L. F.; Chwalek, K.; Monetti, M.; Kumar, C.; Lammert, E.; Mann, M. Proc. Natl. Acad. Sci. U. S. A. 2009, 106, 18902-18907 10.1073/pnas.0908351106
14. Wang, N.; Xu, M.; Wang, P.; Li, L. Anal. Chem. 2010, 82, 2262-2271 10.1021/ac9023022
15. Tian, R.; Wang, S.; Elisma, F.; Li, L.; Zhou, H.; Wang, L.; Figeys, D. Mol. Cell. Proteomics 2011, 10, M110.000679 10.1074/mcp.M110.000679
16. Wiśniewski, J. R.; Ostasiewicz, P.; Mann, M. J. Proteome Res. 2011, 10, 3040-3049 10.1021/pr200019m
17. Sun, L.; Zhu, G.; Li, Y.; Yang, P.; Dovichi, N. J. Anal. Chem. 2012, 84, 8715-8721 10.1021/ac3019608
18. Chen, W.; Wang, S.; Adhikari, S.; Deng, Z.; Wang, L.; Chen, L.; Ke, M.; Yang, P.; Tian, R. Anal. Chem. 2016, 88, 4864-4871 10.1021/acs.analchem.6b00631
19. Chen, Q.; Yan, G.; Gao, M.; Zhang, X. Anal. Chem. 2015, 87, 6674-6680 10.1021/acs.analchem.5b00808
20. Murgia, M.; Nagaraj, N.; Deshmukh, A. S.; Zeiler, M.; Cancellara, P.; Moretti, I.; Reggiani, C.; Schiaffino, S.; Mann, M. EMBO Rep. 2015, 16, 387-395 10.15252/embr.201439757
21. Sun, L.; Zhu, G.; Zhao, Y.; Yan, X.; Mou, S.; Dovichi, N. J. Angew. Chem., Int. Ed. 2013, 52, 13661-13664 10.1002/anie.201308139
22. Li, S.; Plouffe, B. D.; Belov, A. M.; Ray, S.; Wang, X.; Murthy, S. K.; Karger, B. L.; Ivanov, A. R. Mol. Cell. Proteomics 2015, 14, 1672-1683 10.1074/mcp.M114.045724
23. Sun, L.; Zhu, G.; Dovichi, N. J. Anal. Chem. 2013, 85, 4187-4194 10.1021/ac400523x
24. Zhang, Z.; Sun, L.; Zhu, G.; Cox, O. F.; Huber, P. W.; Dovichi, N. J. Anal. Chem. 2016, 88, 877-882 10.1021/acs.analchem.5b03496
25. Kulak, N. A.; Pichler, G.; Paron, I.; Nagaraj, N.; Mann, M. Nat. Methods 2014, 11, 319-324 10.1038/nmeth.2834
26. Lowry, C. V.; Kimmey, J. S.; Felder, S.; Chi, M. M.; Kaiser, K. K.; Passonneau, P. N.; Kirk, K. A.; Lowry, O. H. J. Biol. Chem. 1978, 253, 8269-8277
27. Whittal, R. M.; Keller, B. O.; Li, L. Anal. Chem. 1998, 70, 5344-5347 10.1021/ac980754k
28. Mellors, J. S.; Jorabchi, K.; Smith, L. M.; Ramsey, J. M. Anal. Chem. 2010, 82, 967-973 10.1021/ac902218y
29. Giesen, C.; Wang, H. A.; Schapiro, D.; Zivanovic, N.; Jacobs, A.; Hattendorf, B.; Schüffler, P. J.; Grolimund, D.; Buhmann, J. M.; Brandt, S.; Varga, Z.; Wild, P. J.; Günther, D.; Bodenmiller, B. Nat. Methods 2014, 11, 417-422 10.1038/nmeth.2869
30. Sun, L.; Bertke, M. M.; Champion, M. M.; Zhu, G.; Huber, P. W.; Dovichi, N. J. Sci. Rep. 2014, 4, 4365 10.1038/srep04365
31. Smits, A. H.; Lindeboom, R. G.; Perino, M.; van Heeringen, S. J.; Veenstra, G. J.; Vermeulen, M. Nucleic Acids Res. 2014, 42, 9880-9891 10.1093/nar/gku661
32. Lombard-Banek, C.; Moody, S. A.; Nemes, P. Angew. Chem., Int. Ed. 2016, 55, 2454-2458 10.1002/anie.201510411
33. Peuchen, E. H.; Sun, L.; Dovichi, N. J. Anal. Bioanal. Chem. 2016, 408, 4743 10.1007/s00216-016-9564-2
34. Moody, S. A. Dev. Biol. 1987, 119, 560-578 10.1016/0012-1606(87)90059-5
35. Wiśniewski, J. R.; Zougman, A.; Nagaraj, N.; Mann, M. Nat. Methods 2009, 6, 359-362 10.1038/nmeth.1322
36. Cox, J.; Mann, M. Nat. Biotechnol. 2008, 26, 1367-1372 10.1038/nbt.1511
37. Smith, R. D.; Anderson, G. A.; Lipton, M. S.; Pasa-Tolic, L.; Shen, Y.; Conrads, T. P.; Veenstra, T. D.; Udseth, H. R. Proteomics 2002, 2, 513-523 10.1002/1615-9861(200205)2:5<513::AID-PROT513>3.0.CO;2-W
38. Cox, J.; Hein, M. Y.; Luber, C. A.; Paron, I.; Nagaraj, N.; Mann, M. Mol. Cell. Proteomics 2014, 13, 2513-2526 10.1074/mcp.M113.031591
39. Wang, Y.; Fonslow, B. R.; Wong, C. C.; Nakorchevsky, A.; Yates, J. R., 3rd. Anal. Chem. 2012, 84, 8505-8513 10.1021/ac301091m
40. Ludwig, K. R.; Sun, L.; Zhu, G.; Dovichi, N. J.; Hummon, A. B. Anal. Chem. 2015, 87, 9532-9537 10.1021/acs.analchem.5b02457