Citation: ZHENG Min-Yang, LU Gang, LI Yang, ZHANG Zhen-Bin, ZHAO Yu-Fen. Recent Development in Mass-limited Sample Preparation Methods for Proteomics[J]. Chinese Journal of Analytical Chemistry, ;2022, 50(9): 1279-1288. doi: 10.19756/j.issn.0253-3820.221004 shu

Recent Development in Mass-limited Sample Preparation Methods for Proteomics

Institute of Drug Discovery Technology, Ningbo University, Ningbo 315211, China

Corresponding author: ZHANG Zhen-Bin, ZHAO Yu-Fen,
Received Date: 3 January 2022
Revised Date: 25 May 2022

Fund Project: Supported by the Research Funding of Ningbo University (No.215-432000282), the Ningbo Top Talent Project (No.215-432094250) and the K.C. Wong Magna Fund in Ningbo University.

Sample preparation methods determine the sensitivity and quantitative accuracy of proteomics analysis, especially for mass-limited proteomics sample. Traditional preparation methods of proteomic sample, such as in-solution digestion and filter aided sample preparation (FASP) method, generally require large amount of starting materials due to the significant sample loss, and thus is not suitable for the qualitative and quantitative analysis of mass-limited samples, such as small number of subcellular cells, biopsy samples, single cells, et al. To overcome this problem, it is urgent to develop sample preparation methods for microgram or even nanogram of starting materials. This paper reviewed various mass-limited sample preparation methods that based on different mechanisms, such as in-StageTip, single-pot solid-phase-enhanced sample preparation (SP3), integrated proteome analysis device (iPAD), simple and integrated spintip-based proteomics technology (SISPROT), fully automated sample treatment (FAST), miniaturized filter-aided sample preparation (MICROFASP) and so on. The development trends in the future were also envisioned.
- Sample preparation methods,
- Mass-limited sample,
- Proteomics,
- Integration,
- Review
1. [1]
  ASLAM B, BASIT M, NISAR M A, KHURSHID M, RASOOL M H. J. Chromatogr. Sci., 2017, 55(2):182-196.
2. [2]
  WISNIEWSKI J R, ZOUGMAN A, NAGARAJ N, MANN M. Nat. Methods, 2009, 6(5):359-362.
3. [3]
  LIEBLER D C, HAM A J. Nat. Methods, 2009, 6(11):785.
4. [4]
  ERDE J, LOO R R, LOO J A. J. Proteome Res., 2014, 13(4):1885-1895.
5. [5]
  ZHAO Q, FANG F, WU C, WU Q, LIANG Y, LIANG Z, ZHANG L H, ZHANG Y K. Anal. Chim. Acta, 2016, 912:58-64.
6. [6]
  NDIAYE M M, TA H P, CHIAPPETTA G, VINH J. J. Proteome Res., 2020, 19(7):2654-2663.
7. [7]
  ZHANG Z B, DUBIAK K M, HUBER P W, DOVICHI N J. Anal. Chem., 2020, 92(7):5554-5560.
8. [8]
  ZHANG Z B, DUBIAK K M, SHISHKOVA E, HUBER P W, COON J J, DOVICHI N J. Anal. Chem., 2022, 94(7):3254-3259.
9. [9]
  WANG N, XU M G, WANG P, LI L. Anal. Chem., 2010, 82(6):2262-2271.
10. [10]
  KULAK N A, PICHLER G, PARON I, NAGARAJ N, MANN M. Nat. Methods, 2014, 11(3):319-324.
11. [11]
  GEYER P E, HOLDT L M, TEUPSER D, MANN M. Mol. Syst. Biol., 2017, 13(9):942.
12. [12]
  KOSTAS J C, GREGUS M, SCHEJBAL J, RAY S, IVANOV A R. J. Proteome Res., 2021, 20(3):1676-1688.
13. [13]
  CHEN Q, YAN G Q, GAO M X, ZHANG X M. Anal. Chem., 2015, 87(13):6674-6680.
14. [14]
  CHEN Q, YAN G Q, GAO M X, ZHANG X M. Anal.Bioanal. Chem., 2015, 407(3):1027-1032.
15. [15]
  MILLER A J, YU Q H, CZERWINSKI M, TSAI Y H, CONWAY R F, WU A, HOLLOWAY E M, WALKER T, GLASS I A, TREUTLEIN B, CAMP J G, SPENCE J R. Dev. Cell, 2020, 53(1):117-128.
16. [16]
  BUETTNER F, NATARAJAN K N, CASALE F P, PROSERPIO V, SCIALDONE A, THEIS F J, TEICHMANN S A, MARIONI J C, STEGIE O. Nat. Biotechnol., 2015, 33(2):155-160.
17. [17]
  DOERR A. Nat. Methods, 2019, 16(1):20.
18. [18]
  SHAO X, WANG X T, GUAN S, LIN H Z, YAN G Q, GAO M X, DENG C H, ZHANG X M. Anal. Chem., 2018, 90(23):14003-14010.
19. [19]
  LI Z Y, HUANG M, WANG X K, ZHU Y, LI J S, WONG C C L, FANG Q. Anal. Chem., 2018, 90(8):5430-5438.
20. [20]
  ZHU Y, PIEHOWSKI P D, ZHAO R, CHEN J, SHEN Y F, MOORE R J, SHUKLA A K, PETYUK V A, CAMPBELL-THOMPSON M, MATHEWS C E, SMITH R D, QIAN W J, KELLY R T. Nat. Commun., 2018, 9:882.
21. [21]
  XU K R, LIANG Y R, PIEHOWSKI P D, DOU M W, SCHWARZ K C, ZHAO R, SONTAG R L, MOORE R J, ZHU Y, KELLY R T. Anal. Bioanal. Chem., 2019, 411(19):4587-4596.
22. [22]
  ROSEVEAR P, VANAKEN T, BAXTER J, FERGUSON-MILLER S. Biochemistry, 1980, 19(17):4108-4115.
23. [23]
  ETHIER M, HOU W M, DUEWEL H S, FIGEYS D. J. Proteome Res., 2006, 5(10):2754-2759.
24. [24]
  TIAN R J, WANG S A, ELISMA F, LI L, ZHOU H, WANG L S, FIGEYS D. Mol. Cell. Proteomics, 2011, 10(2):M110.000679.
25. [25]
  ZHANG Z B, WANG F J, XU B, QIN H Q, YE M L, ZOU H F. J. Chromatogr. A, 2012, 1256:136-143.
26. [26]
27. [27]
  ZHANG Z B, SUN L L, ZHU G J, COX O F, HUBER P W, DOVICHI N J. Anal. Chem., 2016, 88(1):877-882.
28. [28]
  ZHAO Q, LIANG Y, YUAN H M, SUI Z G, WU Q, LIANG Z, ZHANG L H, ZHANG Y K. Anal. Chem., 2013, 85(18):8507-8512.
29. [29]
  HUGHES C S, FOEHR S, GARFIELD D A, FURLONG E E, STEINMETZ L M, KRIJGSVELD J. Mol. Syst. Biol., 2014, 10(10):757.
30. [30]
  HUGHES C S, MOGGRIDGE S, MULLER T, SORENSEN P H, MORIN G B, KRIJGSVELD J. Nat. Protoc., 2019, 14(1):68-85.
31. [31]
  MULLER T, KALXDORF M, LONGUESPEE R, KAZDAL D N, STENZINGER A, KRIJGSVELD J. Mol. Syst. Biol., 2020, 16(1):e9111.
32. [32]
  YANG Z C, ZHANG Z R, CHEN D Y, XU T, WANG Y, SUN L L. Anal. Chem., 2021, 93(30):10568-10576.
33. [33]
  HATA K, IZUMI Y, HARA T, MATSUMOTO M, BAMBA T. Anal. Chem., 2020, 92(4):2997-3005.
34. [34]
  CHEN W D, WANG S, ADHIKARI S, DENG Z H, WANG L J, CHEN L, KE M, YANG P Y, TIAN R J. Anal. Chem., 2016, 88(9):4864-4871.
35. [35]
  CHEN W D, ADHIKARI S, CHEN L, LIN L, LI H, LUO S S, YANG P Y, TIAN R J. J. Chromatogr. A, 2017, 1498:207-214.
36. [36]
37. [37]
  ZOUGMAN A, SELBY P J, BANKS R E. Proteomics, 2014, 14(9):1006-1010.
38. [38]
  YUAN H M, DAI Z P, ZHANG X D, ZHAO B F, CHU H W, ZHANG L H, ZHANG Y K. Sci. China:Chem., 2021, 64(2):313-321.
39. [39]
  YANG J S, QIAO J, KIM J Y, ZHAO L P, QI L, MOON M H. Anal. Chem., 2018, 90(5):3124-3131.
40. [40]
  LU X, WANG Z K, GAO Y, CHEN W D, WANG L J, HUANG P W, GAO W N, KE M, HE A, TIAN R J. Anal. Chem., 2020, 92(13):8893-8900.
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