Skip to main content
SpringerLink
Log in

In vitro selection of peptide aptamers with affinity to single-wall carbon nanotubes using a ribosome display

  • Original Research Paper
  • Published:
Biotechnology Letters Aims and scope Submit manuscript

Abstract

A ribosome display from a diverse random library was applied for selecting peptide aptamers with high binding affinity to single-wall carbon nanotubes (SWCNTs). The selected peptide aptamer bound to and solubilized SWCNTs more strongly than did the peptide aptamer selected by a phage display method reported previously, and more strongly than other commonly used organic surfactants. The fluorescence spectrum of this aptamer showed a red shift upon interaction with SWCNTs but circular dichroism spectroscopy did not show any significant difference between the presence or absence of SWCNT binding.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3
Fig. 4
Fig. 5

Similar content being viewed by others

References

  • Akasaka T, Watari F (2008) Carbohydrate coating of carbon nanotubes for biological recognition. Fuller Nanotub Carbon Nanostruct 16(2):114–125

    Article  CAS  Google Scholar 

  • Arrais A, Diana E, Pezzini D, Rossetti R, Boccaleri E (2006) A fast effective route to pH-dependent water-dispersion of oxidized single-walled carbon nanotubes. Carbon 44(3):587–590

    Article  CAS  Google Scholar 

  • Chattopadhyay A, Rawat SS, Kelkar DA, Ray S, Chakrabarti A (2003) Organization and dynamics of tryptophan residues in erythroid spectrin: novel structural features of denatured spectrin revealed by the wavelength-selective fluorescence approach. Protein Sci 12(11):2389–2403

    Article  PubMed  CAS  Google Scholar 

  • Deshpande MS, Mazumdar S (2012) Sequence specific association of tryptic peptides with multiwalled carbon nanotubes: effect of localization of hydrophobic residues. Biomacromolecules 13(5):1410–1419

    Article  PubMed  CAS  Google Scholar 

  • Ejima H, Matsumiya K, Yui H, Serizawa T (2011) Dispersion of carbon nanotubes in water by noncovalent wrapping with peptides screened by phage display. Chem Lett 40(8):880–882

    Article  CAS  Google Scholar 

  • Ghosh S, Bachilo SM, Weisman RB (2010) Advanced sorting of single-walled carbon nanotubes by nonlinear density-gradient ultracentrifugation. Nat Nanotechnol 5(6):443–450

    Article  PubMed  CAS  Google Scholar 

  • Gold L (2001) mRNA display: diversity matters during in vitro selection. Proc Natl Acad Sci 98(9):4825–4826

    Article  PubMed  CAS  Google Scholar 

  • Green AA, Hersam MC (2011) Nearly single-chirality single-walled carbon nanotubes produced via orthogonal iterative density gradient ultracentrifugation. Adv Mater 23(19):2185–2190

    Article  PubMed  CAS  Google Scholar 

  • Grigoryan G, Kim YH, Acharya R, Axelrod K, Jain RM, Willis L, Drndic M, Kikkawa JM, DeGrado WF (2011) Computational design of virus-like protein assemblies on carbon nanotube surfaces. Science 332(6033):1071–1076

    Article  PubMed  CAS  Google Scholar 

  • Hanes J, Pluckthun A (1997) In vitro selection and evolution of functional proteins by using ribosome display. Proc Natl Acad Sci 94(10):4937–4942

    Article  PubMed  CAS  Google Scholar 

  • Hara S, Liu M, Wang W, Xu M, Li Z, Ito Y (2011) Stabilized ribosome display for in vitro selection. In: Jackson RH, Douthwaite JA (eds) Methods in Molecular Biology, vol 805. Humana Press, Cambridge, pp 59–73

    Google Scholar 

  • Heller DA, Pratt GW, Zhang JQ, Nair N, Hansborough AJ, Boghossian AA, Reuel NF, Barone PW, Strano MS (2011) Peptide secondary structure modulates single-walled carbon nanotube fluorescence as a chaperone sensor for nitroaromatics. Proc Natl Acad Sci 108(21):8544–8549

    Article  PubMed  CAS  Google Scholar 

  • Hertel T, Hagen A, Talalaev V, Arnold K, Hennrich F, Kappes M, Rosenthal S, McBride J, Ulbricht H, Flahaut E (2005) Spectroscopy of single- and double-wall carbon nanotubes in different environments. Nano Lett 5(3):511–514

    Article  PubMed  CAS  Google Scholar 

  • Islam MF, Rojas E, Bergey DM, Johnson AT, Yodh AG (2003) High weight fraction surfactant solubilization of single-wall carbon nanotubes in water. Nano Lett 3(2):269–273

    Article  CAS  Google Scholar 

  • Karousis N, Tagmatarchis N, Tasis D (2010) Current progress on the chemical modification of carbon nanotubes. Chem Rev 110(9):5366–5397

    Article  PubMed  CAS  Google Scholar 

  • Liu H, Nishide D, Tanaka T, Kataura H (2011) Large-scale single-chirality separation of single-wall carbon nanotubes by simple gel chromatography. Nat Commun 2. doi:10.1038/ncomms1313

    Google Scholar 

  • Nemoto N, MiyamotoSato E, Husimi Y, Yanagawa H (1997) In vitro virus: bonding of mRNA bearing puromycin at the 3′-terminal end to the C-terminal end of its encoded protein on the ribosome in vitro. FEBS Lett 414(2):405–408

    Article  PubMed  CAS  Google Scholar 

  • O’Connell MJ, Boul P, Ericson LM, Huffman C, Wang YH, Haroz E, Kuper C, Tour J, Ausman KD, Smalley RE (2001) Reversible water-solubilization of single-walled carbon nanotubes by polymer wrapping. Chem Phys Lett 342(3–4):265–271

    Article  Google Scholar 

  • Roberts RW, Szostak JW (1997) RNA-peptide fusions for the in vitro selection of peptides and proteins. Proc Natl Acad Sci 94(23):12297–12302

    Article  PubMed  CAS  Google Scholar 

  • Su Z, Mui K, Daub E, Leung T, Honek J (2007) Single-walled carbon nanotube binding peptides: probing tryptophan’s importance by unnatural amino acid substitution. J Phys Chem B 111(51):14411–14417

    Article  PubMed  CAS  Google Scholar 

  • Tomanek D (2008) Advanced topics in the synthesis, structure, properties and applications—Foreword. Top Appl Phys. 111:5–9

    Google Scholar 

  • Wada A, Sawata SY, Ito Y (2008) Ribosome display selection of a metal-binding motif from an artificial peptide library. Biotechnol Bioengin 101(5):1102–1107

    Article  CAS  Google Scholar 

  • Wang SQ, Humphreys ES, Chung SY, Delduco DF, Lustig SR, Wang H, Parker KN, Rizzo NW, Subramoney S, Chiang YM, Jagota A (2003) Peptides with selective affinity for carbon nanotubes. Nat Mater 2(3):196–200

    Article  PubMed  Google Scholar 

  • Wang W, Hara S, Liu MZ, Aigaki T, Shimizu S, Ito Y (2011) Polypeptide aptamer selection using a stabilized ribosome display. J Biosci Bioengin 112(5):515–517

    Article  CAS  Google Scholar 

  • Weisman RB, Bachilo SM (2003) Dependence of optical transition energies on structure for single-walled carbon nanotubes in aqueous suspension: an empirical Kataura plot. Nano Lett 3(9):1235–1238

    Article  CAS  Google Scholar 

  • Yang JT, Wu CSC, Martinez HM (1986) Calculation of protein conformation from circular-dichroism. Method enzymol 130:208–269

    Article  CAS  Google Scholar 

  • Yu T, Gong YX, Lu TT, Wei L, Li YQ, Mu YG, Chen Y, Liao K (2012) Recognition of carbon nanotube chirality by phage display. RSC Adv 2(4):1466–1476

    Article  CAS  Google Scholar 

  • Zheng M, Jagota A, Semke ED, Diner BA, Mclean RS, Lustig SR, Richardson RE, Tassi NG (2003) DNA-assisted dispersion and separation of carbon nanotubes. Nat Mater 2(5):338–342

    Article  PubMed  CAS  Google Scholar 

  • Zheng LF, Jain D, Burke P (2009) Nanotube-peptide interactions on a silicon chip. J Phys Chem C 113(10):3978–3985

    Article  CAS  Google Scholar 

  • Zorbas V, Smith AL, Xie H, Ortiz-Acevedo A, Dalton AB, Dieckmann GR, Draper RK, Baughman RH, Musselman IH (2005) Importance of aromatic content for peptide/single-walled carbon nanotube interactions. J Am Chem Soc 127(35):12323–12328

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Nano Medical Engineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama, 351-0198, Japan

    Zha Li, Takanori Uzawa & Yoshihiro Ito

  2. Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama-shi, Kanagawa, 226-8501, Japan

    Zha Li & Eiry Kobatake

  3. Nanosystem Research Institute (NRI), National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba-shi, Ibaraki, 305-8562, Japan

    Takashi Tanaka & Hiromichi Katakura

  4. Advanced Device Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama, 351-0198, Japan

    Akira Hida & Koji Ishibashi

Authors
  1. Zha Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Takanori Uzawa
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Takashi Tanaka
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Akira Hida
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Koji Ishibashi
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Hiromichi Katakura
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Eiry Kobatake
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Yoshihiro Ito
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Yoshihiro Ito.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOCX 13 kb)

Rights and permissions

Reprints and permissions

About this article

Cite this article

Li, Z., Uzawa, T., Tanaka, T. et al. In vitro selection of peptide aptamers with affinity to single-wall carbon nanotubes using a ribosome display. Biotechnol Lett 35, 39–45 (2013). https://doi.org/10.1007/s10529-012-1049-6

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10529-012-1049-6

Keywords

Search

Navigation