Optimization of Porous Silicon Conditions for DNA-based Biosensing via Reflectometric Interference Spectroscopy.
BRCA1 Gene
Biosensor
Nanochip Analytical Device
Journal
Cell journal
ISSN: 2228-5806
Titre abrégé: Cell J
Pays: Iran
ID NLM: 101566618
Informations de publication
Date de publication:
Jan 2019
Jan 2019
Historique:
received:
30
10
2017
accepted:
12
02
2018
entrez:
21
8
2018
pubmed:
21
8
2018
medline:
21
8
2018
Statut:
ppublish
Résumé
Substantial effort has been put into designing DNA-based biosensors, which are commonly used to detect presence of known sequences including the quantification of gene expression. Porous silicon (PSi), as a nanostructured base, has been commonly used in the fabrication of optimally transducing biosensors. Given that the function of any PSi-based biosensor is highly dependent on its nanomorphology, we systematically optimized a PSi biosensor based on reflectometric interference spectroscopy (RIS) detecting the high penetrance breast cancer susceptibility gene, BRCA1. In this experimental study, PSi pore sizes on the PSi surface were controlled for optimum filling with DNA oligonucleotides and surface roughness was optimized for obtaining higher resolution RIS patterns. In addition, the influence of two different organic electrolyte mixtures on the formation and morphology of the pores, based on various current densities and etching times on doped p-type silicon, were examined. Moreover, we introduce two cleaning processes which can efficiently remove the undesirable outer parasitic layer created during PSi formation. Results of all the optimization steps were observed by field emission scanning electron microscopy (FE-SEM). DNA sensing reached its optimum when PSi was formed in a two-step process in the ethanol electrolyte accompanied by removal of the parasitic layer in NaOH solution. These optimal conditions, which result in pore sizes of approximately 20 nm as well as a low surface roughness, provide a considerable RIS shift upon complementary sequence hybridization, suggesting efficient detectability. We demonstrate that the optimal conditions identified here makes PSi an attractive solid-phase DNA-based biosensing method and may be used to not only detect full complementary DNA sequences, but it may also be used for detecting point mutations such as single nucleotide substitutions and indels.
Identifiants
pubmed: 30124007
doi: 10.22074/cellj.2019.5598
pmc: PMC6099142
doi:
Types de publication
Journal Article
Langues
eng
Pagination
584-591Informations de copyright
Copyright© by Royan Institute. All rights reserved.
Déclaration de conflit d'intérêts
There is no conflict of interest in this study.
Références
Science. 1997 Oct 31;278(5339):840-3
pubmed: 9346478
Opt Express. 2011 Jan 17;19(2):1301-9
pubmed: 21263671
Biosens Bioelectron. 2013 Jun 15;44:89-94
pubmed: 23395728
Biosens Bioelectron. 2011 Dec 15;30(1):21-7
pubmed: 21925859
J Am Chem Soc. 2005 Aug 24;127(33):11636-45
pubmed: 16104739
Trends Biotechnol. 2009 Apr;27(4):230-9
pubmed: 19251329
Science. 1994 Oct 7;266(5182):66-71
pubmed: 7545954
Sci Technol Adv Mater. 2012 Sep 24;13(4):045009
pubmed: 27877509
Anal Chem. 2007 Jan 1;79(1):327-34
pubmed: 17194157
Biosens Bioelectron. 2005 Oct 15;21(4):661-5
pubmed: 16202880
Biosens Bioelectron. 2013 Mar 15;41:54-64
pubmed: 23122704
Anal Chem. 2003 Nov 15;75(22):6196-201
pubmed: 14616001
Sensors (Basel). 2008 Oct 23;8(10):6549-6556
pubmed: 27873885
J Colloid Interface Sci. 2015 Aug 15;452:180-189
pubmed: 25942096
Colloids Surf B Biointerfaces. 2014 Mar 1;115:310-6
pubmed: 24388860