Non-protein Coding RNA Sequences Mediate Specific Colorimetric Detection of Staphylococcus Aureus on Unmodified Gold Nanoparticles

Overview

Journal Sci Rep

Specialty Science

Date 2022 Jul 23

PMID 35871246

Authors

Subash C B Gopinath

Santheraleka Ramanathan

Suresh V Chinni

Vicneswarry Dorairaj

Thangavel Lakshmipriya

Affiliations

Soon will be listed here.

Abstract

Nonprotein coding RNA (npcRNA) is a transcribed gene sequence that is not able to translate into protein, yet it executes a specific function in modulation and regulation mechanisms. As npcRNA is highly resistant to the mutation, the Sau-02 npcRNA gene and its probe oligonucleotide, which are specifically present in Staphylococcus aureus and in methicillin-resistant S. aureus only, used to develop a highly specific and sensitive colorimetric assay on unmodified gold nanoparticles (AuNPs). Hybridization between the npcRNA Sau-02 gene sequences was detected through noncrosslinking AuNP aggregation in salt solution in the presence of probe-target gene sequences. AuNPs of 10 and 15 nm in sizes with monovalent ion salt (NaCl) solution were optimized as the ideal tool for investigating the stability of AuNPs upon the addition of gene sequences. The state dispersed and aggregated forms of 10 nm AuNPs with the presented colorimetric assay were justified through field emission scanning electron microscopy and atomic force microscopy. The particle distribution of two different AuNP states was evaluated through particle distribution analysis. The lowest detection amount of S. aureus npcRNA from the colorimetric assay performed was 6 pg/µL, as the color of AuNPs turned blue with the presence of probe oligonucleotides and target gene sequences.

References

Lou T, Chen Z, Wang Y, Chen L . Blue-to-red colorimetric sensing strategy for Hg²⁺ and Ag⁺ via redox-regulated surface chemistry of gold nanoparticles. ACS Appl Mater Interfaces. 2011; 3(5):1568-73. DOI: 10.1021/am200130e. View

Li X, Wu Z, Zhou X, Hu J . Colorimetric response of peptide modified gold nanoparticles: An original assay for ultrasensitive silver detection. Biosens Bioelectron. 2016; 92:496-501. DOI: 10.1016/j.bios.2016.10.075. View

Rafati A, Zarrabi A, Abediankenari S, Aarabi M, Gill P . Sensitive colorimetric assay using insulin G-quadruplex aptamer arrays on DNA nanotubes coupled with magnetic nanoparticles. R Soc Open Sci. 2018; 5(3):171835. PMC: 5882713. DOI: 10.1098/rsos.171835. View

Song K, Jeong E, Jeon W, Cho M, Ban C . Aptasensor for ampicillin using gold nanoparticle based dual fluorescence-colorimetric methods. Anal Bioanal Chem. 2012; 402(6):2153-61. DOI: 10.1007/s00216-011-5662-3. View

Li H, Rothberg L . Colorimetric detection of DNA sequences based on electrostatic interactions with unmodified gold nanoparticles. Proc Natl Acad Sci U S A. 2004; 101(39):14036-9. PMC: 521116. DOI: 10.1073/pnas.0406115101. View

Gopinath S, Wadhwa R, Kumar P . Expression of noncoding vault RNA in human malignant cells and its importance in mitoxantrone resistance. Mol Cancer Res. 2010; 8(11):1536-46. DOI: 10.1158/1541-7786.MCR-10-0242. View

Ramanathan S, Gopinath S, Ismail Z, Md Arshad M, Poopalan P . Aptasensing nucleocapsid protein on nanodiamond assembled gold interdigitated electrodes for impedimetric SARS-CoV-2 infectious disease assessment. Biosens Bioelectron. 2021; 197:113735. PMC: 8550887. DOI: 10.1016/j.bios.2021.113735. View

Musa H, Kasim F, Gunny A, Gopinath S, Chinni S, Ahmad M . Whole genome sequence of moderate halophilic marine bacterium Marinobacter litoralis SW-45: Abundance of non-coding RNAs. Int J Biol Macromol. 2019; 133:1288-1298. DOI: 10.1016/j.ijbiomac.2019.05.003. View

Kong C, Gao L, Chen Z . Colorimetric adenosine aptasensor based on DNA cycling amplification and salt-induced aggregation of gold nanoparticles. Mikrochim Acta. 2018; 185(10):488. DOI: 10.1007/s00604-018-3031-z. View

10.

Liu P, Han L, Wang F, Petrenko V, Liu A . Gold nanoprobe functionalized with specific fusion protein selection from phage display and its application in rapid, selective and sensitive colorimetric biosensing of Staphylococcus aureus. Biosens Bioelectron. 2016; 82:195-203. DOI: 10.1016/j.bios.2016.03.075. View

11.

Xu T, Song Y, Gao W, Wu T, Xu L, Zhang X . Superwettable Electrochemical Biosensor toward Detection of Cancer Biomarkers. ACS Sens. 2018; 3(1):72-78. DOI: 10.1021/acssensors.7b00868. View

12.

Ramanathan S, Gopinath S, Ismail Z, Subramaniam S . Nanodiamond conjugated SARS-CoV-2 spike protein: electrochemical impedance immunosensing on a gold microelectrode. Mikrochim Acta. 2022; 189(6):226. PMC: 9119799. DOI: 10.1007/s00604-022-05320-7. View

13.

Zhang H, Peng L, Li M, Ma J, Qi S, Chen H . A label-free colorimetric biosensor for sensitive detection of vascular endothelial growth factor-165. Analyst. 2017; 142(13):2419-2425. DOI: 10.1039/c7an00541e. View

14.

Chen W, Fang X, Ye X, Wang X, Kong J . Colorimetric DNA assay by exploiting the DNA-controlled peroxidase mimicking activity of mesoporous silica loaded with platinum nanoparticles. Mikrochim Acta. 2018; 185(12):544. DOI: 10.1007/s00604-018-3026-9. View

15.

Liu P, Han L, Wang F, Li X, Petrenko V, Liu A . Sensitive colorimetric immunoassay of Vibrio parahaemolyticus based on specific nonapeptide probe screening from a phage display library conjugated with MnO nanosheets with peroxidase-like activity. Nanoscale. 2018; 10(6):2825-2833. DOI: 10.1039/c7nr06633c. View

16.

Liu P, Wang Y, Han L, Cai Y, Ren H, Ma T . Colorimetric Assay of Bacterial Pathogens Based on CoO Magnetic Nanozymes Conjugated with Specific Fusion Phage Proteins and Magnetophoretic Chromatography. ACS Appl Mater Interfaces. 2020; 12(8):9090-9097. DOI: 10.1021/acsami.9b23101. View

17.

Lu B, Liu L, Wang J, Chen Y, Li Z, Gopinath S . Detection of microRNA-335-5p on an Interdigitated Electrode Surface for Determination of the Severity of Abdominal Aortic Aneurysms. Nanoscale Res Lett. 2020; 15(1):105. PMC: 7214562. DOI: 10.1186/s11671-020-03331-y. View

18.

Akbari Hasanjani H, Zarei K . An electrochemical sensor for attomolar determination of mercury(II) using DNA/poly-L-methionine-gold nanoparticles/pencil graphite electrode. Biosens Bioelectron. 2019; 128:1-8. DOI: 10.1016/j.bios.2018.12.039. View

19.

Song Y, Xu T, Xu L, Zhang X . Nanodendritic gold/graphene-based biosensor for tri-mode miRNA sensing. Chem Commun (Camb). 2019; 55(12):1742-1745. DOI: 10.1039/c8cc09586h. View

20.

Ramanathan S, Gopinath S, Md Arshad M, Poopalan P, Anbu P . A DNA based visual and colorimetric aggregation assay for the early growth factor receptor (EGFR) mutation by using unmodified gold nanoparticles. Mikrochim Acta. 2019; 186(8):546. DOI: 10.1007/s00604-019-3696-y. View