Open Access
Journal of Genetic Engineering and Biotechnology, volume 20, issue 1, publication number 95
A sequential toggle cell-SELEX DNA aptamer for targeting Staphylococcus aureus, Streptococcus agalactiae, and Escherichia coli bacteria
Arizah Kusumawati
1, 2
,
Apon Zaenal Mustopa
2
,
I Wayan Teguh Wibawan
3, 4
,
Agus Setiyono
5
,
Mirnawati Bachrum Sudarwanto
3
1
Publication type: Journal Article
Publication date: 2022-07-01
Quartile SCImago
Q2
Quartile WOS
—
Impact factor: 3.3
ISSN: 1687157X, 20905920
Genetics
Biotechnology
Abstract
Mastitis is an inflammation of the mammary glands caused by a microbial infection. The common bacteria causing this infection in dairy farms are Staphylococcus aureus, Streptococcus agalactiae, and Escherichia coli. The aptamer is a new biosensor platform for detecting pathogens; however, its use for simultaneous detection of S. aureus, S. agalactiae, and E. coli bacteria has not been reported. This study’s objective is to isolate and characterize polyclonal DNA aptamer with broad reactivity to the mastitis bacteria S. aureus, S. agalactiae, and E. coli using a sequential toggle cell-SELEX. The DNA aptamer pool from SELEX 15 was inserted into the pGEM-T easy plasmid. Furthermore, the transformant clones were selected by PCR colony, plasmid isolation, and sequencing. Six DNA aptamers, consisting of S15K3, S15K4, S15K6, S15K13, S15K15, and S15K20 with a constant region and the right size of 81 bp were derived from the sequencing analysis. The secondary structure of the DNA was predicted using Mfold software. The DNA was analyzed with binding characteristics, including binding capacity and affinity (Kd), using qPCR. The results indicated aptamer S15K15 has the highest binding ability into S. agalactiae, while S15K13 performed binding capacity most to E. coli EPEC 4, and S15K3 has the highest capacity of binding to S. aureus BPA-12. Aptamer S15K3 has the best binding characteristics on all three bacterial targets.
Top-30
Citations by journals
|
1
2
|
|
|
International Journal of Molecular Sciences
2 publications, 28.57%
|
|
|
Molecular Biology Reports
1 publication, 14.29%
|
|
|
Talanta
1 publication, 14.29%
|
|
|
Microchimica Acta
1 publication, 14.29%
|
|
|
Russian Chemical Reviews
1 publication, 14.29%
|
|
|
Letters in Drug Design and Discovery
1 publication, 14.29%
|
|
|
1
2
|
Citations by publishers
|
1
2
|
|
|
Springer Nature
2 publications, 28.57%
|
|
|
Multidisciplinary Digital Publishing Institute (MDPI)
2 publications, 28.57%
|
|
|
Elsevier
1 publication, 14.29%
|
|
|
Autonomous Non-profit Organization Editorial Board of the journal Uspekhi Khimii
1 publication, 14.29%
|
|
|
Bentham Science
1 publication, 14.29%
|
|
|
1
2
|
- We do not take into account publications without a DOI.
- Statistics recalculated only for publications connected to researchers, organizations and labs registered on the platform.
- Statistics recalculated weekly.
{"yearsCitations":{"type":"bar","data":{"show":true,"labels":[2022,2023,2024],"ids":[0,0,0],"codes":[0,0,0],"imageUrls":["","",""],"datasets":[{"label":"Citations number","data":[1,1,5],"backgroundColor":["#3B82F6","#3B82F6","#3B82F6"],"percentage":["14.29","14.29","71.43"],"barThickness":null}]},"options":{"indexAxis":"x","maintainAspectRatio":true,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":false},"x":{"ticks":{"stepSize":1,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":false}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Citations per year","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}},"journals":{"type":"bar","data":{"show":true,"labels":["International Journal of Molecular Sciences","Molecular Biology Reports","Talanta","Microchimica Acta","Russian Chemical Reviews","Letters in Drug Design and Discovery"],"ids":[14627,2791,4331,11314,23802,7124],"codes":[0,0,0,0,0,0],"imageUrls":["\/storage\/images\/resized\/MjH1ITP7lMYGxeqUZfkt2BnVLgjkk413jwBV97XX_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/9Mus3KG1Tkd7Bwaurt8H3RwWh0CxRlGoO6ng9UK1_medium.webp","\/storage\/images\/resized\/doUaFUZdxUEQjLi1TwZjGHi8HXYNWWSk04dSC6Xh_medium.webp"],"datasets":[{"label":"","data":[2,1,1,1,1,1],"backgroundColor":["#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6"],"percentage":[28.57,14.29,14.29,14.29,14.29,14.29],"barThickness":13}]},"options":{"indexAxis":"y","maintainAspectRatio":false,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":false},"x":{"ticks":{"stepSize":null,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":false}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Journals","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}},"publishers":{"type":"bar","data":{"show":true,"labels":["Springer Nature","Multidisciplinary Digital Publishing Institute (MDPI)","Elsevier","Autonomous Non-profit Organization Editorial Board of the journal Uspekhi Khimii","Bentham Science"],"ids":[8,202,17,9422,39],"codes":[0,0,0,0,0],"imageUrls":["\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/MjH1ITP7lMYGxeqUZfkt2BnVLgjkk413jwBV97XX_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/9Mus3KG1Tkd7Bwaurt8H3RwWh0CxRlGoO6ng9UK1_medium.webp","\/storage\/images\/resized\/doUaFUZdxUEQjLi1TwZjGHi8HXYNWWSk04dSC6Xh_medium.webp"],"datasets":[{"label":"","data":[2,2,1,1,1],"backgroundColor":["#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6"],"percentage":[28.57,28.57,14.29,14.29,14.29],"barThickness":13}]},"options":{"indexAxis":"y","maintainAspectRatio":false,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":false},"x":{"ticks":{"stepSize":null,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":false}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Publishers","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}},"yearsCitationsQuartiles":{"type":"bar","data":{"show":true,"labels":[2022,2023,2024],"ids":[],"codes":[],"imageUrls":[],"datasets":[{"label":"Q4","backgroundColor":"rgb(221,90,78)","data":[0,0,0],"percentage":["0","0","0"]},{"label":"Q3","backgroundColor":"rgb(251, 163,83)","data":[0,0,1],"percentage":["0","0","14.29"]},{"label":"Q2","backgroundColor":"rgb(232, 213, 89)","data":[1,0,0],"percentage":["14.29","0","0"]},{"label":"Q1","backgroundColor":"rgb(164, 207, 99)","data":[0,1,4],"percentage":["0","14.29","57.14"]},{"label":"Quartile not defined","backgroundColor":"#E5E7EB","data":[0,0,0],"percentage":["0","0","0"]}]},"options":{"indexAxis":"x","maintainAspectRatio":true,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":true},"x":{"ticks":{"stepSize":1,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":true}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Citations quartiles by SCImago per year","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}},"yearsCitationsQuartilesWs":{"type":"bar","data":{"show":true,"labels":[2022,2023,2024],"ids":[],"codes":[],"imageUrls":[],"datasets":[{"label":"Q4","backgroundColor":"rgb(221,90,78)","data":[0,0,1],"percentage":["0","0","14.29"]},{"label":"Q3","backgroundColor":"rgb(251, 163,83)","data":[1,0,0],"percentage":["14.29","0","0"]},{"label":"Q2","backgroundColor":"rgb(232, 213, 89)","data":[0,0,0],"percentage":["0","0","0"]},{"label":"Q1","backgroundColor":"rgb(164, 207, 99)","data":[0,1,4],"percentage":["0","14.29","57.14"]},{"label":"Quartile not defined","backgroundColor":"#E5E7EB","data":[0,0,0],"percentage":["0","0","0"]}]},"options":{"indexAxis":"x","maintainAspectRatio":true,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":true},"x":{"ticks":{"stepSize":1,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"},"stacked":true}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Citations quartiles by WoS per year","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}}}
Are you a researcher?
Create a profile to get free access to personal recommendations for colleagues and new articles.
Metrics
Cite this
GOST |
RIS |
BibTex
Cite this
GOST
Copy
Kusumawati A. et al. A sequential toggle cell-SELEX DNA aptamer for targeting Staphylococcus aureus, Streptococcus agalactiae, and Escherichia coli bacteria // Journal of Genetic Engineering and Biotechnology. 2022. Vol. 20. No. 1. 95
GOST all authors (up to 50)
Copy
Kusumawati A., Mustopa A. Z., Wibawan I. W. T., Setiyono A., Sudarwanto M. B. A sequential toggle cell-SELEX DNA aptamer for targeting Staphylococcus aureus, Streptococcus agalactiae, and Escherichia coli bacteria // Journal of Genetic Engineering and Biotechnology. 2022. Vol. 20. No. 1. 95
Cite this
RIS
Copy
TY - JOUR
DO - 10.1186/s43141-022-00374-9
UR - https://doi.org/10.1186/s43141-022-00374-9
TI - A sequential toggle cell-SELEX DNA aptamer for targeting Staphylococcus aureus, Streptococcus agalactiae, and Escherichia coli bacteria
T2 - Journal of Genetic Engineering and Biotechnology
AU - Kusumawati, Arizah
AU - Mustopa, Apon Zaenal
AU - Wibawan, I Wayan Teguh
AU - Setiyono, Agus
AU - Sudarwanto, Mirnawati Bachrum
PY - 2022
DA - 2022/07/01 00:00:00
PB - Springer Nature
IS - 1
VL - 20
SN - 1687-157X
SN - 2090-5920
ER -
Cite this
BibTex
Copy
@article{2022_Kusumawati,
author = {Arizah Kusumawati and Apon Zaenal Mustopa and I Wayan Teguh Wibawan and Agus Setiyono and Mirnawati Bachrum Sudarwanto},
title = {A sequential toggle cell-SELEX DNA aptamer for targeting Staphylococcus aureus, Streptococcus agalactiae, and Escherichia coli bacteria},
journal = {Journal of Genetic Engineering and Biotechnology},
year = {2022},
volume = {20},
publisher = {Springer Nature},
month = {jul},
url = {https://doi.org/10.1186/s43141-022-00374-9},
number = {1},
doi = {10.1186/s43141-022-00374-9}
}