16S rRNA
DNA primers
computational biology
genes
high-throughput nucleotide sequencing
microbiota
mouth
Journal
Frontiers in cellular and infection microbiology
ISSN: 2235-2988
Titre abrégé: Front Cell Infect Microbiol
Pays: Switzerland
ID NLM: 101585359
Informations de publication
Date de publication:
2021
2021
Historique:
received:
04
09
2021
accepted:
31
12
2021
entrez:
28
2
2022
pubmed:
1
3
2022
medline:
6
4
2022
Statut:
epublish
Résumé
Although clustering by operational taxonomic units (OTUs) is widely used in the oral microbial literature, no research has specifically evaluated the extent of the limitations of this sequence clustering-based method in the oral microbiome. Consequently, our objectives were to: 1) evaluate
Identifiants
pubmed: 35223533
doi: 10.3389/fcimb.2021.770668
pmc: PMC8863748
doi:
Substances chimiques
RNA, Ribosomal, 16S
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
770668Informations de copyright
Copyright © 2022 Regueira-Iglesias, Vázquez-González, Balsa-Castro, Blanco-Pintos, Martín-Biedma, Arce, Carreira and Tomás.
Déclaration de conflit d'intérêts
The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Références
Database (Oxford). 2020 Jan 1;2020:
pubmed: 32761142
Appl Environ Microbiol. 2009 Dec;75(23):7537-41
pubmed: 19801464
Nucleic Acids Res. 2016 Jan 4;44(D1):D7-19
pubmed: 26615191
Front Microbiol. 2021 Mar 24;12:644012
pubmed: 33841367
Bioinformatics. 2010 Oct 1;26(19):2460-1
pubmed: 20709691
Methods Mol Biol. 2018;1706:77-90
pubmed: 29423794
Nucleic Acids Res. 2014 Jan;42(Database issue):D633-42
pubmed: 24288368
mSphere. 2021 Aug 25;6(4):e0019121
pubmed: 34287003
mSphere. 2017 Mar 8;2(2):
pubmed: 28289728
Nucleic Acids Res. 2016 Jan 4;44(D1):D67-72
pubmed: 26590407
J Microbiol Methods. 2003 Dec;55(3):541-55
pubmed: 14607398
ISME J. 2015 Mar 17;9(4):968-79
pubmed: 25325381
mSystems. 2017 Mar 7;2(2):
pubmed: 28289731
Front Cell Infect Microbiol. 2021 Mar 22;11:629723
pubmed: 33828997
Microbiol Spectr. 2018 Oct;6(5):
pubmed: 30338752
Genes (Basel). 2021 Apr 13;12(4):
pubmed: 33924545
Sci Rep. 2017 Jun 16;7(1):3703
pubmed: 28623321
PLoS One. 2013;8(2):e57923
pubmed: 23460914
Bioinformatics. 2009 Jun 1;25(11):1422-3
pubmed: 19304878
Microbiome. 2015 May 20;3:20
pubmed: 25995836
J Clin Periodontol. 1998 Feb;25(2):134-44
pubmed: 9495612
PLoS One. 2020 Jan 16;15(1):e0227434
pubmed: 31945086
Microorganisms. 2019 Sep 05;7(9):
pubmed: 31491909
Nat Methods. 2016 Jul;13(7):581-3
pubmed: 27214047
mSystems. 2019 Feb 19;4(1):
pubmed: 30801029
Periodontol 2000. 2013 Jun;62(1):95-162
pubmed: 23574465
J Dent Res. 2016 Oct;95(11):1308-13
pubmed: 27193146
Nat Methods. 2013 Oct;10(10):996-8
pubmed: 23955772
ISME J. 2017 Dec;11(12):2639-2643
pubmed: 28731476
Appl Environ Microbiol. 2006 Jul;72(7):5069-72
pubmed: 16820507
Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4516-22
pubmed: 20534432
Nucleic Acids Res. 2013 Jan;41(Database issue):D590-6
pubmed: 23193283
Genome Res. 2010 Sep;20(9):1165-73
pubmed: 20508146
mSystems. 2018 Dec 4;3(6):
pubmed: 30534599
Int J Mol Sci. 2016 Nov 25;17(12):
pubmed: 27898021
PeerJ. 2015 Dec 08;3:e1487
pubmed: 26664811
Hum Genet. 2019 Dec;138(11-12):1201-1215
pubmed: 31538236
Microbiol Spectr. 2019 Jan;7(1):
pubmed: 30657107
J Clin Med. 2020 May 20;9(5):
pubmed: 32443919
Periodontol 2000. 2021 Feb;85(1):210-236
pubmed: 33226702
Int J Syst Evol Microbiol. 2004 Jul;54(Pt 4):1117-1122
pubmed: 15280279
Biomed Pharmacother. 2018 Mar;99:883-893
pubmed: 29710488
Microbiome. 2020 May 15;8(1):65
pubmed: 32414415
mSphere. 2021 Feb 24;6(1):
pubmed: 33627512
PeerJ. 2018 Aug 8;6:e5364
pubmed: 30123705
J Oral Microbiol. 2014 Nov 19;6:25874
pubmed: 25412608
Nucleic Acids Res. 2016 Jan 4;44(D1):D733-45
pubmed: 26553804
BMC Bioinformatics. 2009 Dec 15;10:421
pubmed: 20003500
J Mol Biol. 1990 Oct 5;215(3):403-10
pubmed: 2231712
Virulence. 2015;6(3):188-95
pubmed: 25494963
PeerJ. 2018 Jun 12;6:e5030
pubmed: 29910992
Nat Biotechnol. 2019 Aug;37(8):852-857
pubmed: 31341288
Nucleic Acids Res. 2015 Sep 18;43(16):7762-8
pubmed: 26250111
Curr Microbiol. 2015 Feb;70(2):169-75
pubmed: 25257648