References
- Baker JL, Mark Welch JL, Kauffman KM, McLean JS, He X. 2024. The oral microbiome: diversity, biogeography and human health. Nat Rev Microbiol. 22(2):89–104. https://doi.org/10.1038/s41579-023-00963-6
- Bolger AM, Lohse M, Usadel B. 2014. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 30(15):2114–2120. https://doi.org/10.1093/bioinformatics/btu170
- Buetas E, Jordán-López M, López-Roldán A, D’Auria G, Martínez-Priego L, De Marco G, Carda-Diéguez M, Mira A. 2024. Full-length 16S rRNA gene sequencing by PacBio improves taxonomic resolution in human microbiome samples. BMC Genomics. 25:310. https://doi.org/10.1186/s12864-024-10213-5
- Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI. 2010. QIIME allows analysis of high-throughput community sequencing data. Nat Methods. 7(5):335–336. https://doi.org/10.1038/nmeth.f.303
- Çetinkaya H, Romaniuk P. 2020. Relationship between consumption of soft and alcoholic drinks and oral health problems. Cent Eur J Public Health. 28(2):94–102. https://doi.org/10.21101/cejph.a5745
- Chan AS, Tran TTK, Hsu YH, Liu SYS, Kroon J. 2020. A systematic review of dietary acids and habits on dental erosion in adolescents. Int J Paediatr Dent. 30(6):713–733. https://doi.org/10.1111/ipd.12643
- Damle SG, Bector A, Saini S. 2011. The effect of consumption of carbonated beverages on the oral health of children: a study in real life situation. J Indian Soc Pedod Prev Dent. 29(1):35–40. https://doi.org/10.4103/0970-4388.79928
- Dassi E, Ferretti P, Covello G, Bertorelli R, Denti MA, De Sanctis V, Tett A, Segata N. 2018. The short-term impact of probiotic consumption on the oral cavity microbiome. Sci Rep. 8:10476. https://doi.org/10.1038/s41598-018-28491-x
- de Lima Almenara OCP, Rebouças AG, Cavalli AM, Durlacher MM, Oliveira MG, Flório FM, Zanin L. 2016. Influence of soft drink intake on the salivary pH of schoolchildren. Pesqui Bras Odontopediatria Clin Integr. 16(1):455–463. https://doi.org/10.4034/PBO-CI.2016.161.47
- Ehlen LA, Marshall TA, Qian F, Wefel JS, Warren JJ. 2008. Acidic beverages increase the risk of in vitro tooth erosion. Nutr Res. 28(5):299–303. https://doi.org/10.1016/j.nutres.2008.03.001
- Fan X, Monson KR, Peters BA, Whittington JM, Um CY, Oberstein PE, McCullough ML, Freedman ND, Huang WY, Ahn J. 2024. Altered salivary microbiota associated with high-sugar beverage consumption. Sci Rep. 14:13386. https://doi.org/10.1038/s41598-024-64324-w
- Fan X, Peters BA, Jacobs EJ, Gapstur SM, Purdue MP, Freedman ND, Alekseyenko AV, Wu J, Yang L, Pei Z. 2018. Drinking alcohol is associated with variation in the human oral microbiome in a large study of American adults. Microbiome. 6:59. https://doi.org/10.1186/s40168-018-0448-x
- Forssten SD, Björklund M, Ouwehand AC. 2010. Streptococcus mutans, caries and simulation models. Nutrients. 2(3):290–298. https://doi.org/10.3390/nu2030290
- Inchingolo AM, Malcangi G, Ferrante L, Del Vecchio G, Viapiano F, Mancini A, Inchingolo F, Inchingolo AD, Di Venere D, Dipalma G. 2023. Damage from carbonated soft drinks on enamel: a systematic review. Nutrients. 15(7):1785. https://doi.org/10.3390/nu15071785
- Lin Y, Chen J, Zhou X, Li Y. 2021. Inhibition of Streptococcus mutans biofilm formation by strategies targeting the metabolism of exopolysaccharides. Crit Rev Microbiol. 47(6):667–677. https://doi.org/10.1080/1040841X.2021.1915959
- Oishi T, Muratani T, Tanaka T, Sato M, Urara K, Ouchi K, Iwata S, Matsumoto T, Nakahama C. 2021. Study of normal flora in the pharynx of healthy children. Jpn J Infect Dis. 74(5):450–457. https://doi.org/10.7883/yoken.JJID.2020.824
- Osman NN, Abdulkhalik HA. 2025. Relationship between soft drink consumption and salivary pH. J Dent. 13: (in press).
- Pathak JL, Yan Y, Zhang Q, Wang L, Ge L. 2021. The role of oral microbiome in respiratory health and diseases. Respir Med. 185:106475. https://doi.org/10.1016/j.rmed.2021.106475
- Peters BA, McCullough ML, Purdue MP, Freedman ND, Um CY, Gapstur SM, Hayes RB, Ahn J. 2018. Association of coffee and tea intake with the oral microbiome: results from a large cross-sectional study. Cancer Epidemiol Biomarkers Prev. 27(7):814–821. https://doi.org/10.1158/1055-9965.EPI-18-0184
- Reyon D, Tsai SQ, Khayter C, Foden JA, Sander JD, Joung JK. 2012. FLASH assembly of TALENs for high-throughput genome editing. Nat Biotechnol. 30(5):460–465. https://doi.org/10.1038/nbt.2170
- Rognes T, Flouri T, Nichols B, Quince C, Mahé F. 2016. VSEARCH: a versatile open source tool for metagenomics. PeerJ. 4:e2584. https://doi.org/10.7717/peerj.2584
- Rouzi M, Zhang X, Jiang Q, Long H, Lai W, Li X. 2023. Impact of clear aligners on oral health and oral microbiome during orthodontic treatment. Int Dent J. 73(5):603–611. https://doi.org/10.1016/j.identj.2023.03.012
- Strużycka I. 2014. The oral microbiome in dental caries. Pol J Microbiol. 63(2):127–135. https://doi.org/10.33073/pjm-2014-018
- Tang G, Yip HK, Samaranayake LP, Luo G, Lo EC, Teo CS. 2003. Actinomyces spp. in supragingival plaque of ethnic Chinese preschool children with and without active dental caries. Caries Res. 37(5):381–390. https://doi.org/10.1159/000072172
- Wang Q, Garrity GM, Tiedje JM, Cole JR. 2007. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol. 73(16):5261–5267. https://doi.org/10.1128/AEM.00062-07
- Williamson KM, Wagner BD, Robertson CE, Stevens MJ, Sontag MK, Mourani PM, Harris JK. 2021. Modified PCR protocol to increase sensitivity for determination of bacterial community composition. Microbiome. 9:90. https://doi.org/10.1186/s40168-020-00958-y
- Yan D, Liu Y, Che X, Mi S, Jiao Y, Guo L, Li S. 2021. Changes in the microbiome of the inner surface of clear aligners after different usage periods. Curr Microbiol. 78(2):566–575. https://doi.org/10.1007/s00284-020-02308-5
- Zimmer S, Kirchner G, Bizhang M, Benedix M. 2015. Influence of various acidic beverages on tooth erosion: evaluation by a new method. PLoS One. 10(6):e0129462. https://doi.org/10.1371/journal.pone.0129462