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For: F. Escapa I, Huang Y, Chen T, Lin M, Kokaras A, Dewhirst FE, Lemon KP. Construction of habitat-specific training sets to achieve species-level assignment in 16S rRNA gene datasets. Microbiome 2020;8:65. [PMID: 32414415 PMCID: PMC7291764 DOI: 10.1186/s40168-020-00841-w] [Citation(s) in RCA: 49] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2020] [Accepted: 04/15/2020] [Indexed: 05/10/2023]
Number Cited by Other Article(s)
1
Eitel E, Utter D, Connon S, Orphan V, Murali R. CABO-16S-a Combined Archaea, Bacteria, Organelle 16S rRNA database framework for amplicon analysis of prokaryotes and eukaryotes in environmental samples. NAR Genom Bioinform 2025;7:lqaf061. [PMID: 40391087 PMCID: PMC12086536 DOI: 10.1093/nargab/lqaf061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2024] [Revised: 04/22/2025] [Accepted: 05/11/2025] [Indexed: 05/21/2025]  Open
2
Zhang Y, Ji Y, Liu F, Wang Y, Feng C, Zhou Z, Zhang Z, Han L, Li J, Wang M, Li L. Pseudomonas sp. Strain ADAl3-4 Enhances Aluminum Tolerance in Alfalfa (Medicago sativa). Int J Mol Sci 2025;26:4919. [PMID: 40430057 PMCID: PMC12111897 DOI: 10.3390/ijms26104919] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2025] [Revised: 05/18/2025] [Accepted: 05/19/2025] [Indexed: 05/29/2025]  Open
3
von Ameln Lovison O, Zempulski Volpato FC, Weber LG, Barth AL, Simon Coitinho A, Martins AF. Unveiling the role of the upper respiratory tract microbiome in susceptibility and severity to COVID-19. Front Cell Infect Microbiol 2025;15:1531084. [PMID: 40433668 PMCID: PMC12106449 DOI: 10.3389/fcimb.2025.1531084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2024] [Accepted: 04/21/2025] [Indexed: 05/29/2025]  Open
4
Vázquez-González L, Regueira-Iglesias A, Balsa-Castro C, Tomás I, Carreira MJ. A curated bacterial and archaeal 16S rRNA Gene Oral Sequences dataset. Sci Data 2025;12:729. [PMID: 40316599 PMCID: PMC12048654 DOI: 10.1038/s41597-025-05050-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2024] [Accepted: 04/23/2025] [Indexed: 05/04/2025]  Open
5
Yuan J, Sun B, Li M, Yang C, Zhang L, Chen N, Chen F, Li L. OSaMPle workflow for salivary metaproteomics analysis reveals dysbiosis in inflammatory bowel disease patients. NPJ Biofilms Microbiomes 2025;11:63. [PMID: 40268913 PMCID: PMC12018957 DOI: 10.1038/s41522-025-00692-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2024] [Accepted: 04/03/2025] [Indexed: 04/25/2025]  Open
6
Wang M, Yuan T, Chen J, Yang J, Pu J, Lin W, Dong K, Zhang L, Yuan J, Zheng H, Sun Y, Xu J. A species-level identification pipeline for human gut microbiota based on the V3-V4 regions of 16S rRNA. Front Microbiol 2025;16:1553124. [PMID: 40226098 PMCID: PMC11985812 DOI: 10.3389/fmicb.2025.1553124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2024] [Accepted: 03/13/2025] [Indexed: 04/15/2025]  Open
7
Dash M, Thiyageshwari S, Selvi D, Johnson HKV, Ariyan M, Rajan K, Anandham R. Unveiling microbial diversity in slightly and moderately magnesium deficient acidic soils. Sci Rep 2025;15:3696. [PMID: 39881163 PMCID: PMC11779885 DOI: 10.1038/s41598-025-87943-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2024] [Accepted: 01/23/2025] [Indexed: 01/31/2025]  Open
8
Escobar Marcillo DI, Privitera GF, Rollo F, Latini A, Giuliani E, Benevolo M, Giuliani M, Pichi B, Pellini R, Donà MG. Microbiome analysis in individuals with human papillomavirus oral infection. Sci Rep 2025;15:2953. [PMID: 39848958 PMCID: PMC11757712 DOI: 10.1038/s41598-024-81607-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 11/27/2024] [Indexed: 01/25/2025]  Open
9
Esberg A, Fries N, Haworth S, Johansson I. Saliva microbiome profiling by full-gene 16S rRNA Oxford Nanopore Technology versus Illumina MiSeq sequencing. NPJ Biofilms Microbiomes 2024;10:149. [PMID: 39695121 DOI: 10.1038/s41522-024-00634-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2024] [Accepted: 12/06/2024] [Indexed: 12/20/2024]  Open
10
Xu Y, Yu M, Huang X, Wang G, Wang H, Zhang F, Zhang J, Gao X. Differences in salivary microbiome among children with tonsillar hypertrophy and/or adenoid hypertrophy. mSystems 2024;9:e0096824. [PMID: 39287377 PMCID: PMC11494981 DOI: 10.1128/msystems.00968-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2024] [Accepted: 08/23/2024] [Indexed: 09/19/2024]  Open
11
Casarin RCV, Silva RVCD, Paz HEDS, Stolf CS, Carvalho LM, Noronha MF, Sallum AW, Monteiro MDF. Metatranscriptomic analysis shows functional alterations in subgingival biofilm in young smokers with periodontitis: a pilot study. J Appl Oral Sci 2024;32:e20240031. [PMID: 39166556 PMCID: PMC11364450 DOI: 10.1590/1678-7757-2024-0031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2024] [Accepted: 06/24/2024] [Indexed: 08/23/2024]  Open
12
Rocha CM, Kawamoto D, Martins FH, Bueno MR, Ishikawa KH, Ando-Suguimoto ES, Carlucci AR, Arroteia LS, Casarin RV, Saraiva L, Simionato MRL, Mayer MPA. Experimental Inoculation of Aggregatibacter actinomycetemcomitans and Streptococcus gordonii and Its Impact on Alveolar Bone Loss and Oral and Gut Microbiomes. Int J Mol Sci 2024;25:8090. [PMID: 39125663 PMCID: PMC11312116 DOI: 10.3390/ijms25158090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2024] [Revised: 05/10/2024] [Accepted: 05/17/2024] [Indexed: 08/12/2024]  Open
13
Regueira-Iglesias A, Suárez-Rodríguez B, Blanco-Pintos T, Relvas M, Alonso-Sampedro M, Balsa-Castro C, Tomás I. The salivary microbiome as a diagnostic biomarker of periodontitis: a 16S multi-batch study before and after the removal of batch effects. Front Cell Infect Microbiol 2024;14:1405699. [PMID: 39071165 PMCID: PMC11272481 DOI: 10.3389/fcimb.2024.1405699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2024] [Accepted: 06/17/2024] [Indexed: 07/30/2024]  Open
14
Manoil D, Parga A, Bostanci N, Belibasakis GN. Microbial diagnostics in periodontal diseases. Periodontol 2000 2024;95:176-193. [PMID: 38797888 DOI: 10.1111/prd.12571] [Citation(s) in RCA: 19] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2024] [Revised: 03/27/2024] [Accepted: 04/15/2024] [Indexed: 05/29/2024]
15
Vázquez-González L, Regueira-Iglesias A, Balsa-Castro C, Vila-Blanco N, Tomás I, Carreira MJ. PrimerEvalPy: a tool for in-silico evaluation of primers for targeting the microbiome. BMC Bioinformatics 2024;25:189. [PMID: 38745271 PMCID: PMC11092261 DOI: 10.1186/s12859-024-05805-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Accepted: 05/08/2024] [Indexed: 05/16/2024]  Open
16
Solfisburg QS, Baldini F, Baldwin-Hunter B, Austin GI, Lee HH, Park H, Freedberg DE, Lightdale CJ, Korem T, Abrams JA. The Salivary Microbiome and Predicted Metabolite Production Are Associated with Barrett's Esophagus and High-Grade Dysplasia or Adenocarcinoma. Cancer Epidemiol Biomarkers Prev 2024;33:371-380. [PMID: 38117184 PMCID: PMC10955687 DOI: 10.1158/1055-9965.epi-23-0652] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 09/05/2023] [Accepted: 12/18/2023] [Indexed: 12/21/2023]  Open
17
Dutra TP, Freitas Monteiro M, França-Grohmann IL, Casarin RCV, Casati MZ, Silvério Ruiz KG, Kumar PS, Sallum EA. Clinical, immunological and microbiological evaluation of experimental peri-implant mucositis and gingivitis in subjects with Grade C, stage III/IV periodontitis background. J Clin Periodontol 2024;51:209-221. [PMID: 37941050 DOI: 10.1111/jcpe.13896] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2022] [Revised: 10/04/2023] [Accepted: 10/15/2023] [Indexed: 11/10/2023]
18
Bhaumik D, Salzman E, Davis E, Blostein F, Li G, Neiswanger K, Weyant R, Crout R, McNeil D, Marazita M, Foxman B. Plaque Microbiome in Caries-Active and Caries-Free Teeth by Dentition. JDR Clin Trans Res 2024;9:61-71. [PMID: 36154330 PMCID: PMC10725180 DOI: 10.1177/23800844221121260] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]  Open
19
Zhang T, Li H, Ma S, Cao J, Liao H, Huang Q, Chen W. The newest Oxford Nanopore R10.4.1 full-length 16S rRNA sequencing enables the accurate resolution of species-level microbial community profiling. Appl Environ Microbiol 2023;89:e0060523. [PMID: 37800969 PMCID: PMC10617388 DOI: 10.1128/aem.00605-23] [Citation(s) in RCA: 45] [Impact Index Per Article: 22.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Accepted: 08/04/2023] [Indexed: 10/07/2023]  Open
20
van Dalen R, Elsherbini AMA, Harms M, Alber S, Stemmler R, Peschel A. Secretory IgA impacts the microbiota density in the human nose. MICROBIOME 2023;11:233. [PMID: 37865781 PMCID: PMC10589987 DOI: 10.1186/s40168-023-01675-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2023] [Accepted: 09/24/2023] [Indexed: 10/23/2023]
21
Galvin S, Anishchuk S, Healy CM, Moran GP. Smoking, tooth loss and oral hygiene practices have significant and site-specific impacts on the microbiome of oral mucosal surfaces: a cross-sectional study. J Oral Microbiol 2023;15:2263971. [PMID: 37795170 PMCID: PMC10547447 DOI: 10.1080/20002297.2023.2263971] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 09/13/2023] [Indexed: 10/06/2023]  Open
22
Zhang M, Tang H, Yuan Y, Ou Z, Chen Z, Xu Y, Fu X, Zhao Z, Sun Y. The Role of Indoor Microbiome and Metabolites in Shaping Children's Nasal and Oral Microbiota: A Pilot Multi-Omic Analysis. Metabolites 2023;13:1040. [PMID: 37887365 PMCID: PMC10608577 DOI: 10.3390/metabo13101040] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 09/21/2023] [Accepted: 09/27/2023] [Indexed: 10/28/2023]  Open
23
Iniesta M, Chamorro C, Ambrosio N, Marín MJ, Sanz M, Herrera D. Subgingival microbiome in periodontal health, gingivitis and different stages of periodontitis. J Clin Periodontol 2023;50:905-920. [PMID: 36792073 DOI: 10.1111/jcpe.13793] [Citation(s) in RCA: 21] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Revised: 02/04/2023] [Accepted: 02/10/2023] [Indexed: 02/17/2023]
24
Solfisburg QS, Baldini F, Baldwin-Hunter BL, Lee HH, Park H, Freedberg DE, Lightdale CJ, Korem T, Abrams JA. The Salivary Microbiome and Predicted Metabolite Production are Associated with Progression from Barrett's Esophagus to Esophageal Adenocarcinoma. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.06.27.546733. [PMID: 37425673 PMCID: PMC10327009 DOI: 10.1101/2023.06.27.546733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/11/2023]
25
Bedree JK, Kerns K, Chen T, Lima BP, Liu G, Ha P, Shi J, Pan HC, Kim JK, Tran L, Minot SS, Hendrickson EL, Lamont EI, Schulte F, Hardt M, Stephens D, Patel M, Kokaras A, Stodieck L, Shirazi-Fard Y, Wu B, Kwak JH, Ting K, Soo C, McLean JS, He X, Shi W. Specific host metabolite and gut microbiome alterations are associated with bone loss during spaceflight. Cell Rep 2023;42:112299. [PMID: 37080202 PMCID: PMC10344367 DOI: 10.1016/j.celrep.2023.112299] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Revised: 10/30/2022] [Accepted: 03/07/2023] [Indexed: 04/22/2023]  Open
26
Hosokawa M, Iwai N, Arikawa K, Saeki T, Endoh T, Kamata K, Yoda T, Tsuda S, Takeyama H. Target enrichment of uncultured human oral bacteria with phage-derived molecules found by single-cell genomics. J Biosci Bioeng 2023:S1389-1723(23)00116-0. [PMID: 37188549 DOI: 10.1016/j.jbiosc.2023.04.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Revised: 04/18/2023] [Accepted: 04/20/2023] [Indexed: 05/17/2023]
27
Regueira-Iglesias A, Vázquez-González L, Balsa-Castro C, Vila-Blanco N, Blanco-Pintos T, Tamames J, Carreira MJ, Tomás I. In silico evaluation and selection of the best 16S rRNA gene primers for use in next-generation sequencing to detect oral bacteria and archaea. MICROBIOME 2023;11:58. [PMID: 36949474 PMCID: PMC10035280 DOI: 10.1186/s40168-023-01481-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Accepted: 01/30/2023] [Indexed: 06/18/2023]
28
Guo XJ, Dai SX, Lou JD, Ma XX, Hu XJ, Tu LP, Cui J, Lu H, Jiang T, Xu JT. Distribution characteristics of oral microbiota and its relationship with intestinal microbiota in patients with type 2 diabetes mellitus. Front Endocrinol (Lausanne) 2023;14:1119201. [PMID: 37025407 PMCID: PMC10072265 DOI: 10.3389/fendo.2023.1119201] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Accepted: 02/23/2023] [Indexed: 03/18/2023]  Open
29
Zheng T, Wu Y, Guo KX, Tan ZJ, Yang T. The process of hypertension induced by high-salt diet: Association with interactions between intestinal mucosal microbiota, and chronic low-grade inflammation, end-organ damage. Front Microbiol 2023;14:1123843. [PMID: 36925479 PMCID: PMC10011071 DOI: 10.3389/fmicb.2023.1123843] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2022] [Accepted: 01/27/2023] [Indexed: 03/06/2023]  Open
30
Hiergeist A, Ruelle J, Emler S, Gessner A. Reliability of species detection in 16S microbiome analysis: Comparison of five widely used pipelines and recommendations for a more standardized approach. PLoS One 2023;18:e0280870. [PMID: 36795699 PMCID: PMC9934417 DOI: 10.1371/journal.pone.0280870] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2022] [Accepted: 01/10/2023] [Indexed: 02/17/2023]  Open
31
Regueira-Iglesias A, Vázquez-González L, Balsa-Castro C, Blanco-Pintos T, Vila-Blanco N, Carreira MJ, Tomás I. Impact of 16S rRNA Gene Redundancy and Primer Pair Selection on the Quantification and Classification of Oral Microbiota in Next-Generation Sequencing. Microbiol Spectr 2023;11:e0439822. [PMID: 36779795 PMCID: PMC10101033 DOI: 10.1128/spectrum.04398-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Accepted: 01/16/2023] [Indexed: 02/14/2023]  Open
32
Blostein F, Bhaumik D, Davis E, Salzman E, Shedden K, Duhaime M, Bakulski KM, McNeil DW, Marazita ML, Foxman B. Evaluating the ecological hypothesis: early life salivary microbiome assembly predicts dental caries in a longitudinal case-control study. MICROBIOME 2022;10:240. [PMID: 36567334 PMCID: PMC9791751 DOI: 10.1186/s40168-022-01442-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Accepted: 12/01/2022] [Indexed: 05/09/2023]
33
Gómez-García AP, López-Vidal Y, Pinto-Cardoso S, Aguirre-García MM. Overexpression of proinflammatory cytokines in dental pulp tissue and distinct bacterial microbiota in carious teeth of Mexican Individuals. Front Cell Infect Microbiol 2022;12:958722. [PMID: 36569197 PMCID: PMC9772992 DOI: 10.3389/fcimb.2022.958722] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2022] [Accepted: 11/15/2022] [Indexed: 12/13/2022]  Open
34
Tricarico PM, Gratton R, dos Santos-Silva CA, de Moura RR, Ura B, Sommella E, Campiglia P, Del Vecchio C, Moltrasio C, Berti I, D’Adamo AP, Elsherbini AMA, Staudenmaier L, Chersi K, Boniotto M, Krismer B, Schittek B, Crovella S. A rare loss-of-function genetic mutation suggest a role of dermcidin deficiency in hidradenitis suppurativa pathogenesis. Front Immunol 2022;13:1060547. [PMID: 36544771 PMCID: PMC9760663 DOI: 10.3389/fimmu.2022.1060547] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 11/16/2022] [Indexed: 12/11/2022]  Open
35
Huang X, Chen X, Gong X, Xu Y, Xu Z, Gao X. Characteristics of salivary microbiota in children with obstructive sleep apnea: A prospective study with polysomnography. Front Cell Infect Microbiol 2022;12:945284. [PMID: 36105146 PMCID: PMC9465092 DOI: 10.3389/fcimb.2022.945284] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Accepted: 08/08/2022] [Indexed: 11/13/2022]  Open
36
Effect of a Stannous Fluoride Dentifrice on Biofilm Composition, Gene Expression and Biomechanical Properties. Microorganisms 2022;10:microorganisms10091691. [PMID: 36144293 PMCID: PMC9506307 DOI: 10.3390/microorganisms10091691] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2022] [Revised: 08/17/2022] [Accepted: 08/18/2022] [Indexed: 11/16/2022]  Open
37
Zheng T, Wu Y, Peng MJ, Xiao NQ, Tan ZJ, Yang T. Hypertension of liver-yang hyperactivity syndrome induced by a high salt diet by altering components of the gut microbiota associated with the glutamate/GABA-glutamine cycle. Front Nutr 2022;9:964273. [PMID: 36017217 PMCID: PMC9395663 DOI: 10.3389/fnut.2022.964273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Accepted: 07/11/2022] [Indexed: 11/20/2022]  Open
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Gao C, Li X, Zhao X, Yang P, Wang X, Chen X, Chen N, Chen F. Standardized studies of the oral microbiome: From technology-driven to hypothesis-driven. IMETA 2022;1:e19. [PMID: 38868569 PMCID: PMC10989927 DOI: 10.1002/imt2.19] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2021] [Revised: 03/05/2022] [Accepted: 03/06/2022] [Indexed: 06/14/2024]
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Liao CC, Fu PY, Huang CW, Chuang CH, Yen Y, Lin CY, Chen SH. MetaSquare: an integrated metadatabase of 16S rRNA gene amplicon for microbiome taxonomic classification. Bioinformatics 2022;38:2930-2931. [PMID: 35561196 PMCID: PMC9113242 DOI: 10.1093/bioinformatics/btac184] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2021] [Revised: 02/18/2022] [Accepted: 03/22/2022] [Indexed: 11/21/2022]  Open
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Andersen C, Bergholt B, Ridderberg W, Nørskov-Lauritsen N. Culture on Selective Media and Amplicon-Based Sequencing of 16S rRNA from Spontaneous Brain Abscess-the View from the Diagnostic Laboratory. Microbiol Spectr 2022;10:e0240721. [PMID: 35404098 PMCID: PMC9045185 DOI: 10.1128/spectrum.02407-21] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2021] [Accepted: 03/10/2022] [Indexed: 11/20/2022]  Open
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Silva DNDA, Casarin M, Monajemzadeh S, Bezerra BDB, Lux R, Pirih FQ. The Microbiome in Periodontitis and Diabetes. FRONTIERS IN ORAL HEALTH 2022;3:859209. [PMID: 35464780 PMCID: PMC9024052 DOI: 10.3389/froh.2022.859209] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2022] [Accepted: 03/14/2022] [Indexed: 12/19/2022]  Open
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Guo XJ, Jiang T, Ma XX, Hu XJ, Huang JB, Cui LT, Cui J, Yao XH, Shi YL, Li J, Guo ZL, Lou JD, Liang MC, Fu HY, Yuan P, Liu JY, Tu LP, Xu JT. Relationships Between Diurnal Changes of Tongue Coating Microbiota and Intestinal Microbiota. Front Cell Infect Microbiol 2022;12:813790. [PMID: 35433494 PMCID: PMC9008461 DOI: 10.3389/fcimb.2022.813790] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Accepted: 03/02/2022] [Indexed: 11/29/2022]  Open
43
Hurst JH, McCumber AW, Aquino JN, Rodriguez J, Heston SM, Lugo DJ, Rotta AT, Turner NA, Pfeiffer TS, Gurley TC, Moody MA, Denny TN, Rawls JF, Clark JS, Woods CW, Kelly MS. Age-Related Changes in the Nasopharyngeal Microbiome Are Associated With Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection and Symptoms Among Children, Adolescents, and Young Adults. Clin Infect Dis 2022;75:e928-e937. [PMID: 35247047 PMCID: PMC8903463 DOI: 10.1093/cid/ciac184] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2021] [Indexed: 01/19/2023]  Open
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Kelly MS, Plunkett C, Yu Y, Aquino JN, Patel SM, Hurst JH, Young RR, Smieja M, Steenhoff AP, Arscott-Mills T, Feemster KA, Boiditswe S, Leburu T, Mazhani T, Patel MZ, Rawls JF, Jawahar J, Shah SS, Polage CR, Cunningham CK, Seed PC. Non-diphtheriae Corynebacterium species are associated with decreased risk of pneumococcal colonization during infancy. THE ISME JOURNAL 2022;16:655-665. [PMID: 34511605 PMCID: PMC8857224 DOI: 10.1038/s41396-021-01108-4] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Revised: 08/22/2021] [Accepted: 09/03/2021] [Indexed: 02/08/2023]
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Regueira-Iglesias A, Vázquez-González L, Balsa-Castro C, Blanco-Pintos T, Martín-Biedma B, Arce VM, Carreira MJ, Tomás I. In-Silico Detection of Oral Prokaryotic Species With Highly Similar 16S rRNA Sequence Segments Using Different Primer Pairs. Front Cell Infect Microbiol 2022;11:770668. [PMID: 35223533 PMCID: PMC8863748 DOI: 10.3389/fcimb.2021.770668] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2021] [Accepted: 12/31/2021] [Indexed: 11/13/2022]  Open
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Uranga C, Nelson KE, Edlund A, Baker JL. Tetramic Acids Mutanocyclin and Reutericyclin A, Produced by Streptococcus mutans Strain B04Sm5 Modulate the Ecology of an in vitro Oral Biofilm. FRONTIERS IN ORAL HEALTH 2022;2:796140. [PMID: 35048077 PMCID: PMC8757879 DOI: 10.3389/froh.2021.796140] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2021] [Accepted: 11/29/2021] [Indexed: 01/04/2023]  Open
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Melo-Dias S, Valente C, Andrade L, Marques A, Sousa A. Saliva as a non-invasive specimen for COPD assessment. Respir Res 2022;23:16. [PMID: 35093093 PMCID: PMC8800366 DOI: 10.1186/s12931-022-01935-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Accepted: 01/18/2022] [Indexed: 12/24/2022]  Open
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Sundh J, Tanash H, Arian R, Neves-Guimaraes A, Broberg K, Lindved G, Kern T, Zych K, Nielsen HB, Halling A, Ohlsson B, Jönsson D. Advanced Dental Cleaning is Associated with Reduced Risk of COPD Exacerbations - A Randomized Controlled Trial. Int J Chron Obstruct Pulmon Dis 2021;16:3203-3215. [PMID: 34858021 PMCID: PMC8629912 DOI: 10.2147/copd.s327036] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Accepted: 09/13/2021] [Indexed: 01/02/2023]  Open
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Cameron ES, Schmidt PJ, Tremblay BJM, Emelko MB, Müller KM. Enhancing diversity analysis by repeatedly rarefying next generation sequencing data describing microbial communities. Sci Rep 2021;11:22302. [PMID: 34785722 PMCID: PMC8595385 DOI: 10.1038/s41598-021-01636-1] [Citation(s) in RCA: 72] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2021] [Accepted: 10/27/2021] [Indexed: 12/13/2022]  Open
50
RESCRIPt: Reproducible sequence taxonomy reference database management. PLoS Comput Biol 2021;17:e1009581. [PMID: 34748542 PMCID: PMC8601625 DOI: 10.1371/journal.pcbi.1009581] [Citation(s) in RCA: 349] [Impact Index Per Article: 87.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2021] [Revised: 11/18/2021] [Accepted: 10/21/2021] [Indexed: 12/22/2022]  Open
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