PUBLICATIONS

Background Publications Establishing Oral Microbiome Expertise

In a recent review from NIH ("A review of 10 years of human microbiome research activities at the US National Institutes of Health, Fiscal Years 2007-2016"), two of our papers were considered as pioneering studies that helped lay the foundation for microbiome research and inform the development of the Human Microbiome Project (HMP) program.
▣Aas JA, Paster BJ, Stokes LN, Olsen I, Dewhirst FE. Defining the normal bacterial flora of the oral cavity. J Clin Microbiol. 2005;43(11):5721-32. Epub 2005/11/08. doi: 10.1128/JCM.43.11.5721-5732.2005. PubMed PMID: 16272510; PMCID: PMC1287824. Cited 1,615 times - Web of Science.
▣Paster BJ, Boches SK, Galvin JL, Ericson RE, Lau CN, Levanos VA, et al. Bacterial diversity in human subgingival plaque. J Bacteriol. 2001;183(12):3770-83. Epub 2001/05/24. doi: 10.1128/JB.183.12.3770-3783.2001. PubMed PMID: 11371542; PMCID: PMC95255. Cited 1,350 times.
The ensuing establishment of the Human Oral Microbiome Database (HOMD) was also noted in that same review as a major resource for the field.
▣Dewhirst FE, Chen T, Izard J, Paster BJ, Tanner AC, Yu WH, et al. The human oral microbiome. J Bacteriol. 2010;192(19):5002-17. Epub 2010/07/27. doi: 10.1128/JB.00542-10. PubMed PMID: 20656903; PMCID: PMC2944498. Cited 1,396 times.

Publications Using Taxonomy Assignment Algorithms for FOMC

  1. Escapa IF, Huang Y, Chen T, Lin M, Kokaras A, Dewhirst FE, et al. Construction of habitat-specific training sets to achieve species-level assignment in 16S rRNA gene datasets. Microbiome. 2020;8(1):65. Epub 2020/05/18. doi: 10.1186/s40168-020-00841-w. PMID: 32414415; PMCID: PMC7291764.
  2. Baraniya D, Chen T, Nahar A, Alakwaa F, Hill J, Tellez M, et al. Supragingival mycobiome and inter-kingdom interactions in dental caries. J Oral Microbiol. 2020;12(1):1729305. Epub 2020/03/12. doi: 10.1080/20002297.2020.1729305. PMID: 32158514; PMCID: PMC7048226.
  3. Baraniya D, Naginyte M, Chen T, Albandar JM, Chialastri SM, Devine DA, et al. Modeling Normal and Dysbiotic Subgingival Microbiomes: Effect of Nutrients. J Dent Res. 2020;99(6):695-702. Epub 2020/01/31. doi: 10.1177/0022034520902452. PMID: 31999932; PMCID: PMC7243421.
  4. Acharya A, Chen T, Chan Y, Watt RM, Jin L, Mattheos N. Species-Level Salivary Microbial Indicators of Well-Resolved Periodontitis: A Preliminary Investigation. Front Cell Infect Microbiol. 2019;9:347. Epub 2019/11/05. doi: 10.3389/fcimb.2019.00347. PMID: 31681625; PMCID: PMC6797555.
  5. Al-Hebshi NN, Baraniya D, Chen T, Hill J, Puri S, Tellez M, et al. Metagenome sequencing-based strain-level and functional characterization of supragingival microbiome associated with dental caries in children. J Oral Microbiol. 2019;11(1):1557986. Epub 2019/01/24. doi: 10.1080/20002297.2018.1557986. PMID: 30671194; PMCID: PMC6327923.
  6. Al-Kamel A, Baraniya D, Al-Hajj WA, Halboub E, Abdulrab S, Chen T, et al. Subgingival microbiome of experimental gingivitis: shifts associated with the use of chlorhexidine and N-acetyl cysteine mouthwashes. J Oral Microbiol. 2019;11(1):1608141. Epub 2019/07/06. doi: 10.1080/20002297.2019.1608141. PMID: 31275528; PMCID: PMC6598494.
  7. Del Castillo E, Meier R, Chung M, Koestler DC, Chen T, Paster BJ, et al. The Microbiomes of Pancreatic and Duodenum Tissue Overlap and Are Highly Subject Specific but Differ between Pancreatic Cancer and Noncancer Subjects. Cancer Epidemiol Biomarkers Prev. 2019;28(2):370-83. Epub 2018/10/31. doi: 10.1158/1055-9965.EPI-18-0542. PMID: 30373903; PMCID: PMC6363867.
  8. Stashenko P, Yost S, Choi Y, Danciu T, Chen T, Yoganathan S, et al. The Oral Mouse Microbiome Promotes Tumorigenesis in Oral Squamous Cell Carcinoma. mSystems. 2019;4(4). Epub 2019/08/08. doi: 10.1128/mSystems.00323-19. PMID: 31387932; PMCID: PMC6687944.
  9. Bruserud O, Siddiqui H, Marthinussen MC, Chen T, Jonsson R, Oftedal BE, et al. Oral microbiota in autoimmune polyendocrine syndrome type 1. J Oral Microbiol. 2018;10(1):1442986. Epub 2018/03/06. doi: 10.1080/20002297.2018.1442986. PMID: 29503707; PMCID: PMC5827717.
  10. Escapa IF, Chen T, Huang Y, Gajare P, Dewhirst FE, Lemon KP. New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract. mSystems. 2018;3(6). Epub 2018/12/12. doi: 10.1128/mSystems.00187-18. PMID: 30534599; PMCID: PMC6280432.
  11. Kressirer CA, Chen T, Lake Harriman K, Frias-Lopez J, Dewhirst FE, Tavares MA, et al. Functional profiles of coronal and dentin caries in children. J Oral Microbiol. 2018;10(1):1495976. Epub 2018/07/24. doi: 10.1080/20002297.2018.1495976. PMID: 30034639; PMCID: PMC6052428.
  12. Perera M, Al-Hebshi NN, Perera I, Ipe D, Ulett GC, Speicher DJ, et al. Inflammatory Bacteriome and Oral Squamous Cell Carcinoma. J Dent Res. 2018;97(6):725-32. Epub 2018/04/10. doi: 10.1177/0022034518767118. PMID: 29630846.
  13. Adams SE, Arnold D, Murphy B, Carroll P, Green AK, Smith AM, et al. A randomised clinical study to determine the effect of a toothpaste containing enzymes and proteins on plaque oral microbiome ecology. Sci Rep. 2017;7:43344. Epub 2017/02/28. doi: 10.1038/srep43344. PMID: 28240240; PMCID: PMC5327414.
  14. Al-Hebshi NN, Alharbi FA, Mahri M, Chen T. Differences in the Bacteriome of Smokeless Tobacco Products with Different Oral Carcinogenicity: Compositional and Predicted Functional Analysis. Genes (Basel). 2017;8(4). Epub 2017/03/24. doi: 10.3390/genes8040106. PMID: 28333122; PMCID: PMC5406853.
  15. Perera M, Al-Hebshi NN, Perera I, Ipe D, Ulett GC, Speicher DJ, et al. A dysbiotic mycobiome dominated by Candida albicans is identified within oral squamous-cell carcinomas. J Oral Microbiol. 2017;9(1):1385369. Epub 2017/11/21. doi: 10.1080/20002297.2017.1385369. PMID: 29152157; PMCID: PMC5678454.
  16. Ribeiro AA, Azcarate-Peril MA, Cadenas MB, Butz N, Paster BJ, Chen T, et al. The oral bacterial microbiome of occlusal surfaces in children and its association with diet and caries. PLoS One. 2017;12(7):e0180621. Epub 2017/07/06. doi: 10.1371/journal.pone.0180621. PMID: 28678838; PMCID: PMC5498058.
  17. Al-Hebshi NN, Abdulhaq A, Albarrag A, Basode VK, Chen T. Species-level core oral bacteriome identified by 16S rRNA pyrosequencing in a healthy young Arab population. J Oral Microbiol. 2016;8:31444. Epub 2016/05/20. doi: 10.3402/jom.v8.31444. PMID: 27193835; PMCID: PMC4871898.
  18. Siddiqui H, Chen T, Aliko A, Mydel PM, Jonsson R, Olsen I. Microbiological and bioinformatics analysis of primary Sjogren's syndrome patients with normal salivation. J Oral Microbiol. 2016;8:31119. Epub 2016/10/23. doi: 10.3402/jom.v8.31119. PMID: 27770517; PMCID: PMC5075221.
  19. Al-Hebshi NN, Nasher AT, Idris AM, Chen T. Robust species taxonomy assignment algorithm for 16S rRNA NGS reads: application to oral carcinoma samples. J Oral Microbiol. 2015;7:28934. Epub 2015/10/02. doi: 10.3402/jom.v7.28934. PMID: 26426306; PMCID: PMC4590409.
  20. Romani Vestman N, Chen T, Lif Holgerson P, Ohman C, Johansson I. Oral Microbiota Shift after 12-Week Supplementation with Lactobacillus reuteri DSM 17938 and PTA 5289; A Randomized Control Trial. PLoS One. 2015;10(5):e0125812. Epub 2015/05/07. doi: 10.1371/journal.pone.0125812. PMID: 25946126; PMCID: PMC4422650.

Publications using HOMINGS and HOMIM

HOMIM's were used extensively in microbiome studies at The Forsyth Institute (9 PIs) and in other collaborative studies with national and international academic institutions (more than 120 investigative teams), government including NIH (6 investigative teams), and industry (12 companies). As a result of many of these studies, there were 61 peer-reviewed publications (most recently in 2019), 8 reviews describing HOMIM, and since 2009, over 50 national and international abstracts or presentations. HOMINGS, the HOMIM replacement, was also utilized by many investigators or teams. As of May 2021, there were 33 peer-reviewed, HOMINGS-associated publications and 3 HOMINGS-associated reviews. In addition, there have been over 20 abstracts/presentations at national and international meetings.

HOMINGS-associated, Peer-reviewed Publications

  1. Qudeimat MA, Alyahya A, Karched M, Behbehani J, Salako NO. Dental plaque microbiota profiles of children with caries-free and caries-active dentition. 2021 Jan;104:103539. doi: 10.1016/j.jdent.2020.103539. Epub 2020 Nov 25. PMID: 33248211.
  2. de Brito LCN, Doolittle-Hall J, Lee CT, Moss K, Bambirra Junior W, Tavares WLF, et al. The apical root canal system microbial communities determined by next-generation sequencing. Sci Rep. 2020;10(1):10932. Epub 2020/07/04. doi: 10.1038/s41598-020-67828-3. PMID: 32616783; PMCID: PMC7331743.
  3. Mougeot JC, Beckman MF, Stevens CB, Almon KG, Morton DS, Von Bultzingslowen I, et al. Lasting Gammaproteobacteria profile changes characterized hematological cancer patients who developed oral mucositis following conditioning therapy. J Oral Microbiol. 2020;12(1):1761135. Epub 2020/06/17. doi: 10.1080/20002297.2020.1761135. PMID: 32537095; PMCID: PMC7269028.
  4. Papapanou PN, Park H, Cheng B, Kokaras A, Paster B, Burkett S, et al. Subgingival microbiome and clinical periodontal status in an elderly cohort: The WHICAP ancillary study of oral health. J Periodontol. 2020. Epub 2020/06/14. doi: 10.1002/JPER.20-0194. PMID: 32533776.
  5. Damgaard C, Danielsen AK, Enevold C, Massarenti L, Nielsen CH, Holmstrup P, et al. Porphyromonas gingivalis in saliva associates with chronic and aggressive periodontitis. J Oral Microbiol. 2019;11(1):1653123. Epub 2019/09/07. doi: 10.1080/20002297.2019.1653123. PMID: 31489129; PMCID: PMC6713147.
  6. Harris-Ricardo J, Fang L, Herrera-Herrera A, Fortich-Mesa N, Olier-Castillo D, Cavanzo-Rojas D, et al. Bacterial profile of the supragingival dental biofilm in children with deciduous and early mixed dentition using next generation sequencing (HOMINGS) technique. Enferm Infecc Microbiol Clin. 2019;37(7):448-53. Epub 2018/12/14. doi: 10.1016/j.eimc.2018.10.019. PMID: 30545671.
  7. Mitwalli H, Mourao MDA, Dennison J, Yaman P, Paster BJ, Fontana M. Effect of Silver Diamine Fluoride Treatment on Microbial Profiles of Plaque Biofilms from Root/Cervical Caries Lesions. Caries Res. 2019;53(5):555-66. Epub 2019/05/29. doi: 10.1159/000499578. PMID: 31137026.
  8. Mougeot JC, Stevens CB, Almon KG, Paster BJ, Lalla RV, Brennan MT, et al. Caries-associated oral microbiome in head and neck cancer radiation patients: a longitudinal study. J Oral Microbiol. 2019;11(1):1586421. Epub 2019/03/21. doi: 10.1080/20002297.2019.1586421. PMID: 30891159; PMCID: PMC6419625.
  9. Nascimento MM, Alvarez AJ, Huang X, Browngardt C, Jenkins R, Sinhoreti MC, et al. Metabolic Profile of Supragingival Plaque Exposed to Arginine and Fluoride. J Dent Res. 2019;98(11):1245-52. Epub 2019/08/28. doi: 10.1177/0022034519869906. PMID: 31454264; PMCID: PMC6755720.
  10. Ortiz S, Herrman E, Lyashenko C, Purcell A, Raslan K, et al. Sex-specific differences in the salivary microbiome of caries-active children. J Oral Microbiol. 2019 11:1653124. doi: 10.1080/20002297.2019.1653124. eCollection 2019. PMID: 31497256.
  11. Palmer RJ, Cotton SL, Kokaras AS, Gardner P, Grisius M, Pelayo E, et al. Analysis of oral bacterial communities: comparison of HOMINGS with a tree-based approach implemented in QIIME. J Oral Microbiol. 2019;11(1):1586413. Epub 2019/04/17. doi: 10.1080/20002297.2019.1586413. PMID: 30988892; PMCID: PMC6450576.
  12. Belstrøm D, Grande MA, Sembler-Moller ML, Kirkby N, Cotton SL, Paster BJ, et al. Influence of periodontal treatment on subgingival and salivary microbiotas. J Periodontol. 2018;89(5):531-9. Epub 2018/03/10. doi: 10.1002/JPER.17-0377. PMID: 29520798.
  13. Belstrøm D, Sembler-Moller ML, Grande MA, Kirkby N, Cotton SL, Paster BJ, et al. Impact of Oral Hygiene Discontinuation on Supragingival and Salivary Microbiomes. JDR Clin Trans Res. 2018;3(1):57-64. Epub 2018/04/18. doi: 10.1177/2380084417723625. PMID: 29662960; PMCID: PMC5896869.
  14. Colombo APV, Paster BJ, Grimaldi G, Lourenco TGB, Teva A, Campos-Neto A, et al. Clinical and microbiological parameters of naturally occurring periodontitis in the non-human primate Macaca mulatta. J Oral Microbiol. 2017;9(1):1403843. Epub 2018/05/29. doi: 10.1080/20002297.2017.1403843. PMID: 29805776; PMCID: PMC5963701.
  15. Eriksson L, Lif Holgerson P, Esberg A, Johansson I. Microbial Complexes and Caries in 17-Year-Olds with and without Streptococcus mutans. J Dent Res. 2018;97(3):275-82. Epub 2017/09/21. doi: 10.1177/0022034517731758. PMID: 28930642.
  16. Velsko IM, Shaddox LM. Consistent and reproducible long-term in vitro growth of health and disease-associated oral subgingival biofilms. BMC Microbiol. 2018;18(1):70. Epub 2018/07/13. doi: 10.1186/s12866-018-1212-x. PMID: 29996764; PMCID: PMC6042318.
  17. Zheng Y, Zhang M, Li J, Li Y, Teng F, Jiang H, et al. Comparative Analysis of the Microbial Profiles in Supragingival Plaque Samples Obtained From Twins With Discordant Caries Phenotypes and Their Mothers. Front Cell Infect Microbiol. 2018;8:361. Epub 2018/11/22. doi: 10.3389/fcimb.2018.00361. PMID: 30460203; PMCID: PMC6232758.
  18. Belstrøm D, Holmstrup P, Fiehn NE, Kirkby N, Kokaras A, Paster BJ, Bardow A. Salivary microbiota in individuals with different levels of caries experience. J Oral Microbiol. 2017 Jan 23;9(1):1270614. doi: 10.1080/20002297.2016.1270614. PMID: 28326153; PMCID: PMC5328370.
  19. Belstrøm D, Sembler-Moller ML, Grande MA, Kirkby N, Cotton SL, Paster BJ, et al. Microbial profile comparisons of saliva, pooled and site-specific subgingival samples in periodontitis patients. PLoS One. 2017;12(8):e0182992. Epub 2017/08/12. doi: 10.1371/journal.pone.0182992. PMID: 28800622; PMCID: PMC5553731.
  20. Eriksson L, Lif Holgerson P, Johansson I. Saliva and tooth biofilm bacterial microbiota in adolescents in a low caries community. Sci Rep. 2017;7(1):5861. Epub 2017/07/21. doi: 10.1038/s41598-017-06221-z. PMID: 28724921; PMCID: PMC5517611.
  21. Keller MK, Kressirer CA, Belstrøm D, Twetman S, Tanner ACR. Oral microbial profiles of individuals with different levels of sugar intake. J Oral Microbiol. 2017;9(1):1355207. Epub 2017/08/26. doi: 10.1080/20002297.2017.1355207. PMID: 28839520; PMCID: PMC5560414.
  22. Mougeot JC, Stevens CB, Paster BJ, Brennan MT, Lockhart PB, Mougeot FK. Porphyromonas gingivalis is the most abundant species detected in coronary and femoral arteries. J Oral Microbiol. 2017;9(1):1281562. Epub 2017/03/23. doi: 10.1080/20002297.2017.1281562. PMID: 28326156; PMCID: PMC5328378.
  23. Richards VP, Alvarez AJ, Luce AR, Bedenbaugh M, Mitchell ML, Burne RA, et al. Microbiomes of Site-Specific Dental Plaques from Children with Different Caries Status. Infect Immun. 2017;85(8). Epub 2017/05/17. doi: 10.1128/IAI.00106-17. PMID: 28507066; PMCID: PMC5520424.
  24. Sanz-Martin I, Doolittle-Hall J, Teles RP, Patel M, Belibasakis GN, Hammerle CHF, et al. Exploring the microbiome of healthy and diseased peri-implant sites using Illumina sequencing. J Clin Periodontol. 2017;44(12):1274-84. Epub 2017/08/03. doi: 10.1111/jcpe.12788. PMID: 28766745; PMCID: PMC7209775.
  25. Timby N, Domellof M, Holgerson PL, West CE, Lonnerdal B, Hernell O, et al. Oral Microbiota in Infants Fed a Formula Supplemented with Bovine Milk Fat Globule Membranes - A Randomized Controlled Trial. PLoS One. 2017;12(1):e0169831. Epub 2017/01/19. doi: 10.1371/journal.pone.0169831. PMID: 28099499; PMCID: PMC5242539.
  26. Belstrøm D, Holmstrup P, Bardow A, Kokaras A, Fiehn NE, Paster BJ. Comparative analysis of bacterial profiles in unstimulated and stimulated saliva samples. J Oral Microbiol. 2016;8:30112. Epub 2016/03/19. doi: 10.3402/jom.v8.30112. PMID: 26987356; PMCID: PMC4796727.
  27. Belstrøm D, Holmstrup P, Bardow A, Kokaras A, Fiehn NE, Paster BJ. Temporal Stability of the Salivary Microbiota in Oral Health. PLoS One. 2016;11(1):e0147472. Epub 2016/01/23. doi: 10.1371/journal.pone.0147472. PMID: 26799067; PMCID: PMC4723053.
  28. Belstrøm D, Holmstrup P, Fiehn NE, Rosing K, Bardow A, Paster BJ, et al. Bacterial composition in whole saliva from patients with severe hyposalivation--a case-control study. Oral Dis. 2016;22(4):330-7. Epub 2016/01/30. doi: 10.1111/odi.12452. PMID: 26824889.
  29. Belstrøm D, Paster BJ, Fiehn NE, Bardow A, Holmstrup P. Salivary bacterial fingerprints of established oral disease revealed by the Human Oral Microbe Identification using Next Generation Sequencing (HOMINGS) technique. J Oral Microbiol. 2016;8:30170. Epub 2016/01/20. doi: 10.3402/jom.v8.30170. PMID: 26782357; PMCID: PMC4717152.
  30. McIntyre MK, Peacock TJ, Akers KS, Burmeister DM. Initial Characterization of the Pig Skin Bacteriome and Its Effect on In Vitro Models of Wound Healing. PLoS One. 2016;11(11):e0166176. Epub 2016/11/09. doi: 10.1371/journal.pone.0166176. PMID: 27824921; PMCID: PMC5100914.
  31. Mougeot JL, Stevens CB, Cotton SL, Morton DS, Krishnan K, Brennan MT, et al. Concordance of HOMIM and HOMINGS technologies in the microbiome analysis of clinical samples. J Oral Microbiol. 2016;8:30379. Epub 2016/04/12. doi: 10.3402/jom.v8.30379. PMID: 27065347; PMCID: PMC4827145.
  32. Gomes BP, Berber VB, Kokaras AS, Chen T, Paster BJ. Microbiomes of Endodontic-Periodontal Lesions before and after Chemomechanical Preparation. J Endod. 2015;41(12):1975-84. Epub 2015/11/02. doi: 10.1016/j.joen.2015.08.022. PMID: 26521147; PMCID: PMC7061340.
  33. Rudney JD, Jagtap PD, Reilly CS, Chen R, Markowski TW, Higgins L, et al. Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries. Microbiome. 2015;3:69. Epub 2015/12/20. doi: 10.1186/s40168-015-0136-z. PMID: 26684897; PMCID: PMC4684605.

HOMINGS-associated Reviews

  1. Robledo-Sierra J, Ben-Amy DP, Varoni E, Bavarian R, Simonsen JL, Paster BJ, et al. World Workshop on Oral Medicine VII: Targeting the oral microbiome Part 2: Current knowledge on malignant and potentially malignant oral disorders. Oral Dis. 2019;25 Suppl 1:28-48. Epub 2019/05/30. doi: 10.1111/odi.13107. PMID: 31140694.
  2. Krishnan K, Chen T, Paster BJ. A practical guide to the oral microbiome and its relation to health and disease. Oral Dis. 2017;23(3):276-86. Epub 2016/05/25. doi: 10.1111/odi.12509. PMID: 27219464; PMCID: PMC5122475.
  3. Duran-Pinedo AE, Frias-Lopez J. Beyond microbial community composition: functional activities of the oral microbiome in health and disease. Microbes Infect. 2015;17(7):505-16. Epub 2015/04/12. doi: 10.1016/j.micinf.2015.03.014. PMID: 25862077; PMCID: PMC4495649.

HOMIM-associated, Peer-reviewed Publications

  1. Cui X, Liu J, Xiao W, Chu Y, Ouyang X. Subgingival microbiome in Chinese patients with generalized aggressive periodontitis compared to healthy controls. Arch Oral Biol. 2019;101:92-9. Epub 2019/03/26. doi: 10.1016/j.archoralbio.2019.02.012. PMID: 30909081.
  2. Inui T, Palmer RJ, Jr., Shah N, Li W, Cisar JO, Wu CD. Effect of mechanically stimulated saliva on initial human dental biofilm formation. Sci Rep. 2019;9(1):11805. Epub 2019/08/16. doi: 10.1038/s41598-019-48211-3. PMID: 31413280; PMCID: PMC6694102.
  3. Bassir SH, Chase I, Paster BJ, Gordon LB, Kleinman ME, Kieran MW, et al. Microbiome at sites of gingival recession in children with Hutchinson-Gilford progeria syndrome. J Periodontol. 2018;89(6):635-44. Epub 2018/03/10. doi: 10.1002/JPER.17-0351. PMID: 29520806; PMCID: PMC6041179.
  4. Grauballe MB, Belstrøm D, Ostergaard JA, Paster BJ, Schou S, Flyvbjerg A, et al. Ligature-associated bacterial profiles are linked to type 2 diabetes mellitus in a rat model and influenced by antibody treatment against TNF-alpha or RAGE. Clin Exp Dent Res. 2017;3(1):25-31. Epub 2017/03/28. doi: 10.1002/cre2.54. PMID: 28344834; PMCID: PMC5347912.
  5. Palmer RJ, Jr., Shah N, Valm A, Paster B, Dewhirst F, Inui T, et al. Interbacterial Adhesion Networks within Early Oral Biofilms of Single Human Hosts. Appl Environ Microbiol. 2017;83(11). Epub 2017/03/28. doi: 10.1128/AEM.00407-17. PMID: 28341674; PMCID: PMC5440702.
  6. ElSalhy M, Soderling E, Honkala E, Fontana M, Flannagan S, Kokaras A, et al. Salivary microbiota and caries occurrence in Mutans Streptococci-positive school children. Eur J Paediatr Dent. 2016;17(3):188-92. Epub 2016/10/21. PMID: 27759406.
  7. George N, Flamiatos E, Kawasaki K, Kim N, Carriere C, Phan B, et al. Oral microbiota species in acute apical endodontic abscesses. J Oral Microbiol. 2016;8:30989. Epub 2016/03/18. doi: 10.3402/jom.v8.30989. PMID: 26983837; PMCID: PMC4794734.
  8. Heller D, Helmerhorst EJ, Gower AC, Siqueira WL, Paster BJ, Oppenheim FG. Microbial Diversity in the Early In Vivo-Formed Dental Biofilm. Appl Environ Microbiol. 2016;82(6):1881-8. Epub 2016/01/10. doi: 10.1128/AEM.03984-15. PMID: 26746720; PMCID: PMC4784052.
  9. Marchesan J, Jiao Y, Schaff RA, Hao J, Morelli T, Kinney JS, et al. TLR4, NOD1 and NOD2 mediate immune recognition of putative newly identified periodontal pathogens. Mol Oral Microbiol. 2016;31(3):243-58. Epub 2015/07/16. doi: 10.1111/omi.12116. PMID: 26177212; PMCID: PMC4713362.
  10. Paes Batista da Silva A, Barros SP, Moss K, Preisser J, Marchesan JT, Ward M, et al. Microbial Profiling in Experimentally Induced Biofilm Overgrowth Among Patients With Various Periodontal States. J Periodontol. 2016;87(1):27-35. Epub 2015/10/03. doi: 10.1902/jop.2015.150328. PMID: 26430927.
  11. Romanos GE, Biltucci MT, Kokaras A, Paster BJ. Bacterial Composition at the Implant-Abutment Connection under Loading in vivo. Clin Implant Dent Relat Res. 2016;18(1):138-45. Epub 2014/09/10. doi: 10.1111/cid.12270. PMID: 25195711.
  12. Belstrøm D, Fiehn NE, Nielsen CH, Klepac-Ceraj V, Paster BJ, Twetman S, et al. Differentiation of salivary bacterial profiles of subjects with periodontitis and dental caries. J Oral Microbiol. 2015;7:27429. Epub 2015/04/10. doi: 10.3402/jom.v7.27429. PMID: 25854857; PMCID: PMC4390560.
  13. Elabdeen HR, Mustafa M, Hasturk H, Klepac-Ceraj V, Ali RW, Paster BJ, et al. Subgingival microbial profiles of Sudanese patients with aggressive periodontitis. J Periodontal Res. 2015;50(5):674-82. Epub 2014/12/10. doi: 10.1111/jre.12250. PMID: 25487558; PMCID: PMC4646740.
  14. Lif Holgerson P, Ohman C, Ronnlund A, Johansson I. Maturation of Oral Microbiota in Children with or without Dental Caries. PLoS One. 2015;10(5):e0128534. Epub 2015/05/29. doi: 10.1371/journal.pone.0128534. PMID: 26020247; PMCID: PMC4447273.
  15. Lin SW, Freedman ND, Shi J, Gail MH, Vogtmann E, Yu G, et al. Beta-diversity metrics of the upper digestive tract microbiome are associated with body mass index. Obesity (Silver Spring). 2015;23(4):862-9. Epub 2015/03/11. doi: 10.1002/oby.21020. PMID: 25755147; PMCID: PMC4380747.
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HOMIM-associated Reviews

  1. Duran-Pinedo AE, Frias-Lopez J. Beyond microbial community composition: functional activities of the oral microbiome in health and disease. Microbes Infect. 2015;17(7):505-16. Epub 2015/04/12. doi: 10.1016/j.micinf.2015.03.014. PMID: 25862077; PMCID: PMC4495649.
  2. Wang L, Ganly I. The oral microbiome and oral cancer. Clin Lab Med. 2014;34(4):711-9. Epub 2014/12/03. doi: 10.1016/j.cll.2014.08.004. PMID: 25439271.
  3. Yoshizawa JM, Schafer CA, Schafer JJ, Farrell JJ, Paster BJ, Wong DT. Salivary biomarkers: toward future clinical and diagnostic utilities. Clin Microbiol Rev. 2013;26(4):781-91. Epub 2013/10/05. doi: 10.1128/CMR.00021-13. PMID: 24092855; PMCID: PMC3811231.
  4. Teles R, Teles F, Frias-Lopez J, Paster B, Haffajee A. Lessons learned and unlearned in periodontal microbiology. Periodontol 2000. 2013;62(1):95-162. Epub 2013/04/12. doi: 10.1111/prd.12010. PMID: 23574465; PMCID: PMC3912758.
  5. Ahn J, Chen CY, Hayes RB. Oral microbiome and oral and gastrointestinal cancer risk. Cancer Causes Control. 2012;23(3):399-404. Epub 2012/01/25. doi: 10.1007/s10552-011-9892-7. PMID: 22271008; PMCID: PMC3767140.
  6. Paster BJ, Dewhirst FE. Molecular microbial diagnosis. Periodontol 2000. 2009;51:38-44. Epub 2009/11/03. doi: 10.1111/j.1600-0757.2009.00316.x. PMID: 19878468; PMCID: PMC3070264.
  7. Olsen I, Preza D, Aas JA, Paster BJ. Cultivated and not-yet-cultivated bacteria in oral biofilms. Microb Ecol Hlth Dis 2009;21:65-71.
  8. Paster BJ, Olsen I, Aas JA, Dewhirst FE. The breadth of bacterial diversity in the human periodontal pocket and other oral sites. Periodontol 2000. 2006;42:80-7. Epub 2006/08/26. doi: 10.1111/j.1600-0757.2006.00174.x. PMID: 16930307.
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