REFERENCES

 

HOMIMs were used extensively in ongoing 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 have been 56 peer-reviewed publications, 8 reviews describing HOMIM, and since 2009, 50 national and international abstracts or presentations. HOMIMs are no longer available, but HOMINGS, the new HOMIM, has been utilized by several investigators or teams (see testimonials). As of August 2017, there have been 17 peer-reviewed, HOMINGS-associated publications and 2 HOMINGS-associated reviews. In addition, there have been many abstracts/presentations (see below).

 

HOMINGS-associated, peer-reviewed publications

 

Eriksson L, Lif Holgerson P, Johansson I. Saliva and tooth biofilm bacterial microbiota in adolescents in a low caries community. Scientific Reports. 2017;7:5861. doi:10.1038/s41598-017-06221-z.

 

Belstrøm D, Sembler-Møller ML, Grande MA, Kirkby N, Cotton SL, Paster BJ, Twetman, Holmstrup P. Impact of oral hygiene discontinuation on supragingival and salivary microbiomes. JDR Clin Translational Res CTR-17-OA-0021.R2.

 

Belstrøm D, Sembler-Møller ML, Grande MA, Kirkby N, Cotton SL, Paster BJ, Holmstrup P. Microbial profile comparisons of saliva, pooled and site-specific subgingival samples in periodontitis patients. PlosOne 2017; 12:e0182992

 

Sanz-Martin I, Doolittle-Hall J, Teles RP, Patel M, Belibasakis GN, Hämmerle CH, Jung RE, Teles FRF. Exploring the microbiome of healthy and diseased peri-implant sites using Illumina Sequencing. J. Clin Periodont 2017. DOI: 10.1111/jcpe.12788

 

Richards VP, Alvarez AJ, Luce AR, Bedenbaugh M, Mitchell ML, Burne RA, Nascimento MM. Microbiomes of Site-Specific Dental Plaques from Children with Different Caries Status. Infect Immun. 2017;85: pii: e00106-17.

 

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, DOI: 10.1080/20002297.2017.1355207

 

Belstrøm D, Holmstrup P, Fiehn N-E, Kirkby N, Kokaras A, Paster BJ, Bardow A. Salivary microbiota in individuals with different levels of caries experience. J Oral Microbiol. 2017,9:. Doi:  10.1080/20002297.

 

Mougeot J-LC, Stevens CB, Paster BJ, Brennan MT, Lockhart PB, Mougeot FB. Porphyromonas gingivalis is the most abundant species detected in coronary and femoral arteries. J Oral Microbiol. 2017. 9: doi: 10.1080/20002297.2017.1281562

 

Timby N, Domellöf M., Holgerson PL, West CE, Lönnerdal B, Hernell O, Johansson I. Oral Microbiota in Infants Fed a Formula Supplemented with Bovine Milk Fat Globule Membranes - A Randomized Controlled Trial. PLoS ONE 2017; 12: e0169831. http://doi.org/10.1371/journal.pone.0169831

 

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:e0166176. doi:10.1371/journal.pone.0166176.

 

Mougeot J-LC, Stevens CB, Cotton SL, Morton DS, Krishnan K, Brennan MT, Lockhart PB, Paster BJ, Mougeot FB. Concordance of HOMIM and HOMINGS technologies in the microbiome analysis of clinical samples. J Oral Microbiol 2016. 8: 30379

 

Belstrøm D, Holmstrup P, Fiehn N-E, Paster BJ. Comparative analysis of bacterial profiles in unstimulated and stimulated saliva samples. J Oral Microbiol. 2016. 8: 30112. doi: 10.3402/jom.v8.30112.

 

Belstrøm D, Holmstrup P, Fiehn N-E, Rosing K, Bardow A, Paster BJ, Lynge Pedersen AM. Bacterial composition in whole saliva from patients with severe hyposalivation–A case-control study. Oral Diseases 2016. Jan 29. [Epub ahead of print]

 

Belstrøm D, Holmstrup P, Bardow A, Kokaras A, Fiehn N-K, Paster BJ. Temporal stability of the salivary microbiota in oral health. PlosOne 2016; Jan 22;11:e0147472.

 

Belstrøm D, Paster BJ, Fiehn N-E,  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. [Featured article-January 2016]

 

Rudney JD, Jagtap PD, Reilly CS, Chen R, Markowski TW, Higgins L, Johnson JE, Griffin TJ. 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.

 

Gomes BP, Berber VB, Kokaras AS, Chen T, Paster BJ. Microbiomes of endodontic-periodontal lesions before and after chemomechanical preparation. J Endod 2015. doi: 10.1016/j.joen.2015.08.022. [Epub ahead of print] PMID:26521147

 

HOMINGS-associated reviews

 

Krishnan K, Chen T, Paster BJ. A practical guide to the oral microbiome and its relation to health and disease.  Oral Dis. 2017. 23:276-286. doi: 10.1111/odi.12509. PMID: 27219464

 

Duran-Pinedo AE, Frias-Lopez J. Beyond microbial community composition: functional activities of the oral microbiome in health and disease. Microbes Infect. 2015;17:505-16.

 

HOMINGS-associated abstracts/presentations

 

Teles F, Doolittle-Hall J, Paster B, Teles R, Frias-Lopez J. Metagenomic pipelines requiere optimization for oral microbiome studies. J Dent Res (AADR) 2016;95:#0187.

 

Tanner ACR, Kressirer CA, Faller LL, Golden AP,Lake KL,. Cotton SL, Paster BJ, Tavares MA. Microbiota of Progressing Caries in Children. J Dent Res (AADR) 2016;95:#0711.

 

Mougeot J-C, Craig S, Noll J, Murdoch C, Morton D, Kokaras A, Brennan M, Thornhill M, Lockhart P, Paster B, Mougeot F. Oral Microbiome Analysis of Aortic and Femoral Arteries. J Dent Res (AADR) 2016;95:#0717.

 

Riberio AA, Azcarate-Peril MA, Cadenas MB, Butz N, Paster BJ, Chen T, Arnaold R. Oral Microbiome: Its Relation To Occlusal Surface’s Diagnosis and Diet. J Dent Res (AADR) 2016;95: #921

 

Richards V, Alvarez A, Luce A, Perry S, Huang H, Shaddox L, Burne R, Nascimento M. The microbiome of site-specific plaque of children with different caries-status. J Dent Res (AADR) 2016;95:#0922.

 

Li Y, Herman NG, Wang Z, So PT, Chen Z, Cotton S, Kokaras AS, Paster B, Moursi AM.  Effect of Intensive Fluoride Varnish Treatment on Oral Microbiota of Children with ECC. J Dent Res (IADR) 2015;94:#228.

 

Teles F, Patel M, Soares GM, Valverde L, Brito LC, Minguez M, Martin L, Cotton S, Krishnan K, McCafferty J, Paster B, Teles RP. Validation of Next Generation Sequencing Approaches for Oral Microbiome Studies. J Dent Res (IADR) 2015;94:#447.

 

Brito LC, Patel M, Sette-Dias A, Magalhaes PP, Farias L, Moss K, Cotton S, Krishnan K, McCafferty J, Paster B, Ribeiro-Sobrinho A, Teles F. Exploring the Microbiomes of Different Types of Endodontic Infections. J Dent Res (IADR) 2015;94:#1180.

 

Schramm T, McKnight C, Brogden KA.  Detection of Oral Microorganisms on Disposable Clinic Coats Using HOMINGS.  J Dent Res (IADR) 2015;94:#1461.

 

Tanner A, Kressirer CA, De Armas V, Golden A, Lake K, O’Keefe A, Krishnan K, Cotton S, Tavares M, Paster B. Microbiota by HOMINGS and Caries and Obesity Measures in Children. J Dent Res (IADR) 2015;94:#2633.

 

Mougeot J-L C, Stevens CB, Brennan MT, Paster BJ, Mougeot FK. Analysis of Dental Plaque Microbiome: A Hierarchical Clustering Approach. J Dent Res (IADR) 2015;94:#2651.

 

Stevens C, Hanjra P, Cotton S, Krishnan K, Brennan MT, Lockhart PB, Paster B, Mougeot J-L C, Mougeot FK. Analysis of the Dental Plaque Microbiome: HOMINGS Versus HOMIM. J Dent Res (IADR) 2015;94:#2653.

 

Rudney JD, Chen R, Markowski TW, Higgins L, Johnson J, Jones RS, Jagtap P, Griffin TJ. Ongoing Metaproteomic Analysis of Sucrose Effects on Oral Microcosm Biofilms. J Dent Res (IADR) 2015;94:#4454.

 

Cotton SL, Klepac-Ceraj V, Krishnan K, McCafferty J, Chen T, Kokaras AS, Murphy CM, Toscano ML, Paster BJ. HOMINGS—Species-level Identification of High-throughput Sequencing Data. J Dent Res (IADR) 2014;93:#400.

 

Cotton SL, Klepac-Ceraj V, Murphy CM, Kokaras AS, Paster BJ. Species Level Determination of High-throughput Sequencing Data using HOMIM Probes. J Dent Res (AADR) 2013;92:#3828.

 

Background Publications

 

Dewhirst et al. The human oral microbiome. J Bacteriol 2010;192:5002-5017.


Aas et al. Defining the normal bacterial flora of the oral cavity. J Clin Microbiol 2005;43:5721-5732.


Paster et al. Bacterial diversity in human subgingival plaque. J Bacteriol 2001;183:3770-3783.

 

HOMIM-associated, peer-reviewed publications (56)

 

Palmer RJ, Shah N, Valm A, Paster BJ, Dewhirst FE, Inui T, Cisar, R.  Interbacterial adhesion networks within the early oral biofilm of single human hosts. Appl Environ Microbiol 2017; 83: AEM.00407-17. doi: 10.1128/AEM.00407-17.

 

Grauballe MB, Belstrøm D, Østergaard JA, Paster BJ, Schou S, Flyvbjerg A, Holmstrup P. Ligature-associated bacterial profiles are linked to type 2 diabetes mellitus in a rat model and influenced by antibody treatment against TNF-α or RAGE. Clin Exp Dent Res 2017; 3:25-31

 

ElSalhy M, Söderling E, Honkala E, Fontana M, Flannagan S, Kokaras A, Paster BJ, Varghese A, Honkala S. Salivary microbiota and caries occurrence in mutans streptococci-positive school children. Eur J Paediat Dent 2016; 17: 188-192

 

George N,  Flamiatos E,  Kawasaki K,  Kim N,  Carriere C,  Phan B,  Joseph R,  Strauss S,  Kohli R, Choi D,  Baumgartner JC,  Sedgley C,  Maier T, Machida CA. Oral microbiota species in acute apical endodontic abscesses. J Oral Microbiol 2016. 8: ISSN 2000-2297.

 

Heller D, Helmerhorst EJ, Gower AC, Siqueira WL, Paster BJ, Oppenheim FG. Molecular characterization of the microbial diversity in the early, in vivo-formed, dental biofilm. Appl Environ Microbiol 2016. Jan 8. pii: AEM.03984-15. [Epub ahead of print]. PMID: 26746720

 

Paes Batista da Silva A, Barros SP, Moss K, Preisser J, Marchesan JT, Ward M, Offenbacher S. Microbial Profiling in Experimentally-Induced Biofilm Overgrowth among Subjects with Various Periodontal Status. J Periodontol. 2015 Oct 2:1-15 [Epub ahead of print]

 

Marchesan J, Jiao Y, Schaff RA, Hao J, Morelli T, Kinney JS, Gerow E, Sheridan R, Rodrigues V, Paster BF, Inohara N, Giannobile WV. TLR4, NOD1 and NOD2 mediate immune recognition of putative newly-identified periodontal pathogens. Mol Oral Microbiol 2015;30: PMID: 26177212  doi: 10.1111/omi.12116.

 

Lif Holgerson P, Öhman C, Rönnlund A, Johansson I. Maturation of Oral Microbiota in Children with or without Dental Caries. PLoS One. 2015 May 28;10(5):e0128534. doi: 10.1371/journal.pone.0128534. eCollection 2015.

 

Seoudi N, Bergmeier LA, Drobniewski F, Paster B, Fortune F. The oral mucosal and salivary microbial community of Behçet's syndrome and recurrant aphthous stromatitis. J Oral Microbiol 2015; 7:27150.

 

Belstrøm D, Fiehn N-E, Nielsen CH, Klepac-Ceraj V, Paster BJ, Twetman S, Holmstrup P.  Differentiation of salivary bacterial profiles of subjects with periodontitis and dental caries. J Oral Microbiol 2015; 7:27429. Doi: 10:3402/jom.v7.27429. PMID 25854857

 

Ma C, Chen F, Zhang Y, Sun X, Tong P, Si Y, Zheng S. Comparison of Oral Microbial Profiles between Children with Severe Early Childhood Caries and Caries-Free Children Using the Human Oral Microbe Identification Microarray. PLoS One. 2015;10(3):e0122075.

 

Lin S-W, Freedman ND, Shi J, Gail MH, Yu G, Klepac-Ceraj V, Paster BJ, Dye BA, Wang G-Q, Wei W-Q, Fan J-H, Qiao Y-L, Dawsey SM, Abnet CC. Beta-diversity metrics of the upper digestive tract microbiome are associated with body mass index. Obesity 2015; 10.1002/oby.21020.

 

Moutsopoulos NM, Chalmers NI, Barb JJ, Abusleme L, Greenwell-Wild T, Dutzan N, Paster BJ, Munson PJ, Fine DH, Uzel G, Holland SM. Subgingival Microbial Communities in Leukocyte Adhesion Deficiency and Their Relationship with Local Immunopathology. PLoS Pathog 2015; 11: e1004698. doi:10.1371/journal.

 

Vogtmann E, Flores R, Yu G, Freedman ND, Shi J, Gail MH, Dye BA, Wang GQ, Klepac-Ceraj V, Paster BJ, Wei WQ, Guo HQ, Dawsey SM, Qiao YL, Abnet CC. Association between tobacco use and the upper gastrointestinal microbiome among Chinese men. Cancer Causes Control. 2015 Feb 21 [Epub ahead of print]. PMID: 25701246.

 

Elabdeen HR, Mustafa M, Hasturk H, Klepac-Ceraj V, Ali RW, Paster BJ, Van Dyke T, Bolstad AI. Subgingival microbial profiles of Sudanese patients with aggressive periodontitis. J Periodontal Res. 2014  doi: 10.1111/jre.12250. PMID: 25487558.

 

Yu G, Dye BA, Gail MH, Shi J, Klepac-Ceraj V, Paster BJ, Wang GQ, Wei WQ, Fan JH, Qiao YL, Dawsey SM, Freedman ND, Abnet CC. The association between the upper digestive tract microbiota by HOMIM and oral health in a population-based study in Linxian, China. BMC Public Health 2014;14:1110. PMID:25348940

 

Reilly C, Rasmussen K, Selberg T, Stevens J, Jones RS. Biofilm Community Diversity after Exposure to 0.4% Stannous Fluoride Gels. J Appl Microbiol 2014: doi: 10.1111/jam.12655 [Epub ahead of print] PMID: 25263195.

 

Romanos GE, Biltucci MT, Kokaras A, Paster BJ. Bacterial composition at the implant-abutment connection under loading in vivo. Clin Implant Dent Relat Res 2014 doi: 10.1111/cid.12270

 

Lourenço TGB, Heller D, da Silva-Boghossian CM, Cotton SL, Paster BJ, Colombo APV. Microbial signature profiles of periodontally healthy and diseased patients. J Clin Periodont 2014: doi: 10.1111/jcpe.12302. PMID:25139407.

 

Toiviainen A, Jalasvuori H, Lahti E, Gursoy U, Salminen S, Fontana M, Flannagan S, Eckert G, Kokaras A, Paster B, Söderling E. Impact of orally administered lozenges with Lactobacillus rhamnosus GG and Bifidobacterium animalis subsp.lactis BB-12 on the number of salivary mutans streptococci, amount of plaque, gingival inflammation and the oral microbiome in healthy adults. Clin Oral Inv 2014;18: PMID: 24638207.

 

Söderling E, ElSalhy M, Honkala E, Fontana M, Flannagan S, Eckert G, Kokaras A, Paster B, Tolvanen M, Honkala S. Effects of short-term xylitol gum chewing on the oral microbiome. Clin Oral Inv 2014;18:PMID:24663814.

 

Yu G, Gail MH, Shi J, Klepac-Ceraj V, Paster BJ, Dye BA, Wang GQ, Wei WQ, Fan JH, Qiao YL, Dawsey SM, Freedman ND, Abnet CC. Association between upper digestive tract microbiota and cancer-predisposing states in the esophagus and stomach. Cancer Epidemiol Biomarkers Prev. 2014: Epub ahead of print PMID: 24700175.

 

Belstrøm D, Holmstrup P, Nielsen CH, Kirkby N, Twetman S, Klepac-Ceraj V, Paster BJ, Fiehn N-E, Bacterial profiles of saliva in relation to diet, lifestyle factors and socioeconomic status. J Oral Microbiol 2014; doi:10.3402/jom.v6.23609. eCollection 2014.

 

Li Y, Saxena D, Chen Z, Liu G, Abrams W, Phelan J, Norman R, Fisch G, Corby P, Dewhirst F, Paster B, Kokaras A, Malamud D. HIV infection and microbial diversity in saliva. J Clin Microbiol 2014; PMID: 24523469.

 

Belstrøm D, Fiehn N-E, Nielsen CH., Holmstrup P, Kirkby N, Grønbæk M, Klepac-Ceraj V, Paster BJ, Twetman S. Altered bacterial profiles in saliva from adults with caries lesions: a case-cohort study. Caries Res 2014;41:104-112.

 

Belstrøm D, Fiehn N-E, Nielsen CH., Kirkby N, Twetman S, Klepac-Ceraj V, Paster BJ, Holmstrup P. Differences in bacterial saliva profile between periodontitis patients and a control cohort. J Clin Periodontol 2013; doi:10.1111/jcpe.12190.

 

Gonçalves P, Klepac-Ceraj V, Paster BJ, Aukhil I, Wallet S, Shaddox L. Correlation of Aggregatibacter actinomycetemcomitans detection with clinical/ immunoinflammatory profile of localized aggressive periodontitis using a 16S rRNA microarray method: a cross-sectional study. PLoS One 2013: 8:e85066.PMID: 24376864.

 

Aspiras MB, Barros SP, Moss KL, Barrow DA, Phillips ST, Mendoza L, de Jager M, Ward M, Offenbacher S. Clinical and subclinical effects of power brushing following experimental induction of biofilm overgrowth in subjects representing a spectrum of periodontal disease. J Clin Periodontol. 2013 Dec;40:1118-25. doi:10.1111/jcpe.12161. Epub.

 

Nascimento MM, Browngardt C, Xiaohui X, Klepac-Ceraj V, Paster BJ, Burne RA. The effect of arginine on oral biofilm communities. Mol Oral Microbiol. 2013 Nov 15. doi: 10.1111/mom.12044.

 

Torlakovic L, Paster BJ, Øgaard B, Olsen I. Changes of the supragingival microbiota surrounding brackets of upper central incisors during orthodontic treatment. Acta Odontologica Scandinavica 2013; 71:1547-1554.PMID:2418059.

 

Fine DH, Markowitz K, Fairlie K, Tischio-Bereski D, Ferrendiz J, Furgang D, Paster BJ, Dewhirst FE. A consortium of Aggregatibacter actinomycetemcomitans (Aa),Streptococcus parasanguinis and Filifactor alocis are present in sites prior to bone loss in a longitudinal study of localized aggressive periodontitis. J Clin Microbiol 2013; 51:2850-2861. PMID:23784124.

 

Alt-Holland A, Murphy CM, Powers A, Kublin CL, Jeong YN, DiMattia M, Pham L, Park A, Finkelman M, Lombard M, Hanley JB, Paster BJ, Kugel G. Comprehensive analysis of aerobic and anaerobic bacteria found on dental bib clips at hygiene clinic. Compendium Cont Ed Dent; 2013;34:S1-12 (in press).

 

Xin B, Luo A, Qin J, Paster BJ, Xu Y, Li Y, Yang D. Microbial diversity in the oral cavity of healthy Chinese Han children. Oral Dis; 2013; 19: 401-405. PMID: 23034082.

 

Holgerson PL, Vestman NR, Claesson R, Ohman C, Domellöf M, Tanner AC, Hernell O, Johansson I. Oral microbial profile discriminates breatfed from formula-fed infants. J Pediatr Gastroenterol Nutr. 2013. 56:127-36. PMID:22955450.

 

Ames N, Sulima P, Ngo T, Barb J, Munson PJ, Paster BJ, Hart TC. A characterization of the oral microbiome in allogeneic stem cell transplant patients. PloS One; 2012;7(10):e47628. PMID:23144704.

 

Rudney JD, Chen R, Lenton P, Li J, Li Y, Jones RS, Reilly C, Fok AS, Aparicio C. A reproducible oral microcosm biofilm model for testing dental materials. J Appl Microbiol 2012; 113:1540-53. PMID:22925110.

 

Shaddox LM, Huang H, Tong L, Hou W, Harrison PL, Aukhil I, Walker CB, Klepac-Ceraj, V, Paster BJ. Microbiological characterization in children with aggressive periodontitis. J Dent Res; 2012; 91:927-933. PMID:22863892.

 

Tanner ACR, Sonis AL, Lif Holgerson P, Starr JR, Nunez Y, Kressirer CA, Paster BJ, Johansson I. White spot lesion and gingivitis microbiota in orthodontic patients. J Dent Res; 2012; 91:853-858. PMID:22837552.

 

Dang AT, Cotton S, Sankaran-Walters S, Li C-S, Lee C-YM, Dandekar S, Paster BJ, George MD. Evidence of an increased pathogenic footprint in the lingual microbiome of HIV infected patients. BMC Microbiology; 2012;12:153.PMID:22838383.

 

Filkins LM, Hampton TH, Gifford AH, Gross MJ, Hogan DA, Sogin ML, Morrison HG, Paster BJ, O’Toole GA. The prevalence of streptococci and increased polymicrobial diversity associated with cystic fibrosis patient stability. J Bacteriol; 2012;194:4709-4717. PMID:22753064.

 

Luo A, Paster BJ, Xin B, Yang D. Microbial profiles in saliva from children with and without caries in mixed dentition. Oral Dis 2012;18:595-601. doi:10.1111/j.1601-0825.2012.01915.x. PMID:22458262.

 

Torlakovic L, Klepac-Ceraj V, Øgaard B, Cotton SL, Paster BJ, Olsen I. Microbial community succession on developing lesions on human enamel. J Oral Microbiol2012;4: doi: 10.3402/jom.v4i0.16125. PMID:22432048.

 

Colombo APV, Bennet S, Cotton SL, Goodson JM, Kent R, Haffajee AD, Socransky SS, Hasturk H, van Dyke TE, Dewhirst FE, Paster BJ. Impact of periodontal therapy on the subgingival microbiota of severe periodontitis: Comparison between good responders and “Refractory” subjects by the Human Oral Microbe Identification Microarray (HOMIM). J Periodontol 2012;83:1279-1287. PMID:22324467.

 

Sizova MV, Hohmann T, Hazen A, Paster BJ, Halem SR, Murphy CM, Panikov NS, Epstein SS. New approaches for isolation of previously uncultivated species. Appl Environ Microbiol 2012;78:194-203. PMID:22057871.

 

Farrell JJ, Zhang L, Zhou H, Chia D, Elashoff D, Akin D, Paster BJ, Joshipura K, Wong DT. Variations of oral microbiota are associated with pancreatic diseases including pancreatic cancer. GUT 2012;61:582-588. PMID:21994333.

 

Docktor MJ, Paster BJ, Abramowicz S, Ingram J, Wang YE, Correll M, Jiang H, Cotton SL, Kokaras AS, Bousvaros A. Alterations in diversity of the oral microbiome in pediatric inflammatory bowel disease. Inflammatory Bowel Dis2012;18:935–942. PMID:21987382.

 

Albandar JM, Khattab R, Monem F, Barbuto SM, Paster BJ. The subgingival microbiota of Papillon-Lefèvre Syndrome.  J Periodontol 2011;82:902-908. doi:10.1902/jop.2011.110450. PMID:22141356.

 

Duran-Pinedo AE, Paster B, Teles R, Frias-Lopez J. Correlation network analysis applied to complex biofilm communities. PloS One 2011;6(12):e28438. doi:10.1371/journal.pone.0028438. PMID:22163302.

 

Ahn JY, Yang LY, Paster BJ, Ganly I, Morris L, Pei ZH, Hayes RB. Oral microbiome profiles: 16S rRNA pyrosequencing and microarray assay comparison. PloS One2011;6(7):e22788. PMID:21829515.

 

Tanner ACR, Kent RL Jr, Lif Holgerson P, Hughes CV, Loo CY, Kanasi E, Chalmers NI, Johansson I. Microbiota of severe early childhood caries before and after therapy. J Dent Res 2011;90:1298-1305.

 

Lif Holgerson P, Harnevik L, Hernell O, Tanner ACR, Johansson I.  Mode of birth delivery affects oral microbiota in infants.  J  Dent Res 2011;90:1183-1188.

 

Olson et al. Use of 16S ribosomal RNA gene analyses to characterize the bacterial signature associated with poor oral health in West Virginia.  BMC Oral Health 2011;11:7.

 

Asikainen et al. Specified bacterial species in gingival crevicular fluid predict diversity of unattached subgingival microbiota. PloS One 2010;5(10):e13589.

 

Colombo et al.  Comparisons of subgingival microbial profiles of refractory periodontitis, severe periodontitis and periodontal health using the human oral microbe identification microarray.  J Periodontol 2009;80:1421-1432.

 

Preza et al. Microarray analysis of the microflora of root caries in elderly. Eur J Clin Microbiol Infect Dis 2009;28:509-517.

 

Preza et al. Diversity and site-specificity of the oral microflora in the elderly.  Eur J Clin Microbiol Infect Dis 2009;28:1033-1040.

 

HOMIM-associated reviews

 

Duran-Pinedo AE, Frias-Lopez J. Beyond microbial community composition: functional activities of the oral microbiome in health and disease. Microbes Infect. 2015;17:505-16.

 

Wang L, Ganly I. The oral microbiome and oral cancer. Clin Lab Med. 2014; 34:711-719.

 

Yoshizawa JM, Schafer CA, Schafer JJ, Farrell JJ, Paster BJ, Wong DT. Salivary biomarkers:  Toward future clinical and diagnostic utilities. Clin Microbiol Rev;2013; 26:781-791.

 

Teles R, Teles F, Frias-Lopez J, Paster B, Haffajee A.  Lessons learned and unlearned in periodontal microbiology. Periodontol 2000;2013;62:95-162.

 

Ahn J, Chen CY, Hayes, RB. Oral microbiome and oral and gastrointestinal cancer risk. Cancer Causes Control 2012;23:399–404.

 

Paster BJ, Dewhirst FE. Molecular microbial diagnosis. Periodontol 20002009;51:38-44.

 

Olsen el al. Cultivated and not-yet-cultivated bacteria in oral biofilms. Microb Ecol Hlth Dis 2009;21:65-71.

 

Paster et al. The breadth of bacterial diversity in the human periodontal pocket and other oral sites. Periodontol 2000 2006;42:80-87.