Oral Microbiome and Dental Caries

2019

Baker JL, Hendrickson EL, Tang X, Lux R, He X, Edlund A, McLean JS, Shi W. Klebsiella and Providencia emerge as lone survivors following long-term starvation of oral microbiota. Proc Natl Acad Sci U S A. 2019 Apr 11. pii: 201820594. doi: 10.1073/pnas.1820594116. [Epub ahead of print] PubMed PMID: 30975748.

Genome Accession No : PRJNA525688 Metagenome/Transcriptome Accession No : PRJNA525517

Sriharsha Grevich, Peggy Lee, Jeffrey McLean, Brian Leroux, Sarah Ringold, Kyle Hager, Mitchell Brittnacher, Hillary Hayden, Samuel Miller, Anne Stevens. Oral Microbial Profile in Juvenile Idiopathic Arthritis ARTHRITIS & RHEUMATOLOGY 69, 213-214

2018

Shen, M., Y. Yang, W. Shen, L. Cen, S. McLean, W. Shi, S. Le and X. He (2018). “A Linear Plasmid-Like Prophage of Actinomyces odontolyticus Promotes Biofilm Assembly.” Appl Environ Microbiol 84(17). GenBank Accession No : LLVT00000000 and MG941013

Edlund, A., Yang, Y., Yooseph, S., He, X., Shi, W. & McLean, J.S*. Uncovering complex microbiome activities via metatranscriptomics during 24 hours of oral biofilm assembly and maturation. Microbiome 6, 217 (2018) PMCID: PMC6284299 BioProject Accession No : PRJNA398963

Baker, J.L., Lindsay, E.L., Faustoferri, R.C., To, T.T., Hendrickson, E.L., He, X., Shi, W., McLean, J.S. & Quivey, R.G., Jr. Characterization of the trehalose utilization operon in Streptococcus mutans reveals that the TreR transcriptional regulator is involved in stress response pathways and toxin production. J Bacteriol (2018). J Bacteriol. 2018 Apr 9. pii: JB.00057-18. doi:10.1128/JB.00057-18. GEO Accession No : GSE110275

2017

Edlund A, Garg N, Mohimani H,Gurevich A, He X, Shi W, Dorrestein PC, McLean JS. 2017. Metabolic fingerprints from the human oral microbiome reveal a vast knowledge gap of secreted small peptidic molecules. mSystems 2:e00058-17. MassIVE Accession No : MSV000079158  and MSV000079151

M. Agnello, L. Cen, N.C. Tran, W.Shi, J.S. McLean*, X. He* Arginine Improves pH Homeostasis via Metabolism and Microbiome Modulation. Journal of Dental Research First published date: May-09-2017 10.1177/0022034517707512

Harris, H. W., I. Sanchez-Andrea, S. McLean, E. C. Salas, W. Tran, M. Y. El-Naggar and K. H. Nealson (2017). “Redox Sensing within the Genus Shewanella.” Front Microbiol 8: 2568.

Stanaway, I. B., J. C. Wallace, A. Shojaie, W. C. Griffith, S. Hong, C. S. Wilder, F. H. Green, J. Tsai, M. Knight, T. Workman, E. M. Vigoren, J. S. McLean, B. Thompson and E. M. Faustman (2017). “Human Oral Buccal Microbiomes Are Associated with Farmworker Status and Azinphos-Methyl Agricultural Pesticide Exposure.” Appl Environ Microbiol 83(2).

2016

Shi, B., T. Wu, J. McLean, A. Edlund, Y. Young, X. He, H. Lv, X. Zhou, W. Shi, H. Li and R. Lux (2016). “The Denture-Associated Oral Microbiome in Health and Stomatitis.” mSphere 1(6) BioProject Accession No : PRJNA292354

Zhong, C., A. Edlund, Y. Yang, J. S. McLean and S. Yooseph (2016). “Metagenome and Metatranscriptome Analyses Using Protein Family Profiles.” PLoS Comput Biol 12(7): e1004991

Wang, M., et al. …. McLean, J. … P. C. Dorrestein and N. Bandeira (2016). “Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking.” Nat Biotechnol 34(8): 828-837.

Edlund A, Q Liu, M Watling, TT To, RE Bumgarner, X He, W Shi, JS McLean* (2016) . High-quality draft genome sequence of low-pH-active Veillonella parvula strain SHI-1, isolated from human saliva within an in vitro oral biofilm model Genome Announcements 4 (1), e01684-15 GenBank Accession No : LOJO00000000

2015

Guo, L.#, J. S. McLean#, Y. Yang, R. Eckert, C. W. Kaplan, P. Kyme, O. Sheikh, B. Varnum, R. Lux, W. Shi and X. He (2015). “Precision-guided antimicrobial peptide as a targeted modulator of human microbial ecology.” Proceedings of the National Academy of Sciences. published ahead of print June 1, 2015, doi:10.1073/pnas.1506207112 Role: #Co-First Author. http://www.pnas.org/content/early/2015/05/27/1506207112.abstract 

16S rRNA fasta files doi/10.1111/j.1462-2920.2008.01608.x/abstract

Dmitry Antipov, Anton Korobeynikov, Jeffrey S. McLean, and Pavel A. Pevzner. HYBRIDSPADES: an algorithm for hybrid assembly of short and long reads. Bioinformatics first published online November 20, 2015 doi:10.1093/bioinformatics/btv688. 

Anna Edlund, Youngik Yang, Shibu Yooseph, Adam P. Hall, Don D. Nguyen, Pieter C. Dorrestein, Karen E. Nelson, Xuesong He, Renate Lux, Wenyuan Shi, Jeffrey S. McLean* Meta-Omics Uncover Temporal Regulation of Pathways Across Oral Microbiome Genera During in vitro Sugar Metabolism. (2015) International Society for Microbial Ecology Journal (ISME) http://www.nature.com/ismej/journal/vaop/ncurrent/full/ismej201572a.html 

BioProject Accession No : PRJNA264728

Guo L, McLean JS, Lux R, He X, Shi W. 2015. The well-coordinated linkage between acidogenicity and aciduricity via insoluble glucans on the surface of Streptococcus mutans. Scientific Reports 5: 18015.  http://dx.doi.org/10.1038/srep18015

2014

2013

2006-2011