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Items: 1 to 50 of 90

1.

Toll-like receptor 2 and toll-like receptor 4 responses regulate neutrophil infiltration into the junctional epithelium and significantly contribute to the composition of the oral microbiota.

Chang AM, Liu Q, Hajjar AM, Greer A, McLean JS, Darveau RP.

J Periodontol. 2019 May 21. doi: 10.1002/JPER.18-0719. [Epub ahead of print]

PMID:
31111967
2.

Klebsiella and Providencia emerge as lone survivors following long-term starvation of oral microbiota.

Baker JL, Hendrickson EL, Tang X, Lux R, He X, Edlund A, McLean JS, Shi W.

Proc Natl Acad Sci U S A. 2019 Apr 23;116(17):8499-8504. doi: 10.1073/pnas.1820594116. Epub 2019 Apr 11.

3.

Saccharibacteria (TM7) in the Human Oral Microbiome.

Bor B, Bedree JK, Shi W, McLean JS, He X.

J Dent Res. 2019 May;98(5):500-509. doi: 10.1177/0022034519831671. Epub 2019 Mar 20.

PMID:
30894042
4.

Identification of PGN_1123 as the Gene Encoding Lipid A Deacylase, an Enzyme Required for Toll-Like Receptor 4 Evasion, in Porphyromonas gingivalis.

Jain S, Chang AM, Singh M, McLean JS, Coats SR, Kramer RW, Darveau RP.

J Bacteriol. 2019 May 8;201(11). pii: e00683-18. doi: 10.1128/JB.00683-18. Print 2019 Jun 1.

PMID:
30782639
5.

Uncovering complex microbiome activities via metatranscriptomics during 24 hours of oral biofilm assembly and maturation.

Edlund A, Yang Y, Yooseph S, He X, Shi W, McLean JS.

Microbiome. 2018 Dec 6;6(1):217. doi: 10.1186/s40168-018-0591-4.

6.

Rapid evolution of decreased host susceptibility drives a stable relationship between ultrasmall parasite TM7x and its bacterial host.

Bor B, McLean JS, Foster KR, Cen L, To TT, Serrato-Guillen A, Dewhirst FE, Shi W, He X.

Proc Natl Acad Sci U S A. 2018 Nov 27;115(48):12277-12282. doi: 10.1073/pnas.1810625115. Epub 2018 Nov 15.

7.

Quorum Sensing Modulates the Epibiotic-Parasitic Relationship Between Actinomyces odontolyticus and Its Saccharibacteria epibiont, a Nanosynbacter lyticus Strain, TM7x.

Bedree JK, Bor B, Cen L, Edlund A, Lux R, McLean JS, Shi W, He X.

Front Microbiol. 2018 Sep 24;9:2049. doi: 10.3389/fmicb.2018.02049. eCollection 2018.

8.

A Linear Plasmid-Like Prophage of Actinomyces odontolyticus Promotes Biofilm Assembly.

Shen M, Yang Y, Shen W, Cen L, McLean JS, Shi W, Le S, He X.

Appl Environ Microbiol. 2018 Aug 17;84(17). pii: e01263-18. doi: 10.1128/AEM.01263-18. Print 2018 Sep 1.

9.

Discovery of a Novel Periodontal Disease-Associated Bacterium.

Torres PJ, Thompson J, McLean JS, Kelley ST, Edlund A.

Microb Ecol. 2019 Jan;77(1):267-276. doi: 10.1007/s00248-018-1200-6. Epub 2018 Jun 2.

10.

Characterization of the Trehalose Utilization Operon in Streptococcus mutans Reveals that the TreR Transcriptional Regulator Is Involved in Stress Response Pathways and Toxin Production.

Baker JL, Lindsay EL, Faustoferri RC, To TT, Hendrickson EL, He X, Shi W, McLean JS, Quivey RG Jr.

J Bacteriol. 2018 May 24;200(12). pii: e00057-18. doi: 10.1128/JB.00057-18. Print 2018 Jun 15.

11.

Redox Sensing within the Genus Shewanella.

Harris HW, Sánchez-Andrea I, McLean JS, Salas EC, Tran W, El-Naggar MY, Nealson KH.

Front Microbiol. 2018 Jan 25;8:2568. doi: 10.3389/fmicb.2017.02568. eCollection 2017.

12.

Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules.

Edlund A, Garg N, Mohimani H, Gurevich A, He X, Shi W, Dorrestein PC, McLean JS.

mSystems. 2017 Jul 18;2(4). pii: e00058-17. doi: 10.1128/mSystems.00058-17. eCollection 2017 Jul-Aug.

13.

Arginine Improves pH Homeostasis via Metabolism and Microbiome Modulation.

Agnello M, Cen L, Tran NC, Shi W, McLean JS, He X.

J Dent Res. 2017 Jul;96(8):924-930. doi: 10.1177/0022034517707512. Epub 2017 May 9.

14.

Draft Genome Sequence of Tannerella forsythia Clinical Isolate 9610.

Hanson-Drury S, To TT, Liu Q, Vo AT, Kim M, Watling M, Bumgarner RS, McLean JS.

Genome Announc. 2017 Mar 23;5(12). pii: e00024-17. doi: 10.1128/genomeA.00024-17.

15.

Human Oral Buccal Microbiomes Are Associated with Farmworker Status and Azinphos-Methyl Agricultural Pesticide Exposure.

Stanaway IB, Wallace JC, Shojaie A, Griffith WC, Hong S, Wilder CS, Green FH, Tsai J, Knight M, Workman T, Vigoren EM, McLean JS, Thompson B, Faustman EM.

Appl Environ Microbiol. 2016 Dec 30;83(2). pii: e02149-16. doi: 10.1128/AEM.02149-16. Print 2017 Jan 15.

16.

Metagenome and Metatranscriptome Analyses Using Protein Family Profiles.

Zhong C, Edlund A, Yang Y, McLean JS, Yooseph S.

PLoS Comput Biol. 2016 Jul 11;12(7):e1004991. doi: 10.1371/journal.pcbi.1004991. eCollection 2016 Jul.

17.
18.

Draft Genome Sequence of Low-Passage Clinical Isolate Porphyromonas gingivalis MP4-504.

To TT, Liu Q, Watling M, Bumgarner RE, Darveau RP, McLean JS.

Genome Announc. 2016 Apr 7;4(2). pii: e00256-16. doi: 10.1128/genomeA.00256-16.

19.

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.

Edlund A, Liu Q, Watling M, To TT, Bumgarner RE, He X, Shi W, McLean JS.

Genome Announc. 2016 Feb 18;4(1). pii: e01684-15. doi: 10.1128/genomeA.01684-15.

20.

Draft Genome Sequence of Actinomyces odontolyticus subsp. actinosynbacter Strain XH001, the Basibiont of an Oral TM7 Epibiont.

McLean JS, Liu Q, Bor B, Bedree JK, Cen L, Watling M, To TT, Bumgarner RE, He X, Shi W.

Genome Announc. 2016 Feb 4;4(1). pii: e01685-15. doi: 10.1128/genomeA.01685-15.

21.

Corrigendum to "Cardio-metabolic risk factors and cortical thickness in a neurologically healthy male population: Results from the psychological, social and biological determinants of ill health (pSoBid) study" [Neuroimage Clin. 2 (2013) 646-57].

Krishnadas R, McLean J, Batty GD, Burns H, Deans KA, Ford I, McConnachie A, McGinty A, McLean JS, Millar K, Sattar N, Shiels PG, Velupillai YN, Packard CJ, Cavanagh J.

Neuroimage Clin. 2015 Jun 22;9:e1. doi: 10.1016/j.nicl.2015.06.004. eCollection 2015.

22.

Draft Genome Sequence of "Candidatus Bacteroides periocalifornicus," a New Member of the Bacteriodetes Phylum Found within the Oral Microbiome of Periodontitis Patients.

McLean JS, Liu Q, Thompson J, Edlund A, Kelley S.

Genome Announc. 2015 Dec 23;3(6). pii: e01485-15. doi: 10.1128/genomeA.01485-15.

23.
24.

Phenotypic and Physiological Characterization of the Epibiotic Interaction Between TM7x and Its Basibiont Actinomyces.

Bor B, Poweleit N, Bois JS, Cen L, Bedree JK, Zhou ZH, Gunsalus RP, Lux R, McLean JS, He X, Shi W.

Microb Ecol. 2016 Jan;71(1):243-55. doi: 10.1007/s00248-015-0711-7. Epub 2015 Nov 23.

25.

hybridSPAdes: an algorithm for hybrid assembly of short and long reads.

Antipov D, Korobeynikov A, McLean JS, Pevzner PA.

Bioinformatics. 2016 Apr 1;32(7):1009-15. doi: 10.1093/bioinformatics/btv688. Epub 2015 Nov 20.

26.

Precision-guided antimicrobial peptide as a targeted modulator of human microbial ecology.

Guo L, McLean JS, Yang Y, Eckert R, Kaplan CW, Kyme P, Sheikh O, Varnum B, Lux R, Shi W, He X.

Proc Natl Acad Sci U S A. 2015 Jun 16;112(24):7569-74. doi: 10.1073/pnas.1506207112. Epub 2015 Jun 1.

27.

Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism.

Edlund A, Yang Y, Yooseph S, Hall AP, Nguyen DD, Dorrestein PC, Nelson KE, He X, Lux R, Shi W, McLean JS.

ISME J. 2015 Dec;9(12):2605-19. doi: 10.1038/ismej.2015.72. Epub 2015 May 29.

28.

Single cell genomics of bacterial pathogens: outlook for infectious disease research.

McLean JS, Lasken RS.

Genome Med. 2014 Nov 20;6(11):108. doi: 10.1186/s13073-014-0108-0. eCollection 2014.

29.

Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle.

He X, McLean JS, Edlund A, Yooseph S, Hall AP, Liu SY, Dorrestein PC, Esquenazi E, Hunter RC, Cheng G, Nelson KE, Lux R, Shi W.

Proc Natl Acad Sci U S A. 2015 Jan 6;112(1):244-9. doi: 10.1073/pnas.1419038112. Epub 2014 Dec 22.

30.

Advancements toward a systems level understanding of the human oral microbiome.

McLean JS.

Front Cell Infect Microbiol. 2014 Jul 29;4:98. doi: 10.3389/fcimb.2014.00098. eCollection 2014. Review.

31.

Recent advances in genomic DNA sequencing of microbial species from single cells.

Lasken RS, McLean JS.

Nat Rev Genet. 2014 Sep;15(9):577-84. doi: 10.1038/nrg3785. Epub 2014 Aug 5. Review.

32.

An in vitro biofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome.

Edlund A, Yang Y, Hall AP, Guo L, Lux R, He X, Nelson KE, Nealson KH, Yooseph S, Shi W, McLean JS.

Microbiome. 2013 Oct 2;1(1):25. doi: 10.1186/2049-2618-1-25.

33.

The envirome and the connectome: exploring the structural noise in the human brain associated with socioeconomic deprivation.

Krishnadas R, Kim J, McLean J, Batty GD, McLean JS, Millar K, Packard CJ, Cavanagh J.

Front Hum Neurosci. 2013 Nov 12;7:722. doi: 10.3389/fnhum.2013.00722. eCollection 2013.

34.

Cardio-metabolic risk factors and cortical thickness in a neurologically healthy male population: Results from the psychological, social and biological determinants of ill health (pSoBid) study.

Krishnadas R, McLean J, Batty GD, Burns H, Deans KA, Ford I, McConnachie A, McGinty A, McLean JS, Millar K, Sattar N, Shiels PG, Velupillai YN, Packard CJ, Cavanagh J.

Neuroimage Clin. 2013 Apr 22;2:646-57. doi: 10.1016/j.nicl.2013.04.012. eCollection 2013. Erratum in: Neuroimage Clin. 2015;9:e1. Batty, David G [Corrected to Batty, G David].

35.

Assembling single-cell genomes and mini-metagenomes from chimeric MDA products.

Nurk S, Bankevich A, Antipov D, Gurevich AA, Korobeynikov A, Lapidus A, Prjibelski AD, Pyshkin A, Sirotkin A, Sirotkin Y, Stepanauskas R, Clingenpeel SR, Woyke T, McLean JS, Lasken R, Tesler G, Alekseyev MA, Pevzner PA.

J Comput Biol. 2013 Oct;20(10):714-37. doi: 10.1089/cmb.2013.0084.

36.

The social structure of microbial community involved in colonization resistance.

He X, McLean JS, Guo L, Lux R, Shi W.

ISME J. 2014 Mar;8(3):564-74. doi: 10.1038/ismej.2013.172. Epub 2013 Oct 3. Erratum in: ISME J. 2014 Nov;8(11):2352.

37.

Socioeconomic deprivation and cortical morphology: psychological, social, and biological determinants of ill health study.

Krishnadas R, McLean J, Batty GD, Burns H, Deans KA, Ford I, McConnachie A, McLean JS, Millar K, Sattar N, Shiels PG, Tannahill C, Velupillai YN, Packard CJ, Cavanagh J.

Psychosom Med. 2013 Sep;75(7):616-23. doi: 10.1097/PSY.0b013e3182a151a7. Epub 2013 Aug 24.

PMID:
23975946
38.

Socioeconomic status and the cerebellar grey matter volume. Data from a well-characterised population sample.

Cavanagh J, Krishnadas R, Batty GD, Burns H, Deans KA, Ford I, McConnachie A, McGinty A, McLean JS, Millar K, Sattar N, Shiels PG, Tannahill C, Velupillai YN, Packard CJ, McLean J.

Cerebellum. 2013 Dec;12(6):882-91. doi: 10.1007/s12311-013-0497-4.

PMID:
23794136
39.

Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum.

McLean JS, Lombardo MJ, Badger JH, Edlund A, Novotny M, Yee-Greenbaum J, Vyahhi N, Hall AP, Yang Y, Dupont CL, Ziegler MG, Chitsaz H, Allen AE, Yooseph S, Tesler G, Pevzner PA, Friedman RM, Nealson KH, Venter JC, Lasken RS.

Proc Natl Acad Sci U S A. 2013 Jun 25;110(26):E2390-9. doi: 10.1073/pnas.1219809110. Epub 2013 Jun 10.

40.

Isolation and genome analysis of single virions using 'single virus genomics'.

Zeigler Allen L, Ishoey T, Novotny MA, McLean JS, Lasken RS, Williamson SJ.

J Vis Exp. 2013 May 26;(75):e3899. doi: 10.3791/3899.

41.

Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform.

McLean JS, Lombardo MJ, Ziegler MG, Novotny M, Yee-Greenbaum J, Badger JH, Tesler G, Nurk S, Lesin V, Brami D, Hall AP, Edlund A, Allen LZ, Durkin S, Reed S, Torriani F, Nealson KH, Pevzner PA, Friedman R, Venter JC, Lasken RS.

Genome Res. 2013 May;23(5):867-77. doi: 10.1101/gr.150433.112. Epub 2013 Apr 5.

42.

Personality, socio-economic status and inflammation: cross-sectional, population-based study.

Millar K, Lloyd SM, McLean JS, Batty GD, Burns H, Cavanagh J, Deans KA, Ford I, McConnachie A, McGinty A, Mõttus R, Packard CJ, Sattar N, Shiels PG, Velupillai YN, Tannahill C.

PLoS One. 2013;8(3):e58256. doi: 10.1371/journal.pone.0058256. Epub 2013 Mar 13.

43.

Soluble ST2 associates with diabetes but not established cardiovascular risk factors: a new inflammatory pathway of relevance to diabetes?

Miller AM, Purves D, McConnachie A, Asquith DL, Batty GD, Burns H, Cavanagh J, Ford I, McLean JS, Packard CJ, Shiels PG, Turner H, Velupillai YN, Deans KA, Welsh P, McInnes IB, Sattar N.

PLoS One. 2012;7(10):e47830. doi: 10.1371/journal.pone.0047830. Epub 2012 Oct 24.

44.

Fe(III) reduction and U(VI) immobilization by Paenibacillus sp. strain 300A, isolated from Hanford 300A subsurface sediments.

Ahmed B, Cao B, McLean JS, Ica T, Dohnalkova A, Istanbullu O, Paksoy A, Fredrickson JK, Beyenal H.

Appl Environ Microbiol. 2012 Nov;78(22):8001-9. doi: 10.1128/AEM.01844-12. Epub 2012 Sep 7.

45.

Early life socioeconomic status, chronic physiological stress and hippocampal N-acetyl aspartate concentrations.

McLean J, Krishnadas R, Batty GD, Burns H, Deans KA, Ford I, McConnachie A, McGinty A, McLean JS, Millar K, Sattar N, Shiels PG, Tannahill C, Velupillai YN, Packard CJ, Condon BR, Hadley DM, Cavanagh J.

Behav Brain Res. 2012 Dec 1;235(2):225-30. doi: 10.1016/j.bbr.2012.08.013. Epub 2012 Aug 17.

PMID:
22917526
46.

Interaction of personality traits with social deprivation in determining mental wellbeing and health behaviours.

Packard CJ, Cavanagh J, McLean JS, McConnachie A, Messow CM, Batty GD, Burns H, Deans KA, Sattar N, Shiels PG, Velupillai YN, Tannahill C, Millar K.

J Public Health (Oxf). 2012 Dec;34(4):615-24. doi: 10.1093/pubmed/fds030. Epub 2012 May 2.

PMID:
22553217
47.

Identifying low pH active and lactate-utilizing taxa within oral microbiome communities from healthy children using stable isotope probing techniques.

McLean JS, Fansler SJ, Majors PD, McAteer K, Allen LZ, Shirtliff ME, Lux R, Shi W.

PLoS One. 2012;7(3):e32219. doi: 10.1371/journal.pone.0032219. Epub 2012 Mar 5.

48.

Socio-economic status is associated with epigenetic differences in the pSoBid cohort.

McGuinness D, McGlynn LM, Johnson PC, MacIntyre A, Batty GD, Burns H, Cavanagh J, Deans KA, Ford I, McConnachie A, McGinty A, McLean JS, Millar K, Packard CJ, Sattar NA, Tannahill C, Velupillai YN, Shiels PG.

Int J Epidemiol. 2012 Feb;41(1):151-60. doi: 10.1093/ije/dyr215. Epub 2012 Jan 9.

PMID:
22253320
49.

Accelerated telomere attrition is associated with relative household income, diet and inflammation in the pSoBid cohort.

Shiels PG, McGlynn LM, MacIntyre A, Johnson PC, Batty GD, Burns H, Cavanagh J, Deans KA, Ford I, McConnachie A, McGinty A, McLean JS, Millar K, Sattar N, Tannahill C, Velupillai YN, Packard CJ.

PLoS One. 2011;6(7):e22521. doi: 10.1371/journal.pone.0022521. Epub 2011 Jul 27.

50.

Single virus genomics: a new tool for virus discovery.

Allen LZ, Ishoey T, Novotny MA, McLean JS, Lasken RS, Williamson SJ.

PLoS One. 2011 Mar 23;6(3):e17722. doi: 10.1371/journal.pone.0017722.

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