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Results: 1 to 20 of 50

1.

Methanogenic burst in the end-Permian carbon cycle.

Rothman DH, Fournier GP, French KL, Alm EJ, Boyle EA, Cao C, Summons RE.

Proc Natl Acad Sci U S A. 2014 Apr 15;111(15):5462-7. doi: 10.1073/pnas.1318106111. Epub 2014 Mar 31.

PMID:
24706773
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Probiotic microbes sustain youthful serum testosterone levels and testicular size in aging mice.

Poutahidis T, Springer A, Levkovich T, Qi P, Varian BJ, Lakritz JR, Ibrahim YM, Chatzigiagkos A, Alm EJ, Erdman SE.

PLoS One. 2014 Jan 2;9(1):e84877. doi: 10.1371/journal.pone.0084877. eCollection 2014.

PMID:
24392159
[PubMed - in process]
Free PMC Article
3.

Microbial symbionts accelerate wound healing via the neuropeptide hormone oxytocin.

Poutahidis T, Kearney SM, Levkovich T, Qi P, Varian BJ, Lakritz JR, Ibrahim YM, Chatzigiagkos A, Alm EJ, Erdman SE.

PLoS One. 2013 Oct 30;8(10):e78898. doi: 10.1371/journal.pone.0078898. eCollection 2013.

PMID:
24205344
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Distribution-based clustering: using ecology to refine the operational taxonomic unit.

Preheim SP, Perrotta AR, Martin-Platero AM, Gupta A, Alm EJ.

Appl Environ Microbiol. 2013 Nov;79(21):6593-603. doi: 10.1128/AEM.00342-13. Epub 2013 Aug 23.

PMID:
23974136
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Microbial reprogramming inhibits Western diet-associated obesity.

Poutahidis T, Kleinewietfeld M, Smillie C, Levkovich T, Perrotta A, Bhela S, Varian BJ, Ibrahim YM, Lakritz JR, Kearney SM, Chatzigiagkos A, Hafler DA, Alm EJ, Erdman SE.

PLoS One. 2013 Jul 10;8(7):e68596. doi: 10.1371/journal.pone.0068596. Print 2013.

PMID:
23874682
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Sympatric speciation: when is it possible in bacteria?

Friedman J, Alm EJ, Shapiro BJ.

PLoS One. 2013;8(1):e53539. doi: 10.1371/journal.pone.0053539. Epub 2013 Jan 17.

PMID:
23349716
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Probiotic bacteria induce a 'glow of health'.

Levkovich T, Poutahidis T, Smillie C, Varian BJ, Ibrahim YM, Lakritz JR, Alm EJ, Erdman SE.

PLoS One. 2013;8(1):e53867. doi: 10.1371/journal.pone.0053867. Epub 2013 Jan 16.

PMID:
23342023
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Horizontal gene transfer and the evolution of bacterial and archaeal population structure.

Polz MF, Alm EJ, Hanage WP.

Trends Genet. 2013 Mar;29(3):170-5. doi: 10.1016/j.tig.2012.12.006. Epub 2013 Jan 15. Review.

PMID:
23332119
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Reproducibility of Vibrionaceae population structure in coastal bacterioplankton.

Szabo G, Preheim SP, Kauffman KM, David LA, Shapiro J, Alm EJ, Polz MF.

ISME J. 2013 Mar;7(3):509-19. doi: 10.1038/ismej.2012.134. Epub 2012 Nov 22.

PMID:
23178668
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Inferring correlation networks from genomic survey data.

Friedman J, Alm EJ.

PLoS Comput Biol. 2012;8(9):e1002687. doi: 10.1371/journal.pcbi.1002687. Epub 2012 Sep 20.

PMID:
23028285
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Shape and evolution of the fundamental niche in marine Vibrio.

Materna AC, Friedman J, Bauer C, David C, Chen S, Huang IB, Gillens A, Clarke SA, Polz MF, Alm EJ.

ISME J. 2012 Dec;6(12):2168-77. doi: 10.1038/ismej.2012.65. Epub 2012 Jul 26.

PMID:
22832347
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Non-invasive mapping of the gastrointestinal microbiota identifies children with inflammatory bowel disease.

Papa E, Docktor M, Smillie C, Weber S, Preheim SP, Gevers D, Giannoukos G, Ciulla D, Tabbaa D, Ingram J, Schauer DB, Ward DV, Korzenik JR, Xavier RJ, Bousvaros A, Alm EJ.

PLoS One. 2012;7(6):e39242. doi: 10.1371/journal.pone.0039242. Epub 2012 Jun 29.

PMID:
22768065
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Efficient algorithms for the reconciliation problem with gene duplication, horizontal transfer and loss.

Bansal MS, Alm EJ, Kellis M.

Bioinformatics. 2012 Jun 15;28(12):i283-91. doi: 10.1093/bioinformatics/bts225.

PMID:
22689773
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Population genomics of early events in the ecological differentiation of bacteria.

Shapiro BJ, Friedman J, Cordero OX, Preheim SP, Timberlake SC, Szabó G, Polz MF, Alm EJ.

Science. 2012 Apr 6;336(6077):48-51. doi: 10.1126/science.1218198.

PMID:
22491847
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

DNA phosphorothioation is widespread and quantized in bacterial genomes.

Wang L, Chen S, Vergin KL, Giovannoni SJ, Chan SW, DeMott MS, Taghizadeh K, Cordero OX, Cutler M, Timberlake S, Alm EJ, Polz MF, Pinhassi J, Deng Z, Dedon PC.

Proc Natl Acad Sci U S A. 2011 Feb 15;108(7):2963-8. doi: 10.1073/pnas.1017261108. Epub 2011 Feb 1.

PMID:
21285367
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Local gene regulation details a recognition code within the LacI transcriptional factor family.

Camas FM, Alm EJ, Poyatos JF.

PLoS Comput Biol. 2010 Nov 11;6(11):e1000989. doi: 10.1371/journal.pcbi.1000989.

PMID:
21085639
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Unlocking short read sequencing for metagenomics.

Rodrigue S, Materna AC, Timberlake SC, Blackburn MC, Malmstrom RR, Alm EJ, Chisholm SW.

PLoS One. 2010 Jul 28;5(7):e11840. doi: 10.1371/journal.pone.0011840.

PMID:
20676378
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Global transcriptional, physiological, and metabolite analyses of the responses of Desulfovibrio vulgaris hildenborough to salt adaptation.

He Z, Zhou A, Baidoo E, He Q, Joachimiak MP, Benke P, Phan R, Mukhopadhyay A, Hemme CL, Huang K, Alm EJ, Fields MW, Wall J, Stahl D, Hazen TC, Keasling JD, Arkin AP, Zhou J.

Appl Environ Microbiol. 2010 Mar;76(5):1574-86. doi: 10.1128/AEM.02141-09. Epub 2009 Dec 28.

PMID:
20038696
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

MicrobesOnline: an integrated portal for comparative and functional genomics.

Dehal PS, Joachimiak MP, Price MN, Bates JT, Baumohl JK, Chivian D, Friedland GD, Huang KH, Keller K, Novichkov PS, Dubchak IL, Alm EJ, Arkin AP.

Nucleic Acids Res. 2010 Jan;38(Database issue):D396-400. doi: 10.1093/nar/gkp919. Epub 2009 Nov 11.

PMID:
19906701
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Cryptic lineages of the genus Escherichia.

Walk ST, Alm EW, Gordon DM, Ram JL, Toranzos GA, Tiedje JM, Whittam TS.

Appl Environ Microbiol. 2009 Oct;75(20):6534-44. doi: 10.1128/AEM.01262-09. Epub 2009 Aug 21.

PMID:
19700542
[PubMed - indexed for MEDLINE]
Free PMC Article

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