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Items: 45

1.

Paenibacillus odorifer, the Predominant Paenibacillus Species Isolated from Milk in the United States, Demonstrates Genetic and Phenotypic Conservation of Psychrotolerance but Clade-Associated Differences in Nitrogen Metabolic Pathways.

Beno SM, Cheng RA, Orsi RH, Duncan DR, Guo X, Kovac J, Carroll LM, Martin NH, Wiedmann M.

mSphere. 2020 Jan 22;5(1). pii: e00739-19. doi: 10.1128/mSphere.00739-19.

2.

Evolution of Listeria monocytogenes in a food-processing plant involves limited single nucleotide substitutions, but considerable diversification by gain and loss of prophages.

Harrand AS, Jagadeesan B, Baert L, Wiedmann M, Orsi RH.

Appl Environ Microbiol. 2020 Jan 3. pii: AEM.02493-19. doi: 10.1128/AEM.02493-19. [Epub ahead of print]

3.

Assessment and Comparison of Molecular Subtyping and Characterization Methods for Salmonella.

Tang S, Orsi RH, Luo H, Ge C, Zhang G, Baker RC, Stevenson A, Wiedmann M.

Front Microbiol. 2019 Jul 12;10:1591. doi: 10.3389/fmicb.2019.01591. eCollection 2019. Review.

4.

Systematic review of the Listeria monocytogenes σB regulon supports a role in stress response, virulence and metabolism.

Liu Y, Orsi RH, Gaballa A, Wiedmann M, Boor KJ, Guariglia-Oropeza V.

Future Microbiol. 2019 Jun;14:801-828. doi: 10.2217/fmb-2019-0072. Epub 2019 Jul 4.

5.

Corrigendum: Genes Associated With Psychrotolerant Bacillus cereus Group Isolates.

Beno SM, Orsi RH, Cheng RA, Kent DJ, Kovac J, Duncan DR, Martin NH, Wiedmann M.

Front Microbiol. 2019 Jun 12;10:1323. doi: 10.3389/fmicb.2019.01323. eCollection 2019.

6.

Serotype-specific evolutionary patterns of antimicrobial-resistant Salmonella enterica.

Liao J, Orsi RH, Carroll LM, Kovac J, Ou H, Zhang H, Wiedmann M.

BMC Evol Biol. 2019 Jun 21;19(1):132. doi: 10.1186/s12862-019-1457-5.

7.

Comparative Analysis of Tools and Approaches for Source Tracking Listeria monocytogenes in a Food Facility Using Whole-Genome Sequence Data.

Jagadeesan B, Baert L, Wiedmann M, Orsi RH.

Front Microbiol. 2019 May 9;10:947. doi: 10.3389/fmicb.2019.00947. eCollection 2019.

8.

A century of gray: A genomic locus found in 2 distinct Pseudomonas spp. is associated with historical and contemporary color defects in dairy products worldwide.

Reichler SJ, Martin NH, Evanowski RL, Kovac J, Wiedmann M, Orsi RH.

J Dairy Sci. 2019 Jul;102(7):5979-6000. doi: 10.3168/jds.2018-16192. Epub 2019 May 23.

9.

Genes Associated With Psychrotolerant Bacillus cereus Group Isolates.

Beno SM, Orsi RH, Cheng RA, Kent DJ, Kovac J, Duncan DR, Martin NH, Wiedmann M.

Front Microbiol. 2019 Mar 29;10:662. doi: 10.3389/fmicb.2019.00662. eCollection 2019. Erratum in: Front Microbiol. 2019 Jun 12;10:1323.

10.

The Listeria monocytogenes Bile Stimulon under Acidic Conditions Is Characterized by Strain-Specific Patterns and the Upregulation of Motility, Cell Wall Modification Functions, and the PrfA Regulon.

Guariglia-Oropeza V, Orsi RH, Guldimann C, Wiedmann M, Boor KJ.

Front Microbiol. 2018 Feb 6;9:120. doi: 10.3389/fmicb.2018.00120. eCollection 2018.

11.

Home Alone: Elimination of All but One Alternative Sigma Factor in Listeria monocytogenes Allows Prediction of New Roles for σB.

Liu Y, Orsi RH, Boor KJ, Wiedmann M, Guariglia-Oropeza V.

Front Microbiol. 2017 Oct 11;8:1910. doi: 10.3389/fmicb.2017.01910. eCollection 2017.

12.

Characteristics and distribution of Listeria spp., including Listeria species newly described since 2009.

Orsi RH, Wiedmann M.

Appl Microbiol Biotechnol. 2016 Jun;100(12):5273-87. doi: 10.1007/s00253-016-7552-2. Epub 2016 Apr 29. Review.

13.

An advanced bioinformatics approach for analyzing RNA-seq data reveals sigma H-dependent regulation of competence genes in Listeria monocytogenes.

Liu Y, Orsi RH, Boor KJ, Wiedmann M, Guariglia-Oropeza V.

BMC Genomics. 2016 Feb 16;17:115. doi: 10.1186/s12864-016-2432-9.

14.

Prevalence and distribution of Listeria monocytogenes inlA alleles prone to phase variation and inlA alleles with premature stop codon mutations among human, food, animal, and environmental isolates.

Manuel CS, Van Stelten A, Wiedmann M, Nightingale KK, Orsi RH.

Appl Environ Microbiol. 2015 Dec;81(24):8339-45. doi: 10.1128/AEM.02752-15. Epub 2015 Sep 25.

15.

Transcriptomic Analysis of the Adaptation of Listeria monocytogenes to Growth on Vacuum-Packed Cold Smoked Salmon.

Tang S, Orsi RH, den Bakker HC, Wiedmann M, Boor KJ, Bergholz TM.

Appl Environ Microbiol. 2015 Oct;81(19):6812-24. doi: 10.1128/AEM.01752-15. Epub 2015 Jul 24.

16.

The Listeria monocytogenes strain 10403S BioCyc database.

Orsi RH, Bergholz TM, Wiedmann M, Boor KJ.

Database (Oxford). 2015 Mar 28;2015. pii: bav027. doi: 10.1093/database/bav027. Print 2015.

17.

Phosphotransferase system-dependent extracellular growth of listeria monocytogenes is regulated by alternative sigma factors σL and σH.

Wang S, Orsi RH, Tang S, Zhang W, Wiedmann M, Boor KJ.

Appl Environ Microbiol. 2014 Dec;80(24):7673-82. doi: 10.1128/AEM.02530-14. Epub 2014 Oct 3.

18.

Contributions of σ(B) and PrfA to Listeria monocytogenes salt stress under food relevant conditions.

Ribeiro VB, Mujahid S, Orsi RH, Bergholz TM, Wiedmann M, Boor KJ, Destro MT.

Int J Food Microbiol. 2014 May 2;177:98-108. doi: 10.1016/j.ijfoodmicro.2014.02.018. Epub 2014 Mar 3.

PMID:
24631633
19.

Regulatory network features in Listeria monocytogenes-changing the way we talk.

Guariglia-Oropeza V, Orsi RH, Yu H, Boor KJ, Wiedmann M, Guldimann C.

Front Cell Infect Microbiol. 2014 Feb 14;4:14. doi: 10.3389/fcimb.2014.00014. eCollection 2014. Review.

20.

Genomic comparison of sporeforming bacilli isolated from milk.

Moreno Switt AI, Andrus AD, Ranieri ML, Orsi RH, Ivy R, den Bakker HC, Martin NH, Wiedmann M, Boor KJ.

BMC Genomics. 2014 Jan 14;15:26. doi: 10.1186/1471-2164-15-26.

21.

σ(B) plays a limited role in the ability of Listeria monocytogenes strain F2365 to survive oxidative and acid stress and in its virulence characteristics.

Oliver HF, Orsi RH, Wiedmann M, Boor KJ.

J Food Prot. 2013 Dec;76(12):2079-86. doi: 10.4315/0362-028X.JFP-12-542.

PMID:
24290686
22.

Genomic characterization provides new insight into Salmonella phage diversity.

Moreno Switt AI, Orsi RH, den Bakker HC, Vongkamjan K, Altier C, Wiedmann M.

BMC Genomics. 2013 Jul 17;14:481. doi: 10.1186/1471-2164-14-481.

23.

Protein level identification of the Listeria monocytogenes sigma H, sigma L, and sigma C regulons.

Mujahid S, Orsi RH, Boor KJ, Wiedmann M.

BMC Microbiol. 2013 Jul 10;13:156. doi: 10.1186/1471-2180-13-156.

24.

Refinement of the Listeria monocytogenes σB regulon through quantitative proteomic analysis.

Mujahid S, Orsi RH, Vangay P, Boor KJ, Wiedmann M.

Microbiology. 2013 Jun;159(Pt 6):1109-1119. doi: 10.1099/mic.0.066001-0. Epub 2013 Apr 25.

25.

Recombination and positive selection contributed to the evolution of Listeria monocytogenes lineages III and IV, two distinct and well supported uncommon L. monocytogenes lineages.

Tsai YH, Maron SB, McGann P, Nightingale KK, Wiedmann M, Orsi RH.

Infect Genet Evol. 2011 Dec;11(8):1881-90. doi: 10.1016/j.meegid.2011.08.001. Epub 2011 Aug 11.

26.

Comparative genomics of the bacterial genus Listeria: Genome evolution is characterized by limited gene acquisition and limited gene loss.

den Bakker HC, Cummings CA, Ferreira V, Vatta P, Orsi RH, Degoricija L, Barker M, Petrauskene O, Furtado MR, Wiedmann M.

BMC Genomics. 2010 Dec 2;11:688. doi: 10.1186/1471-2164-11-688.

27.

Transcriptomic and phenotypic analyses identify coregulated, overlapping regulons among PrfA, CtsR, HrcA, and the alternative sigma factors sigmaB, sigmaC, sigmaH, and sigmaL in Listeria monocytogenes.

Chaturongakul S, Raengpradub S, Palmer ME, Bergholz TM, Orsi RH, Hu Y, Ollinger J, Wiedmann M, Boor KJ.

Appl Environ Microbiol. 2011 Jan;77(1):187-200. doi: 10.1128/AEM.00952-10. Epub 2010 Oct 29.

28.

Listeria monocytogenes lineages: Genomics, evolution, ecology, and phenotypic characteristics.

Orsi RH, den Bakker HC, Wiedmann M.

Int J Med Microbiol. 2011 Feb;301(2):79-96. doi: 10.1016/j.ijmm.2010.05.002. Epub 2010 Aug 13. Review.

PMID:
20708964
29.

A population genetics-based and phylogenetic approach to understanding the evolution of virulence in the genus Listeria.

den Bakker HC, Bundrant BN, Fortes ED, Orsi RH, Wiedmann M.

Appl Environ Microbiol. 2010 Sep;76(18):6085-100. doi: 10.1128/AEM.00447-10. Epub 2010 Jul 23.

31.

Listeria monocytogenes {sigma}B has a small core regulon and a conserved role in virulence but makes differential contributions to stress tolerance across a diverse collection of strains.

Oliver HF, Orsi RH, Wiedmann M, Boor KJ.

Appl Environ Microbiol. 2010 Jul;76(13):4216-32. doi: 10.1128/AEM.00031-10. Epub 2010 May 7.

32.

Homopolymeric tracts represent a general regulatory mechanism in prokaryotes.

Orsi RH, Bowen BM, Wiedmann M.

BMC Genomics. 2010 Feb 9;11:102. doi: 10.1186/1471-2164-11-102.

33.

Deep RNA sequencing of L. monocytogenes reveals overlapping and extensive stationary phase and sigma B-dependent transcriptomes, including multiple highly transcribed noncoding RNAs.

Oliver HF, Orsi RH, Ponnala L, Keich U, Wang W, Sun Q, Cartinhour SW, Filiatrault MJ, Wiedmann M, Boor KJ.

BMC Genomics. 2009 Dec 30;10:641. doi: 10.1186/1471-2164-10-641.

34.

Genome wide evolutionary analyses reveal serotype specific patterns of positive selection in selected Salmonella serotypes.

Soyer Y, Orsi RH, Rodriguez-Rivera LD, Sun Q, Wiedmann M.

BMC Evol Biol. 2009 Nov 14;9:264. doi: 10.1186/1471-2148-9-264.

35.

Listeria marthii sp. nov., isolated from the natural environment, Finger Lakes National Forest.

Graves LM, Helsel LO, Steigerwalt AG, Morey RE, Daneshvar MI, Roof SE, Orsi RH, Fortes ED, Milillo SR, den Bakker HC, Wiedmann M, Swaminathan B, Sauders BD.

Int J Syst Evol Microbiol. 2010 Jun;60(Pt 6):1280-8. doi: 10.1099/ijs.0.014118-0. Epub 2009 Aug 10.

PMID:
19667380
36.

Short-term genome evolution of Listeria monocytogenes in a non-controlled environment.

Orsi RH, Borowsky ML, Lauer P, Young SK, Nusbaum C, Galagan JE, Birren BW, Ivy RA, Sun Q, Graves LM, Swaminathan B, Wiedmann M.

BMC Genomics. 2008 Nov 13;9:539. doi: 10.1186/1471-2164-9-539.

37.
38.

Lineage specific recombination and positive selection in coding and intragenic regions contributed to evolution of the main Listeria monocytogenes virulence gene cluster.

Orsi RH, Maron SB, Nightingale KK, Jerome M, Tabor H, Wiedmann M.

Infect Genet Evol. 2008 Sep;8(5):566-76. doi: 10.1016/j.meegid.2008.04.006. Epub 2008 Apr 20.

39.

Culture independent analysis of ileal mucosa reveals a selective increase in invasive Escherichia coli of novel phylogeny relative to depletion of Clostridiales in Crohn's disease involving the ileum.

Baumgart M, Dogan B, Rishniw M, Weitzman G, Bosworth B, Yantiss R, Orsi RH, Wiedmann M, McDonough P, Kim SG, Berg D, Schukken Y, Scherl E, Simpson KW.

ISME J. 2007 Sep;1(5):403-18. Epub 2007 Jul 12.

PMID:
18043660
40.

Transcriptomic and phenotypic analyses suggest a network between the transcriptional regulators HrcA and sigmaB in Listeria monocytogenes.

Hu Y, Oliver HF, Raengpradub S, Palmer ME, Orsi RH, Wiedmann M, Boor KJ.

Appl Environ Microbiol. 2007 Dec;73(24):7981-91. Epub 2007 Oct 26.

41.

Phenotypic and transcriptomic analyses demonstrate interactions between the transcriptional regulators CtsR and Sigma B in Listeria monocytogenes.

Hu Y, Raengpradub S, Schwab U, Loss C, Orsi RH, Wiedmann M, Boor KJ.

Appl Environ Microbiol. 2007 Dec;73(24):7967-80. Epub 2007 Oct 12.

42.

Identification of Escherichia coli from groups A, B1, B2 and D in drinking water in Brazil.

Orsi RH, Stoppe NC, Sato MI, Ottoboni LM.

J Water Health. 2007 Jun;5(2):323-7.

PMID:
17674580
43.

Recombination and positive selection contribute to evolution of Listeria monocytogenes inlA.

Orsi RH, Ripoll DR, Yeung M, Nightingale KK, Wiedmann M.

Microbiology. 2007 Aug;153(Pt 8):2666-2678. doi: 10.1099/mic.0.2007/007310-0.

PMID:
17660431
44.

Genetic variability and pathogenicity potential of Escherichia coli isolated from recreational water reservoirs.

Orsi RH, Stoppe NC, Sato MI, Gomes TA, Prado PI, Manfio GP, Ottoboni LM.

Res Microbiol. 2007 Jun;158(5):420-7. Epub 2007 Mar 15.

PMID:
17467958
45.

Listeria monocytogenes internalins are highly diverse and evolved by recombination and positive selection.

Tsai YH, Orsi RH, Nightingale KK, Wiedmann M.

Infect Genet Evol. 2006 Sep;6(5):378-89. Epub 2006 Feb 10.

PMID:
16473049

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