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Select item 56891731.

Unraveling the evolution and coevolution of small regulatory RNAs and coding genes in Listeria

Franck Cerutti, Ludovic Mallet, Anaïs Painset, Claire Hoede, Annick Moisan, Christophe Bécavin, Mélodie Duval, Olivier Dussurget, Pascale Cossart, Christine Gaspin, Hélène Chiapello

BMC Genomics. 2017; 18: 882. Published online 2017 Nov 16. doi: 10.1186/s12864-017-4242-0

PMCID:: PMC5689173

Abstract Article PDF–2.8M

Select item 49138812.

The bacterial DnaA-trio replication origin element specifies ssDNA initiator binding

Tomas T. Richardson, Omar Harran, Heath Murray

Nature. Author manuscript; available in PMC 2016 Dec 8.

Published in final edited form as: Nature. 2016 Jun 8; 534(7607): 412–416. Published online 2016 Jun 8. doi: 10.1038/nature17962

Correction in:: Nature. 2016 Jun 29; 536(7617): 488.

PMCID:: PMC4913881

Abstract Article PDF–3.9M

Select item 45588493.

Comparative Genomics of Listeria Sensu Lato: Genus-Wide Differences in Evolutionary Dynamics and the Progressive Gain of Complex, Potentially Pathogenicity-Related Traits through Lateral Gene Transfer

Matteo Chiara, Marta Caruso, Anna Maria D’Erchia, Caterina Manzari, Rosa Fraccalvieri, Elisa Goffredo, Laura Latorre, Angela Miccolupo, Iolanda Padalino, Gianfranco Santagada, Doriano Chiocco, Graziano Pesole, David S. Horner, Antonio Parisi

Genome Biol Evol. 2015 Aug; 7(8): 2154–2172. Published online 2015 Jun 15. doi: 10.1093/gbe/evv131

PMCID:: PMC4558849

Abstract Article PDF–1.3M

Select item 42995204.

Genome-wide gene order distances support clustering the gram-positive bacteria

Christopher H. House, Matteo Pellegrini, Sorel T. Fitz-Gibbon

Front Microbiol. 2014; 5: 785. Published online 2015 Jan 20. doi: 10.3389/fmicb.2014.00785

PMCID:: PMC4299520

Abstract Article PDF–8.7M

Select item 40414205.

Auxiliary tRNAs: large-scale analysis of tRNA genes reveals patterns of tRNA repertoire dynamics

Naama Wald, Hanah Margalit

Nucleic Acids Res. 2014 Jun 1; 42(10): 6552–6566. Published online 2014 Apr 29. doi: 10.1093/nar/gku245

PMCID:: PMC4041420

Abstract Article PDF–2.7M

Select item 39370576.

Mining locus tags in PubMed Central to improve microbial gene annotation

Chris J Stubben, Jean F Challacombe

BMC Bioinformatics. 2014; 15: 43. Published online 2014 Feb 5. doi: 10.1186/1471-2105-15-43

PMCID:: PMC3937057

Abstract Article PDF–421K

Select item 39276077.

Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms

Arshan Nasir, Aisha Naeem, Muhammad Jawad Khan, Horacio D. Lopez-Nicora, Gustavo Caetano-Anollés

Genes (Basel) 2011 Dec; 2(4): 869–911. Published online 2011 Nov 8. doi: 10.3390/genes2040869

PMCID:: PMC3927607

Abstract Article PDF–2.0M

Select item 38471448.

Evolutionary diversification and characterization of the eubacterial gene family encoding DXR type II, an alternative isoprenoid biosynthetic enzyme

Lorenzo Carretero-Paulet, Agnieszka Lipska, Jordi Pérez-Gil, Félix J Sangari, Victor A Albert, Manuel Rodríguez-Concepción

BMC Evol Biol. 2013; 13: 180. Published online 2013 Sep 3. doi: 10.1186/1471-2148-13-180

PMCID:: PMC3847144

Abstract Article PDF–1.9M

Select item 36964289.

Metaproteomics: Harnessing the power of high performance mass spectrometry to identify the suite of proteins that control metabolic activities in microbial communities

Robert L. Hettich, Chongle Pan, Karuna Chourey, Richard J. Giannone

Anal Chem. Author manuscript; available in PMC 2014 May 7.

Published in final edited form as: Anal Chem. 2013 May 7; 85(9): 4203–4214. Published online 2013 Mar 21. doi: 10.1021/ac303053e

PMCID:: PMC3696428

Abstract Article PDF–1.0M

Select item 369076010.

Structural and functional characterization of microcin C resistance peptidase MccF from Bacillus anthracis

Boguslaw Nocek, Anton Tikhonov, Gyorgy Babnigg, Minyi Gu, Min Zhou, Kira S. Makarova, Gaston Vondenhoff, Arthur Van Aerschot, Keehwan Kwon, Wayne F. Anderson, Konstantin Severinov, Andrzej Joachimiak

J Mol Biol. Author manuscript; available in PMC 2013 Jul 20.

Published in final edited form as: J Mol Biol. 2012 Jul 20; 420(0): 366–383. Published online 2012 Apr 16. doi: 10.1016/j.jmb.2012.04.011

PMCID:: PMC3690760

Abstract Article PDF–4.2M

Select item 356061311.

Comparative kinetic analysis of glycerol 3-phosphate cytidylyltransferase from Enterococcus faecalis and Listeria monocytogenes

Ashley N. Mericl, Jon A. Friesen

Med Sci Monit. 2012; 18(11): BR427–BR434. Published online 2012 Nov 1. doi: 10.12659/MSM.883535

PMCID:: PMC3560613

Abstract Article PDF–1.7M

Select item 337461312.

Optimizing Read Mapping to Reference Genomes to Determine Composition and Species Prevalence in Microbial Communities

John Martin, Sean Sykes, Sarah Young, Karthik Kota, Ravi Sanka, Nihar Sheth, Joshua Orvis, Erica Sodergren, Zhengyuan Wang, George M. Weinstock, Makedonka Mitreva

PLoS One. 2012; 7(6): e36427. Published online 2012 Jun 13. doi: 10.1371/journal.pone.0036427