Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 221

1.

PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph.

Gautreau G, Bazin A, Gachet M, Planel R, Burlot L, Dubois M, Perrin A, Médigue C, Calteau A, Cruveiller S, Matias C, Ambroise C, Rocha EPC, Vallenet D.

PLoS Comput Biol. 2020 Mar 19;16(3):e1007732. doi: 10.1371/journal.pcbi.1007732. eCollection 2020 Mar.

2.

Author Correction: The chromosomal organization of horizontal gene transfer in bacteria.

Oliveira PH, Touchon M, Cury J, Rocha EPC.

Nat Commun. 2020 Feb 26;11(1):1155. doi: 10.1038/s41467-020-15091-5.

3.

Community diversity and habitat structure shape the repertoire of extracellular proteins in bacteria.

Garcia-Garcera M, Rocha EPC.

Nat Commun. 2020 Feb 6;11(1):758. doi: 10.1038/s41467-020-14572-x.

4.

Δ-FeOOH as Support for Immobilization Peroxidase: Optimization via a Chemometric Approach.

Tavares TS, da Rocha EP, Esteves Nogueira FG, Torres JA, Silva MC, Kuca K, Ramalho TC.

Molecules. 2020 Jan 8;25(2). pii: E259. doi: 10.3390/molecules25020259.

5.

Intracellular Positioning Systems Limit the Entropic Eviction of Secondary Replicons Toward the Nucleoid Edges in Bacterial Cells.

Planchenault C, Pons MC, Schiavon C, Siguier P, Rech J, Guynet C, Dauverd-Girault J, Cury J, Rocha EPC, Junier I, Cornet F, Espéli O.

J Mol Biol. 2020 Feb 7;432(3):745-761. doi: 10.1016/j.jmb.2019.11.027. Epub 2020 Jan 11.

PMID:
31931015
6.

Materials Sealing Preventing Biofilm Formation in Implant/Abutment Joints: Which Is the Most Effective? A Systematic Review and Meta-Analysis.

Sousa CA, Taborda MBB, Momesso GC, Rocha EP, Dos Santos PH, Santigo-Junior JF, Assunçao WG.

J Oral Implantol. 2020 Jan 6. doi: 10.1563/aaid-joi-D-19-00121. [Epub ahead of print]

PMID:
31905318
7.

Influence of Light-Curing Intensity on Color Stability and Microhardness of Composite Resins.

Strazzi-Sahyon HB, Rocha EP, Assunção WG, Dos Santos PH.

Int J Periodontics Restorative Dent. 2020 Jan/Feb;40(1):129-134. doi: 10.11607/prd.4437.

PMID:
31815983
8.

Atypical organizations and epistatic interactions of CRISPRs and cas clusters in genomes and their mobile genetic elements.

Bernheim A, Bikard D, Touchon M, Rocha EPC.

Nucleic Acids Res. 2020 Jan 24;48(2):748-760. doi: 10.1093/nar/gkz1091.

PMID:
31745554
9.

Unlinked rRNA genes are widespread among bacteria and archaea.

Brewer TE, Albertsen M, Edwards A, Kirkegaard RH, Rocha EPC, Fierer N.

ISME J. 2020 Feb;14(2):597-608. doi: 10.1038/s41396-019-0552-3. Epub 2019 Nov 11.

PMID:
31712737
10.

Identifying Conjugative Plasmids and Integrative Conjugative Elements with CONJscan.

Cury J, Abby SS, Doppelt-Azeroual O, Néron B, Rocha EPC.

Methods Mol Biol. 2020;2075:265-283. doi: 10.1007/978-1-4939-9877-7_19.

PMID:
31584169
11.

Diversification of the type IV filament superfamily into machines for adhesion, protein secretion, DNA uptake, and motility.

Denise R, Abby SS, Rocha EPC.

PLoS Biol. 2019 Jul 19;17(7):e3000390. doi: 10.1371/journal.pbio.3000390. eCollection 2019 Jul.

12.

Bacteriophages benefit from generalized transduction.

Fillol-Salom A, Alsaadi A, Sousa JAM, Zhong L, Foster KR, Rocha EPC, Penadés JR, Ingmer H, Haaber J.

PLoS Pathog. 2019 Jul 5;15(7):e1007888. doi: 10.1371/journal.ppat.1007888. eCollection 2019 Jul.

13.

Emergence profile customization technique during implant transfer.

Dos Santos PH, Suzuki TYU, Martini AP, de Oliveira Reis B, Assunção WG, Rocha EP.

J Indian Prosthodont Soc. 2019 Apr-Jun;19(2):197-200. doi: 10.4103/jips.jips_35_19.

14.

Experimental Evolution as a Tool to Investigate Natural Processes and Molecular Functions.

Remigi P, Masson-Boivin C, Rocha EPC.

Trends Microbiol. 2019 Jul;27(7):623-634. doi: 10.1016/j.tim.2019.02.003. Epub 2019 Mar 23. Review.

PMID:
30910518
15.

A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR-Cas systems in bacteria.

Bernheim A, Bikard D, Touchon M, Rocha EPC.

Philos Trans R Soc Lond B Biol Sci. 2019 May 13;374(1772):20180088. doi: 10.1098/rstb.2018.0088.

16.
17.

Ultrafast search of all deposited bacterial and viral genomic data.

Bradley P, den Bakker HC, Rocha EPC, McVean G, Iqbal Z.

Nat Biotechnol. 2019 Feb;37(2):152-159. doi: 10.1038/s41587-018-0010-1. Epub 2019 Feb 4.

18.

Influence of resin cement thickness and temperature variation on mechanical behavior of dental ceramic fragment restoration.

Martini AP, de Souza FI, Anchieta RB, de Almeida EO, Freitas Junior AC, Rocha EP.

Comput Methods Biomech Biomed Engin. 2019 Mar;22(4):409-417. doi: 10.1080/10255842.2018.1560428. Epub 2019 Feb 4.

PMID:
30712384
19.

Genetic exchanges are more frequent in bacteria encoding capsules.

Rendueles O, de Sousa JAM, Bernheim A, Touchon M, Rocha EPC.

PLoS Genet. 2018 Dec 21;14(12):e1007862. doi: 10.1371/journal.pgen.1007862. eCollection 2018 Dec.

20.

HflXr, a homolog of a ribosome-splitting factor, mediates antibiotic resistance.

Duval M, Dar D, Carvalho F, Rocha EPC, Sorek R, Cossart P.

Proc Natl Acad Sci U S A. 2018 Dec 26;115(52):13359-13364. doi: 10.1073/pnas.1810555115. Epub 2018 Dec 13.

21.

Host Range and Genetic Plasticity Explain the Coexistence of Integrative and Extrachromosomal Mobile Genetic Elements.

Cury J, Oliveira PH, de la Cruz F, Rocha EPC.

Mol Biol Evol. 2018 Nov 1;35(11):2850. doi: 10.1093/molbev/msy182. No abstract available.

22.

Author Correction: Parallels between experimental and natural evolution of legume symbionts.

Clerissi C, Touchon M, Capela D, Tang M, Cruveiller S, Genthon C, Lopez-Roques C, Parker MA, Moulin L, Masson-Boivin C, Rocha EPC.

Nat Commun. 2018 Nov 2;9(1):4641. doi: 10.1038/s41467-018-07205-x.

23.

Acute kidney injury in elderly patients: narrative review on incidence, risk factors, and mortality.

Yokota LG, Sampaio BM, Rocha EP, Balbi AL, Sousa Prado IR, Ponce D.

Int J Nephrol Renovasc Dis. 2018 Aug 14;11:217-224. doi: 10.2147/IJNRD.S170203. eCollection 2018. Review.

24.

Serum Uric Acid Levels as an Indicator for Metabolically Unhealthy Obesity in Children and Adolescents.

Rocha EPAA, Vogel M, Stanik J, Pietzner D, Willenberg A, Körner A, Kiess W.

Horm Res Paediatr. 2018;90(1):19-27. doi: 10.1159/000490113. Epub 2018 Jul 27.

PMID:
30056455
25.

Host Range and Genetic Plasticity Explain the Coexistence of Integrative and Extrachromosomal Mobile Genetic Elements.

Cury J, Oliveira PH, de la Cruz F, Rocha EPC.

Mol Biol Evol. 2018 Sep 1;35(9):2230-2239. doi: 10.1093/molbev/msy123. Erratum in: Mol Biol Evol. 2018 Nov 1;35(11):2850.

26.

Urinary Neutrophil Gelatinase-Associated Lipocalin Is Excellent Predictor of Acute Kidney Injury in Septic Elderly Patients.

da Rocha EP, Yokota LG, Sampaio BM, Cardoso Eid KZ, Dias DB, de Freitas FM, Balbi AL, Ponce D.

Aging Dis. 2018 Apr 1;9(2):182-191. doi: 10.14336/AD.2017.0307. eCollection 2018 Apr.

27.

Parallels between experimental and natural evolution of legume symbionts.

Clerissi C, Touchon M, Capela D, Tang M, Cruveiller S, Genthon C, Lopez-Roques C, Parker MA, Moulin L, Masson-Boivin C, Rocha EPC.

Nat Commun. 2018 Jun 11;9(1):2264. doi: 10.1038/s41467-018-04778-5. Erratum in: Nat Commun. 2018 Nov 2;9(1):4641.

28.

Soluble epoxide hydrolase inhibitor promotes immunomodulation to inhibit bone resorption.

Napimoga MH, Rocha EP, Trindade-da-Silva CA, Demasi APD, Martinez EF, Macedo CG, Abdalla HB, Bettaieb A, Haj FG, Clemente-Napimoga JT, Inceoglu B, Hammock BD.

J Periodontal Res. 2018 Oct;53(5):743-749. doi: 10.1111/jre.12559. Epub 2018 May 31.

29.

CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins.

Couvin D, Bernheim A, Toffano-Nioche C, Touchon M, Michalik J, Néron B, Rocha EPC, Vergnaud G, Gautheret D, Pourcel C.

Nucleic Acids Res. 2018 Jul 2;46(W1):W246-W251. doi: 10.1093/nar/gky425.

30.

Neutral Theory, Microbial Practice: Challenges in Bacterial Population Genetics.

Rocha EPC.

Mol Biol Evol. 2018 Jun 1;35(6):1338-1347. doi: 10.1093/molbev/msy078.

PMID:
29684183
31.

Bacillus subtilis, the model Gram-positive bacterium: 20 years of annotation refinement.

Borriss R, Danchin A, Harwood CR, Médigue C, Rocha EPC, Sekowska A, Vallenet D.

Microb Biotechnol. 2018 Jan;11(1):3-17. doi: 10.1111/1751-7915.13043.

32.

Inhibition of NHEJ repair by type II-A CRISPR-Cas systems in bacteria.

Bernheim A, Calvo-Villamañán A, Basier C, Cui L, Rocha EPC, Touchon M, Bikard D.

Nat Commun. 2017 Dec 12;8(1):2094. doi: 10.1038/s41467-017-02350-1.

33.

The chromosomal organization of horizontal gene transfer in bacteria.

Oliveira PH, Touchon M, Cury J, Rocha EPC.

Nat Commun. 2017 Oct 10;8(1):841. doi: 10.1038/s41467-017-00808-w. Erratum in: Nat Commun. 2020 Feb 26;11(1):1155.

34.

Metagenomic assessment of the interplay between the environment and the genetic diversification of Acinetobacter.

Garcia-Garcera M, Touchon M, Brisse S, Rocha EPC.

Environ Microbiol. 2017 Dec;19(12):5010-5024. doi: 10.1111/1462-2920.13949. Epub 2017 Dec 1.

35.

Integrative and conjugative elements and their hosts: composition, distribution and organization.

Cury J, Touchon M, Rocha EPC.

Nucleic Acids Res. 2017 Sep 6;45(15):8943-8956. doi: 10.1093/nar/gkx607.

36.

A widespread family of polymorphic toxins encoded by temperate phages.

Jamet A, Touchon M, Ribeiro-Gonçalves B, Carriço JA, Charbit A, Nassif X, Ramirez M, Rocha EPC.

BMC Biol. 2017 Aug 29;15(1):75. doi: 10.1186/s12915-017-0415-1.

37.

Microencapsulation of sacha inchi oil using emulsion-based delivery systems.

Vicente J, de Souza Cezarino T, Pereira LJB, da Rocha EP, Sá GR, Gamallo OD, de Carvalho MG, Garcia-Rojas EE.

Food Res Int. 2017 Sep;99(Pt 1):612-622. doi: 10.1016/j.foodres.2017.06.039. Epub 2017 Jun 20.

PMID:
28784524
38.

Abundance and co-occurrence of extracellular capsules increase environmental breadth: Implications for the emergence of pathogens.

Rendueles O, Garcia-Garcerà M, Néron B, Touchon M, Rocha EPC.

PLoS Pathog. 2017 Jul 24;13(7):e1006525. doi: 10.1371/journal.ppat.1006525. eCollection 2017 Jul.

39.

Comparative genomic analysis of Acinetobacter strains isolated from murine colonic crypts.

Saffarian A, Touchon M, Mulet C, Tournebize R, Passet V, Brisse S, Rocha EPC, Sansonetti PJ, Pédron T.

BMC Genomics. 2017 Jul 11;18(1):525. doi: 10.1186/s12864-017-3925-x.

40.

Identification of Protein Secretion Systems in Bacterial Genomes Using MacSyFinder.

Abby SS, Rocha EPC.

Methods Mol Biol. 2017;1615:1-21. doi: 10.1007/978-1-4939-7033-9_1.

PMID:
28667599
41.

Erratum: Uncovering Listeria monocytogenes hypervirulence by harnessing its biodiversity.

Maury MM, Tsai YH, Charlier C, Touchon M, Chenal-Francisque V, Leclercq A, Criscuolo A, Gaultier C, Roussel S, Brisabois A, Disson O, Rocha EPC, Brisse S, Lecuit M.

Nat Genet. 2017 May 26;49(6):970. doi: 10.1038/ng0617-970d. No abstract available.

PMID:
28546578
42.

Evolutionary dynamics and genomic features of the Elizabethkingia anophelis 2015 to 2016 Wisconsin outbreak strain.

Perrin A, Larsonneur E, Nicholson AC, Edwards DJ, Gundlach KM, Whitney AM, Gulvik CA, Bell ME, Rendueles O, Cury J, Hugon P, Clermont D, Enouf V, Loparev V, Juieng P, Monson T, Warshauer D, Elbadawi LI, Walters MS, Crist MB, Noble-Wang J, Borlaug G, Rocha EPC, Criscuolo A, Touchon M, Davis JP, Holt KE, McQuiston JR, Brisse S.

Nat Commun. 2017 May 24;8:15483. doi: 10.1038/ncomms15483.

43.

Recruitment of a Lineage-Specific Virulence Regulatory Pathway Promotes Intracellular Infection by a Plant Pathogen Experimentally Evolved into a Legume Symbiont.

Capela D, Marchetti M, Clérissi C, Perrier A, Guetta D, Gris C, Valls M, Jauneau A, Cruveiller S, Rocha EPC, Masson-Boivin C.

Mol Biol Evol. 2017 Oct 1;34(10):2503-2521. doi: 10.1093/molbev/msx165.

PMID:
28535261
44.

Embracing the enemy: the diversification of microbial gene repertoires by phage-mediated horizontal gene transfer.

Touchon M, Moura de Sousa JA, Rocha EP.

Curr Opin Microbiol. 2017 Aug;38:66-73. doi: 10.1016/j.mib.2017.04.010. Epub 2017 May 17. Review.

PMID:
28527384
45.

Value of NMR Parameters and DFT Calculations for Quantum Information Processing Utilizing Phosphorus Heterocycles.

Lino JBR, Rocha EP, Ramalho TC.

J Phys Chem A. 2017 Jun 15;121(23):4486-4495. doi: 10.1021/acs.jpca.6b12728. Epub 2017 May 4.

PMID:
28441482
46.

Corrigendum: Uncovering Listeria monocytogenes hypervirulence by harnessing its biodiversity.

Maury MM, Tsai YH, Charlier C, Touchon M, Chenal-Francisque V, Leclercq A, Criscuolo A, Gaultier C, Roussel S, Brisabois A, Disson O, Rocha EP, Brisse S, Lecuit M.

Nat Genet. 2017 Mar 30;49(4):651. doi: 10.1038/ng0417-651b. No abstract available.

PMID:
28358126
47.

Differences in Integron Cassette Excision Dynamics Shape a Trade-Off between Evolvability and Genetic Capacitance.

Loot C, Nivina A, Cury J, Escudero JA, Ducos-Galand M, Bikard D, Rocha EP, Mazel D.

mBio. 2017 Mar 28;8(2). pii: e02296-16. doi: 10.1128/mBio.02296-16.

48.

Metabolic diversity of the emerging pathogenic lineages of Klebsiella pneumoniae.

Blin C, Passet V, Touchon M, Rocha EPC, Brisse S.

Environ Microbiol. 2017 May;19(5):1881-1898. doi: 10.1111/1462-2920.13689. Epub 2017 Mar 3.

PMID:
28181409
49.

Sealing the Screw Access Channel with Polytetrafluoroethylene Tape: Advantages of the Technique.

Maluly-Proni AT, Anchieta RB, Suzuki TY, Garcia de Oliveira F, Guedes AP, Rocha EP, Assunção WG, Dos Santos PH.

Int J Oral Maxillofac Implants. 2017 September/October;32(5):1132–1134. doi: 10.11607/jomi.5347. Epub 2017 Feb 7.

PMID:
28170451
50.

Genetic and life-history traits associated with the distribution of prophages in bacteria.

Touchon M, Bernheim A, Rocha EP.

ISME J. 2016 Nov;10(11):2744-2754. doi: 10.1038/ismej.2016.47. Epub 2016 Mar 25.

Supplemental Content

Loading ...
Support Center