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Items: 45

1.

Continuous Culture Adaptation of Methylobacterium extorquens AM1 and TK 0001 to Very High Methanol Concentrations.

Belkhelfa S, Roche D, Dubois I, Berger A, Delmas VA, Cattolico L, Perret A, Labadie K, Perdereau AC, Darii E, Pateau E, de Berardinis V, Salanoubat M, Bouzon M, Döring V.

Front Microbiol. 2019 Jun 20;10:1313. doi: 10.3389/fmicb.2019.01313. eCollection 2019.

2.

2-Deoxyribose-5-phosphate aldolase, a remarkably tolerant aldolase towards nucleophile substrates.

Chambre D, Guérard-Hélaine C, Darii E, Mariage A, Petit JL, Salanoubat M, de Berardinis V, Lemaire M, Hélaine V.

Chem Commun (Camb). 2019 Jul 4;55(52):7498-7501. doi: 10.1039/c9cc03361k. Epub 2019 Jun 12.

PMID:
31187106
3.

ABC Transporters Required for Hexose Uptake by Clostridium phytofermentans.

Cerisy T, Iglesias A, Rostain W, Boutard M, Pelle C, Perret A, Salanoubat M, Fierobe HP, Tolonen AC.

J Bacteriol. 2019 Jul 10;201(15). pii: e00241-19. doi: 10.1128/JB.00241-19. Print 2019 Aug 1.

PMID:
31109990
4.

De novo structure determination of 3-((3-aminopropyl)amino)-4-hydroxybenzoic acid, a novel and abundant metabolite in Acinetobacter baylyi ADP1.

Thomas M, Stuani L, Darii E, Lechaplais C, Pateau E, Tabet JC, Salanoubat M, Saaidi PL, Perret A.

Metabolomics. 2019 Mar 14;15(3):45. doi: 10.1007/s11306-019-1508-3.

PMID:
30874951
5.

Characterization of l-Carnitine Metabolism in Sinorhizobium meliloti.

Bazire P, Perchat N, Darii E, Lechaplais C, Salanoubat M, Perret A.

J Bacteriol. 2019 Mar 13;201(7). pii: e00772-18. doi: 10.1128/JB.00772-18. Print 2019 Apr 1.

6.

Characterization of a thermotolerant ROK-type mannofructokinase from Streptococcus mitis: application to the synthesis of phosphorylated sugars.

Vergne-Vaxelaire C, Mariage A, Petit JL, Fossey-Jouenne A, Guérard-Hélaine C, Darii E, Debard A, Nepert S, Pellouin V, Lemaire M, Zaparucha A, Salanoubat M, de Berardinis V.

Appl Microbiol Biotechnol. 2018 Jul;102(13):5569-5583. doi: 10.1007/s00253-018-9018-1. Epub 2018 May 4.

PMID:
29728726
7.

Elucidation of the trigonelline degradation pathway reveals previously undescribed enzymes and metabolites.

Perchat N, Saaidi PL, Darii E, Pellé C, Petit JL, Besnard-Gonnet M, de Berardinis V, Dupont M, Gimbernat A, Salanoubat M, Fischer C, Perret A.

Proc Natl Acad Sci U S A. 2018 May 8;115(19):E4358-E4367. doi: 10.1073/pnas.1722368115. Epub 2018 Apr 23.

8.

Synthesis of Branched-Chain Sugars with a DHAP-Dependent Aldolase: Ketones are Electrophile Substrates of Rhamnulose-1-phosphate Aldolases.

Laurent V, Darii E, Aujon A, Debacker M, Petit JL, Hélaine V, Liptaj T, Breza M, Mariage A, Nauton L, Traïkia M, Salanoubat M, Lemaire M, Guérard-Hélaine C, de Berardinis V.

Angew Chem Int Ed Engl. 2018 May 4;57(19):5467-5471. doi: 10.1002/anie.201712851. Epub 2018 Mar 30.

PMID:
29542859
9.

Complete Genome Sequence of the Facultative Methylotroph Methylobacterium extorquens TK 0001 Isolated from Soil in Poland.

Belkhelfa S, Labadie K, Cruaud C, Aury JM, Roche D, Bouzon M, Salanoubat M, Döring V.

Genome Announc. 2018 Feb 22;6(8). pii: e00018-18. doi: 10.1128/genomeA.00018-18.

10.

Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans.

Seeleuthner Y, Mondy S, Lombard V, Carradec Q, Pelletier E, Wessner M, Leconte J, Mangot JF, Poulain J, Labadie K, Logares R, Sunagawa S, de Berardinis V, Salanoubat M, Dimier C, Kandels-Lewis S, Picheral M, Searson S; Tara Oceans Coordinators, Pesant S, Poulton N, Stepanauskas R, Bork P, Bowler C, Hingamp P, Sullivan MB, Iudicone D, Massana R, Aury JM, Henrissat B, Karsenti E, Jaillon O, Sieracki M, de Vargas C, Wincker P.

Nat Commun. 2018 Jan 22;9(1):310. doi: 10.1038/s41467-017-02235-3.

11.

Corrigendum: Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis.

Bastard K, Perret A, Mariage A, Bessonnet T, Pinet-Turpault A, Petit JL, Darii E, Bazire P, Vergne-Vaxelaire C, Brewee C, Debard A, Pellouin V, Besnard-Gonnet M, Artiguenave F, Médigue C, Vallenet D, Danchin A, Zaparucha A, Weissenbach J, Salanoubat M, de Berardinis V.

Nat Chem Biol. 2017 Sep 19;13(10):1137. doi: 10.1038/nchembio1017-1137c. No abstract available.

PMID:
28926556
12.

Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis.

Bastard K, Perret A, Mariage A, Bessonnet T, Pinet-Turpault A, Petit JL, Darii E, Bazire P, Vergne-Vaxelaire C, Brewee C, Debard A, Pellouin V, Besnard-Gonnet M, Artiguenave F, Médigue C, Vallenet D, Danchin A, Zaparucha A, Weissenbach J, Salanoubat M, de Berardinis V.

Nat Chem Biol. 2017 Aug;13(8):858-866. doi: 10.1038/nchembio.2397. Epub 2017 Jun 5. Erratum in: Nat Chem Biol. 2017 Sep 19;13(10 ):1137.

PMID:
28581482
13.

Stereoselective synthesis of γ-hydroxy-α-amino acids through aldolase-transaminase recycling cascades.

Guérard-Hélaine C, Heuson E, Ndiaye M, Gourbeyre L, Lemaire M, Hélaine V, Charmantray F, Petit JL, Salanoubat M, de Berardinis V, Gefflaut T.

Chem Commun (Camb). 2017 May 11;53(39):5465-5468. doi: 10.1039/c7cc00742f.

PMID:
28466909
14.

Evolution of a Biomass-Fermenting Bacterium To Resist Lignin Phenolics.

Cerisy T, Souterre T, Torres-Romero I, Boutard M, Dubois I, Patrouix J, Labadie K, Berrabah W, Salanoubat M, Doring V, Tolonen AC.

Appl Environ Microbiol. 2017 May 17;83(11). pii: e00289-17. doi: 10.1128/AEM.00289-17. Print 2017 Jun 1.

15.

Global repositioning of transcription start sites in a plant-fermenting bacterium.

Boutard M, Ettwiller L, Cerisy T, Alberti A, Labadie K, Salanoubat M, Schildkraut I, Tolonen AC.

Nat Commun. 2016 Dec 16;7:13783. doi: 10.1038/ncomms13783.

16.

A scalable assembly-free variable selection algorithm for biomarker discovery from metagenomes.

Gkanogiannis A, Gazut S, Salanoubat M, Kanj S, Brüls T.

BMC Bioinformatics. 2016 Aug 19;17(1):311. doi: 10.1186/s12859-016-1186-3.

17.

Functional diversity of carbohydrate-active enzymes enabling a bacterium to ferment plant biomass.

Boutard M, Cerisy T, Nogue PY, Alberti A, Weissenbach J, Salanoubat M, Tolonen AC.

PLoS Genet. 2014 Nov 13;10(11):e1004773. doi: 10.1371/journal.pgen.1004773. eCollection 2014 Nov.

18.

Novel metabolic features in Acinetobacter baylyi ADP1 revealed by a multiomics approach.

Stuani L, Lechaplais C, Salminen AV, Ségurens B, Durot M, Castelli V, Pinet A, Labadie K, Cruveiller S, Weissenbach J, de Berardinis V, Salanoubat M, Perret A.

Metabolomics. 2014;10(6):1223-1238. doi: 10.1007/s11306-014-0662-x. Epub 2014 Apr 29.

19.

Fungal lysis by a soil bacterium fermenting cellulose.

Tolonen AC, Cerisy T, El-Sayyed H, Boutard M, Salanoubat M, Church GM.

Environ Microbiol. 2015 Aug;17(8):2618-27. doi: 10.1111/1462-2920.12495. Epub 2014 May 25.

PMID:
24798076
20.

Revealing the hidden functional diversity of an enzyme family.

Bastard K, Smith AA, Vergne-Vaxelaire C, Perret A, Zaparucha A, De Melo-Minardi R, Mariage A, Boutard M, Debard A, Lechaplais C, Pelle C, Pellouin V, Perchat N, Petit JL, Kreimeyer A, Medigue C, Weissenbach J, Artiguenave F, De Berardinis V, Vallenet D, Salanoubat M.

Nat Chem Biol. 2014 Jan;10(1):42-9. doi: 10.1038/nchembio.1387. Epub 2013 Nov 17.

PMID:
24240508
21.

Microbial urate catabolism: characterization of HpyO, a non-homologous isofunctional isoform of the flavoprotein urate hydroxylase HpxO.

Michiel M, Perchat N, Perret A, Tricot S, Papeil A, Besnard M, de Berardinis V, Salanoubat M, Fischer C.

Environ Microbiol Rep. 2012 Dec;4(6):642-7. doi: 10.1111/j.1758-2229.2012.00390.x. Epub 2012 Sep 25.

PMID:
23760935
22.

Prediction and identification of sequences coding for orphan enzymes using genomic and metagenomic neighbours.

Yamada T, Waller AS, Raes J, Zelezniak A, Perchat N, Perret A, Salanoubat M, Patil KR, Weissenbach J, Bork P.

Mol Syst Biol. 2012 May 8;8:581. doi: 10.1038/msb.2012.13.

23.

A novel acyl-CoA beta-transaminase characterized from a metagenome.

Perret A, Lechaplais C, Tricot S, Perchat N, Vergne C, Pellé C, Bastard K, Kreimeyer A, Vallenet D, Zaparucha A, Weissenbach J, Salanoubat M.

PLoS One. 2011;6(8):e22918. doi: 10.1371/journal.pone.0022918. Epub 2011 Aug 3.

24.

3-Keto-5-aminohexanoate cleavage enzyme: a common fold for an uncommon Claisen-type condensation.

Bellinzoni M, Bastard K, Perret A, Zaparucha A, Perchat N, Vergne C, Wagner T, de Melo-Minardi RC, Artiguenave F, Cohen GN, Weissenbach J, Salanoubat M, Alzari PM.

J Biol Chem. 2011 Aug 5;286(31):27399-405. doi: 10.1074/jbc.M111.253260. Epub 2011 Jun 1.

25.

Clostridium sticklandii, a specialist in amino acid degradation:revisiting its metabolism through its genome sequence.

Fonknechten N, Chaussonnerie S, Tricot S, Lajus A, Andreesen JR, Perchat N, Pelletier E, Gouyvenoux M, Barbe V, Salanoubat M, Le Paslier D, Weissenbach J, Cohen GN, Kreimeyer A.

BMC Genomics. 2010 Oct 11;11:555. doi: 10.1186/1471-2164-11-555.

26.

Acinetobacter baylyi ADP1 as a model for metabolic system biology.

de Berardinis V, Durot M, Weissenbach J, Salanoubat M.

Curr Opin Microbiol. 2009 Oct;12(5):568-76. doi: 10.1016/j.mib.2009.07.005. Epub 2009 Aug 24. Review.

PMID:
19709925
27.

A conserved gene cluster rules anaerobic oxidative degradation of L-ornithine.

Fonknechten N, Perret A, Perchat N, Tricot S, Lechaplais C, Vallenet D, Vergne C, Zaparucha A, Le Paslier D, Weissenbach J, Salanoubat M.

J Bacteriol. 2009 May;191(9):3162-7. doi: 10.1128/JB.01777-08. Epub 2009 Feb 27.

28.

Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data.

Durot M, Le Fèvre F, de Berardinis V, Kreimeyer A, Vallenet D, Combe C, Smidtas S, Salanoubat M, Weissenbach J, Schachter V.

BMC Syst Biol. 2008 Oct 7;2:85. doi: 10.1186/1752-0509-2-85.

29.

New insights into the alternative D-glucarate degradation pathway.

Aghaie A, Lechaplais C, Sirven P, Tricot S, Besnard-Gonnet M, Muselet D, de Berardinis V, Kreimeyer A, Gyapay G, Salanoubat M, Perret A.

J Biol Chem. 2008 Jun 6;283(23):15638-46. doi: 10.1074/jbc.M800487200. Epub 2008 Mar 25.

30.

A complete collection of single-gene deletion mutants of Acinetobacter baylyi ADP1.

de Berardinis V, Vallenet D, Castelli V, Besnard M, Pinet A, Cruaud C, Samair S, Lechaplais C, Gyapay G, Richez C, Durot M, Kreimeyer A, Le Fèvre F, Schächter V, Pezo V, Döring V, Scarpelli C, Médigue C, Cohen GN, Marlière P, Salanoubat M, Weissenbach J.

Mol Syst Biol. 2008;4:174. doi: 10.1038/msb.2008.10. Epub 2008 Mar 4.

31.

Identification of the last unknown genes in the fermentation pathway of lysine.

Kreimeyer A, Perret A, Lechaplais C, Vallenet D, Médigue C, Salanoubat M, Weissenbach J.

J Biol Chem. 2007 Mar 9;282(10):7191-7. Epub 2006 Dec 13.

32.

ASEtrap: a biological method for speeding up the exploration of spliceomes.

Thill G, Castelli V, Pallud S, Salanoubat M, Wincker P, de la Grange P, Auboeuf D, Schächter V, Weissenbach J.

Genome Res. 2006 Jun;16(6):776-86. Epub 2006 May 8.

33.

Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype.

Jaillon O, Aury JM, Brunet F, Petit JL, Stange-Thomann N, Mauceli E, Bouneau L, Fischer C, Ozouf-Costaz C, Bernot A, Nicaud S, Jaffe D, Fisher S, Lutfalla G, Dossat C, Segurens B, Dasilva C, Salanoubat M, Levy M, Boudet N, Castellano S, Anthouard V, Jubin C, Castelli V, Katinka M, Vacherie B, Biémont C, Skalli Z, Cattolico L, Poulain J, De Berardinis V, Cruaud C, Duprat S, Brottier P, Coutanceau JP, Gouzy J, Parra G, Lardier G, Chapple C, McKernan KJ, McEwan P, Bosak S, Kellis M, Volff JN, Guigó R, Zody MC, Mesirov J, Lindblad-Toh K, Birren B, Nusbaum C, Kahn D, Robinson-Rechavi M, Laudet V, Schachter V, Quétier F, Saurin W, Scarpelli C, Wincker P, Lander ES, Weissenbach J, Roest Crollius H.

Nature. 2004 Oct 21;431(7011):946-57.

PMID:
15496914
34.

Genome-wide analyses based on comparative genomics.

Jaillon O, Aury JM, Roest Crollius H, Salanoubat M, Wincker P, Dossat C, Castelli V, Boudet N, Samair S, Eckenberg R, Bonneval S, Saurin W, Scarpelli C, Schächter V, Weissenbach J.

Cold Spring Harb Symp Quant Biol. 2003;68:275-82. No abstract available.

PMID:
15338627
35.

Whole genome sequence comparisons and "full-length" cDNA sequences: a combined approach to evaluate and improve Arabidopsis genome annotation.

Castelli V, Aury JM, Jaillon O, Wincker P, Clepet C, Menard M, Cruaud C, Quétier F, Scarpelli C, Schächter V, Temple G, Caboche M, Weissenbach J, Salanoubat M.

Genome Res. 2004 Mar;14(3):406-13.

36.

Numerous novel annotations of the human genome sequence supported by a 5'-end-enriched cDNA collection.

Porcel BM, Delfour O, Castelli V, De Berardinis V, Friedlander L, Cruaud C, Ureta-Vidal A, Scarpelli C, Wincker P, Schächter V, Saurin W, Gyapay G, Salanoubat M, Weissenbach J.

Genome Res. 2004 Mar;14(3):463-71. Epub 2004 Feb 12.

37.

Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome.

Dufresne A, Salanoubat M, Partensky F, Artiguenave F, Axmann IM, Barbe V, Duprat S, Galperin MY, Koonin EV, Le Gall F, Makarova KS, Ostrowski M, Oztas S, Robert C, Rogozin IB, Scanlan DJ, Tandeau de Marsac N, Weissenbach J, Wincker P, Wolf YI, Hess WR.

Proc Natl Acad Sci U S A. 2003 Aug 19;100(17):10020-5. Epub 2003 Aug 13.

38.

Genome sequence of the plant pathogen Ralstonia solanacearum.

Salanoubat M, Genin S, Artiguenave F, Gouzy J, Mangenot S, Arlat M, Billault A, Brottier P, Camus JC, Cattolico L, Chandler M, Choisne N, Claudel-Renard C, Cunnac S, Demange N, Gaspin C, Lavie M, Moisan A, Robert C, Saurin W, Schiex T, Siguier P, Thébault P, Whalen M, Wincker P, Levy M, Weissenbach J, Boucher CA.

Nature. 2002 Jan 31;415(6871):497-502.

PMID:
11823852
39.

Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.

Salanoubat M, Lemcke K, Rieger M, Ansorge W, Unseld M, Fartmann B, Valle G, Blöcker H, Perez-Alonso M, Obermaier B, Delseny M, Boutry M, Grivell LA, Mache R, Puigdomènech P, De Simone V, Choisne N, Artiguenave F, Robert C, Brottier P, Wincker P, Cattolico L, Weissenbach J, Saurin W, Quétier F, Schäfer M, Müller-Auer S, Gabel C, Fuchs M, Benes V, Wurmbach E, Drzonek H, Erfle H, Jordan N, Bangert S, Wiedelmann R, Kranz H, Voss H, Holland R, Brandt P, Nyakatura G, Vezzi A, D'Angelo M, Pallavicini A, Toppo S, Simionati B, Conrad A, Hornischer K, Kauer G, Löhnert TH, Nordsiek G, Reichelt J, Scharfe M, Schön O, Bargues M, Terol J, Climent J, Navarro P, Collado C, Perez-Perez A, Ottenwälder B, Duchemin D, Cooke R, Laudie M, Berger-Llauro C, Purnelle B, Masuy D, de Haan M, Maarse AC, Alcaraz JP, Cottet A, Casacuberta E, Monfort A, Argiriou A, flores M, Liguori R, Vitale D, Mannhaupt G, Haase D, Schoof H, Rudd S, Zaccaria P, Mewes HW, Mayer KF, Kaul S, Town CD, Koo HL, Tallon LJ, Jenkins J, Rooney T, Rizzo M, Walts A, Utterback T, Fujii CY, Shea TP, Creasy TH, Haas B, Maiti R, Wu D, Peterson J, Van Aken S, Pai G, Militscher J, Sellers P, Gill JE, Feldblyum TV, Preuss D, Lin X, Nierman WC, Salzberg SL, White O, Venter JC, Fraser CM, Kaneko T, Nakamura Y, Sato S, Kato T, Asamizu E, Sasamoto S, Kimura T, Idesawa K, Kawashima K, Kishida Y, Kiyokawa C, Kohara M, Matsumoto M, Matsuno A, Muraki A, Nakayama S, Nakazaki N, Shinpo S, Takeuchi C, Wada T, Watanabe A, Yamada M, Yasuda M, Tabata S; European Union Chromosome 3 Arabidopsis Sequencing Consortium; Institute for Genomic Research; Kazusa DNA Research Institute.

Nature. 2000 Dec 14;408(6814):820-2.

PMID:
11130713
40.

An ATM homologue from Arabidopsis thaliana: complete genomic organisation and expression analysis.

Garcia V, Salanoubat M, Choisne N, Tissier A.

Nucleic Acids Res. 2000 Apr 15;28(8):1692-9.

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