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Items: 1 to 50 of 133

1.

Newly-discovered enzymes that function in metabolite damage-control.

de Crécy-Lagard V, Haas D, Hanson AD.

Curr Opin Chem Biol. 2018 Sep 27;47:101-108. doi: 10.1016/j.cbpa.2018.09.014. [Epub ahead of print] Review.

PMID:
30268903
2.

Identification of the minimal bacterial 2'-deoxy-7-amido-7-deazaguanine synthesis machinery.

Yuan Y, Hutinet G, Valera JG, Hu J, Hillebrand R, Gustafson A, Iwata-Reuyl D, Dedon PC, de Crécy-Lagard V.

Mol Microbiol. 2018 Aug 29. doi: 10.1111/mmi.14113. [Epub ahead of print]

PMID:
30159947
3.

Evolutionary insights into Trm112-methyltransferase holoenzymes involved in translation between archaea and eukaryotes.

van Tran N, Muller L, Ross RL, Lestini R, Létoquart J, Ulryck N, Limbach PA, de Crécy-Lagard V, Cianférani S, Graille M.

Nucleic Acids Res. 2018 Sep 19;46(16):8483-8499. doi: 10.1093/nar/gky638.

4.

Evidence that the metabolite repair enzyme NAD(P)HX epimerase has a moonlighting function.

Niehaus TD, Elbadawi-Sidhu M, Huang L, Prunetti L, Gregory JF 3rd, de Crécy-Lagard V, Fiehn O, Hanson AD.

Biosci Rep. 2018 May 8;38(3). pii: BSR20180223. doi: 10.1042/BSR20180223. Print 2018 Jun 29.

5.

A plastidial pantoate transporter with a potential role in pantothenate synthesis.

Huang L, Pyc M, Alseekh S, McCarty DR, de Crécy-Lagard V, Gregory JF 3rd, Henry CS, Fernie AR, Mullen RT, Hanson AD.

Biochem J. 2018 Feb 28;475(4):813-825. doi: 10.1042/BCJ20170883.

PMID:
29382740
6.

MODOMICS: a database of RNA modification pathways. 2017 update.

Boccaletto P, Machnicka MA, Purta E, Piatkowski P, Baginski B, Wirecki TK, de Crécy-Lagard V, Ross R, Limbach PA, Kotter A, Helm M, Bujnicki JM.

Nucleic Acids Res. 2018 Jan 4;46(D1):D303-D307. doi: 10.1093/nar/gkx1030.

7.

Discovery of a widespread prokaryotic 5-oxoprolinase that was hiding in plain sight.

Niehaus TD, Elbadawi-Sidhu M, de Crécy-Lagard V, Fiehn O, Hanson AD.

J Biol Chem. 2017 Sep 29;292(39):16360-16367. doi: 10.1074/jbc.M117.805028. Epub 2017 Aug 22.

8.

A strictly monofunctional bacterial hydroxymethylpyrimidine phosphate kinase precludes damaging errors in thiamin biosynthesis.

Thamm AM, Li G, Taja-Moreno M, Gerdes SY, de Crécy-Lagard V, Bruner SD, Hanson AD.

Biochem J. 2017 Jul 20. pii: BCJ20170437. doi: 10.1042/BCJ20170437. [Epub ahead of print]

PMID:
28729425
9.

QueF-Like, a Non-Homologous Archaeosine Synthase from the Crenarchaeota.

Bon Ramos A, Bao L, Turner B, de Crécy-Lagard V, Iwata-Reuyl D.

Biomolecules. 2017 Apr 6;7(2). pii: E36. doi: 10.3390/biom7020036.

10.

tRNA N6-adenosine threonylcarbamoyltransferase defect due to KAE1/TCS3 (OSGEP) mutation manifest by neurodegeneration and renal tubulopathy.

Edvardson S, Prunetti L, Arraf A, Haas D, Bacusmo JM, Hu JF, Ta-Shma A, Dedon PC, de Crécy-Lagard V, Elpeleg O.

Eur J Hum Genet. 2017 May;25(5):545-551. doi: 10.1038/ejhg.2017.30. Epub 2017 Mar 8.

11.

The Escherichia coli COG1738 Member YhhQ Is Involved in 7-Cyanodeazaguanine (preQ₀) Transport.

Zallot R, Yuan Y, de Crécy-Lagard V.

Biomolecules. 2017 Feb 8;7(1). pii: E12. doi: 10.3390/biom7010012.

12.

Identification of a Novel Epoxyqueuosine Reductase Family by Comparative Genomics.

Zallot R, Ross R, Chen WH, Bruner SD, Limbach PA, de Crécy-Lagard V.

ACS Chem Biol. 2017 Mar 17;12(3):844-851. doi: 10.1021/acschembio.6b01100. Epub 2017 Feb 8.

13.

Deciphering the Translation Initiation Factor 5A Modification Pathway in Halophilic Archaea.

Prunetti L, Graf M, Blaby IK, Peil L, Makkay AM, Starosta AL, Papke RT, Oshima T, Wilson DN, de Crécy-Lagard V.

Archaea. 2016 Dec 8;2016:7316725. doi: 10.1155/2016/7316725. eCollection 2016.

14.

Deazaguanine derivatives, examples of crosstalk between RNA and DNA modification pathways.

Hutinet G, Swarjo MA, de Crécy-Lagard V.

RNA Biol. 2017 Sep 2;14(9):1175-1184. doi: 10.1080/15476286.2016.1265200. Epub 2016 Dec 12. Review.

15.

Mutations in PROSC Disrupt Cellular Pyridoxal Phosphate Homeostasis and Cause Vitamin-B6-Dependent Epilepsy.

Darin N, Reid E, Prunetti L, Samuelsson L, Husain RA, Wilson M, El Yacoubi B, Footitt E, Chong WK, Wilson LC, Prunty H, Pope S, Heales S, Lascelles K, Champion M, Wassmer E, Veggiotti P, de Crécy-Lagard V, Mills PB, Clayton PT.

Am J Hum Genet. 2016 Dec 1;99(6):1325-1337. doi: 10.1016/j.ajhg.2016.10.011.

16.

Arabidopsis TH2 Encodes the Orphan Enzyme Thiamin Monophosphate Phosphatase.

Mimura M, Zallot R, Niehaus TD, Hasnain G, Gidda SK, Nguyen TN, Anderson EM, Mullen RT, Brown G, Yakunin AF, de Crécy-Lagard V, Gregory JF 3rd, McCarty DR, Hanson AD.

Plant Cell. 2016 Oct;28(10):2683-2696. Epub 2016 Sep 27.

17.

Functional Annotations of Paralogs: A Blessing and a Curse.

Zallot R, Harrison KJ, Kolaczkowski B, de Crécy-Lagard V.

Life (Basel). 2016 Sep 8;6(3). pii: E39. doi: 10.3390/life6030039.

18.

Assignment of function to a domain of unknown function: DUF1537 is a new kinase family in catabolic pathways for acid sugars.

Zhang X, Carter MS, Vetting MW, San Francisco B, Zhao S, Al-Obaidi NF, Solbiati JO, Thiaville JJ, de Crécy-Lagard V, Jacobson MP, Almo SC, Gerlt JA.

Proc Natl Acad Sci U S A. 2016 Jul 19;113(29):E4161-9. doi: 10.1073/pnas.1605546113. Epub 2016 Jul 11.

19.

Systematic identification and analysis of frequent gene fusion events in metabolic pathways.

Henry CS, Lerma-Ortiz C, Gerdes SY, Mullen JD, Colasanti R, Zhukov A, Frelin O, Thiaville JJ, Zallot R, Niehaus TD, Hasnain G, Conrad N, Hanson AD, de Crécy-Lagard V.

BMC Genomics. 2016 Jun 24;17:473. doi: 10.1186/s12864-016-2782-3.

20.

A family of metal-dependent phosphatases implicated in metabolite damage-control.

Huang L, Khusnutdinova A, Nocek B, Brown G, Xu X, Cui H, Petit P, Flick R, Zallot R, Balmant K, Ziemak MJ, Shanklin J, de Crécy-Lagard V, Fiehn O, Gregory JF 3rd, Joachimiak A, Savchenko A, Yakunin AF, Hanson AD.

Nat Chem Biol. 2016 Aug;12(8):621-7. doi: 10.1038/nchembio.2108. Epub 2016 Jun 20.

PMID:
27322068
21.

Members of a Novel Kinase Family (DUF1537) Can Recycle Toxic Intermediates into an Essential Metabolite.

Thiaville JJ, Flood J, Yurgel S, Prunetti L, Elbadawi-Sidhu M, Hutinet G, Forouhar F, Zhang X, Ganesan V, Reddy P, Fiehn O, Gerlt JA, Hunt JF, Copley SD, de Crécy-Lagard V.

ACS Chem Biol. 2016 Aug 19;11(8):2304-11. doi: 10.1021/acschembio.6b00279. Epub 2016 Jun 24.

PMID:
27294475
22.

'Nothing of chemistry disappears in biology': the Top 30 damage-prone endogenous metabolites.

Lerma-Ortiz C, Jeffryes JG, Cooper AJ, Niehaus TD, Thamm AM, Frelin O, Aunins T, Fiehn O, de Crécy-Lagard V, Henry CS, Hanson AD.

Biochem Soc Trans. 2016 Jun 15;44(3):961-71. doi: 10.1042/BST20160073. Review.

PMID:
27284066
23.

The Response of Acinetobacter baumannii to Zinc Starvation.

Nairn BL, Lonergan ZR, Wang J, Braymer JJ, Zhang Y, Calcutt MW, Lisher JP, Gilston BA, Chazin WJ, de Crécy-Lagard V, Giedroc DP, Skaar EP.

Cell Host Microbe. 2016 Jun 8;19(6):826-36. doi: 10.1016/j.chom.2016.05.007.

24.

Experimental and Metabolic Modeling Evidence for a Folate-Cleaving Side-Activity of Ketopantoate Hydroxymethyltransferase (PanB).

Thiaville JJ, Frelin O, García-Salinas C, Harrison K, Hasnain G, Horenstein NA, Díaz de la Garza RI, Henry CS, Hanson AD, de Crécy-Lagard V.

Front Microbiol. 2016 Mar 31;7:431. doi: 10.3389/fmicb.2016.00431. eCollection 2016.

25.

tRNAmodpred: A computational method for predicting posttranscriptional modifications in tRNAs.

Machnicka MA, Dunin-Horkawicz S, de Crécy-Lagard V, Bujnicki JM.

Methods. 2016 Sep 1;107:34-41. doi: 10.1016/j.ymeth.2016.03.013. Epub 2016 Mar 23.

26.

Novel genomic island modifies DNA with 7-deazaguanine derivatives.

Thiaville JJ, Kellner SM, Yuan Y, Hutinet G, Thiaville PC, Jumpathong W, Mohapatra S, Brochier-Armanet C, Letarov AV, Hillebrand R, Malik CK, Rizzo CJ, Dedon PC, de Crécy-Lagard V.

Proc Natl Acad Sci U S A. 2016 Mar 15;113(11):E1452-9. doi: 10.1073/pnas.1518570113. Epub 2016 Feb 29.

27.

Evidence That COG0325 Proteins are involved in PLP Homeostasis.

Prunetti L, El Yacoubi B, Schiavon CR, Kirkpatrick E, Huang L, Bailly M, ElBadawi-Sidhu M, Harrison K, Gregory JF, Fiehn O, Hanson AD, de Crécy-Lagard V.

Microbiology. 2016 Feb 12. doi: 10.1099/mic.0.000255. [Epub ahead of print]

PMID:
26872910
28.

Global translational impacts of the loss of the tRNA modification t6A in yeast.

Thiaville PC, Legendre R, Rojas-Benítez D, Baudin-Baillieu A, Hatin I, Chalancon G, Glavic A, Namy O, de Crécy-Lagard V.

Microb Cell. 2016 Jan 1;3(1):29-45.

29.

Metabolite Damage and Metabolite Damage Control in Plants.

Hanson AD, Henry CS, Fiehn O, de Crécy-Lagard V.

Annu Rev Plant Biol. 2016 Apr 29;67:131-52. doi: 10.1146/annurev-arplant-043015-111648. Epub 2015 Nov 19. Review.

PMID:
26667673
30.

Bacterial and plant HAD enzymes catalyse a missing phosphatase step in thiamin diphosphate biosynthesis.

Hasnain G, Roje S, Sa N, Zallot R, Ziemak MJ, de Crécy-Lagard V, Gregory JF 3rd, Hanson AD.

Biochem J. 2016 Jan 15;473(2):157-66. doi: 10.1042/BJ20150805. Epub 2015 Nov 4.

PMID:
26537753
31.

Essentiality of threonylcarbamoyladenosine (t(6)A), a universal tRNA modification, in bacteria.

Thiaville PC, El Yacoubi B, Köhrer C, Thiaville JJ, Deutsch C, Iwata-Reuyl D, Bacusmo JM, Armengaud J, Bessho Y, Wetzel C, Cao X, Limbach PA, RajBhandary UL, de Crécy-Lagard V.

Mol Microbiol. 2015 Dec;98(6):1199-221. doi: 10.1111/mmi.13209. Epub 2015 Oct 7.

32.

Proteins of Unknown Biochemical Function: A Persistent Problem and a Roadmap to Help Overcome It.

Niehaus TD, Thamm AM, de Crécy-Lagard V, Hanson AD.

Plant Physiol. 2015 Nov;169(3):1436-42. doi: 10.1104/pp.15.00959. Epub 2015 Aug 12.

33.

Functional Diversity of Haloacid Dehalogenase Superfamily Phosphatases from Saccharomyces cerevisiae: BIOCHEMICAL, STRUCTURAL, AND EVOLUTIONARY INSIGHTS.

Kuznetsova E, Nocek B, Brown G, Makarova KS, Flick R, Wolf YI, Khusnutdinova A, Evdokimova E, Jin K, Tan K, Hanson AD, Hasnain G, Zallot R, de Crécy-Lagard V, Babu M, Savchenko A, Joachimiak A, Edwards AM, Koonin EV, Yakunin AF.

J Biol Chem. 2015 Jul 24;290(30):18678-98. doi: 10.1074/jbc.M115.657916. Epub 2015 Jun 12.

34.

The Levels of a Universally Conserved tRNA Modification Regulate Cell Growth.

Rojas-Benitez D, Thiaville PC, de Crécy-Lagard V, Glavic A.

J Biol Chem. 2015 Jul 24;290(30):18699-707. doi: 10.1074/jbc.M115.665406. Epub 2015 Jun 10.

35.

Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes.

Magnúsdóttir S, Ravcheev D, de Crécy-Lagard V, Thiele I.

Front Genet. 2015 Apr 20;6:148. doi: 10.3389/fgene.2015.00148. eCollection 2015.

36.

The emerging role of complex modifications of tRNALysUUU in signaling pathways.

Thiaville PC, de Crécy-Lagard V.

Microb Cell. 2015 Jan;2(1):1-4. No abstract available.

37.

Diversity of the biosynthesis pathway for threonylcarbamoyladenosine (t(6)A), a universal modification of tRNA.

Thiaville PC, Iwata-Reuyl D, de Crécy-Lagard V.

RNA Biol. 2014;11(12):1529-39. doi: 10.4161/15476286.2014.992277. Review.

38.

A directed-overflow and damage-control N-glycosidase in riboflavin biosynthesis.

Frelin O, Huang L, Hasnain G, Jeffryes JG, Ziemak MJ, Rocca JR, Wang B, Rice J, Roje S, Yurgel SN, Gregory JF 3rd, Edison AS, Henry CS, de Crécy-Lagard V, Hanson AD.

Biochem J. 2015 Feb 15;466(1):137-45. doi: 10.1042/BJ20141237.

39.
40.

Variations in metabolic pathways create challenges for automated metabolic reconstructions: Examples from the tetrahydrofolate synthesis pathway.

de Crécy-Lagard V.

Comput Struct Biotechnol J. 2014 Jun 11;10(16):41-50. doi: 10.1016/j.csbj.2014.05.008. eCollection 2014 Jun. Review.

41.

Cross kingdom functional conservation of the core universally conserved threonylcarbamoyladenosine tRNA synthesis enzymes.

Thiaville PC, El Yacoubi B, Perrochia L, Hecker A, Prigent M, Thiaville JJ, Forterre P, Namy O, Basta T, de Crécy-Lagard V.

Eukaryot Cell. 2014 Sep;13(9):1222-31. doi: 10.1128/EC.00147-14. Epub 2014 Jul 18.

42.

Salvage of the thiamin pyrimidine moiety by plant TenA proteins lacking an active-site cysteine.

Zallot R, Yazdani M, Goyer A, Ziemak MJ, Guan JC, McCarty DR, de Crécy-Lagard V, Gerdes S, Garrett TJ, Benach J, Hunt JF, Shintani DK, Hanson AD.

Biochem J. 2014 Oct 1;463(1):145-55. doi: 10.1042/BJ20140522.

PMID:
25014715
43.

Promiscuous and adaptable enzymes fill "holes" in the tetrahydrofolate pathway in Chlamydia species.

Adams NE, Thiaville JJ, Proestos J, Juárez-Vázquez AL, McCoy AJ, Barona-Gómez F, Iwata-Reuyl D, de Crécy-Lagard V, Maurelli AT.

MBio. 2014 Jul 8;5(4):e01378-14. doi: 10.1128/mBio.01378-14.

44.

High-throughput comparison, functional annotation, and metabolic modeling of plant genomes using the PlantSEED resource.

Seaver SM, Gerdes S, Frelin O, Lerma-Ortiz C, Bradbury LM, Zallot R, Hasnain G, Niehaus TD, El Yacoubi B, Pasternak S, Olson R, Pusch G, Overbeek R, Stevens R, de Crécy-Lagard V, Ware D, Hanson AD, Henry CS.

Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9645-50. doi: 10.1073/pnas.1401329111. Epub 2014 Jun 9.

45.

Plant, animal, and fungal micronutrient queuosine is salvaged by members of the DUF2419 protein family.

Zallot R, Brochier-Armanet C, Gaston KW, Forouhar F, Limbach PA, Hunt JF, de Crécy-Lagard V.

ACS Chem Biol. 2014 Aug 15;9(8):1812-25. doi: 10.1021/cb500278k. Epub 2014 Jun 17.

46.

Predicting the minimal translation apparatus: lessons from the reductive evolution of mollicutes.

Grosjean H, Breton M, Sirand-Pugnet P, Tardy F, Thiaucourt F, Citti C, Barré A, Yoshizawa S, Fourmy D, de Crécy-Lagard V, Blanchard A.

PLoS Genet. 2014 May 8;10(5):e1004363. doi: 10.1371/journal.pgen.1004363. eCollection 2014 May.

47.

Mannitol-1-phosphate dehydrogenases/phosphatases: a family of novel bifunctional enzymes for bacterial adaptation to osmotic stress.

Sand M, Rodrigues M, González JM, de Crécy-Lagard V, Santos H, Müller V, Averhoff B.

Environ Microbiol. 2015 Mar;17(3):711-9. doi: 10.1111/1462-2920.12503. Epub 2014 Jun 4.

PMID:
24800891
48.

Integrative data-mining tools to link gene and function.

El Yacoubi B, de Crécy-Lagard V.

Methods Mol Biol. 2014;1101:43-66. doi: 10.1007/978-1-62703-721-1_4.

PMID:
24233777
49.

The COMBREX project: design, methodology, and initial results.

Anton BP, Chang YC, Brown P, Choi HP, Faller LL, Guleria J, Hu Z, Klitgord N, Levy-Moonshine A, Maksad A, Mazumdar V, McGettrick M, Osmani L, Pokrzywa R, Rachlin J, Swaminathan R, Allen B, Housman G, Monahan C, Rochussen K, Tao K, Bhagwat AS, Brenner SE, Columbus L, de Crécy-Lagard V, Ferguson D, Fomenkov A, Gadda G, Morgan RD, Osterman AL, Rodionov DA, Rodionova IA, Rudd KE, Söll D, Spain J, Xu SY, Bateman A, Blumenthal RM, Bollinger JM, Chang WS, Ferrer M, Friedberg I, Galperin MY, Gobeill J, Haft D, Hunt J, Karp P, Klimke W, Krebs C, Macelis D, Madupu R, Martin MJ, Miller JH, O'Donovan C, Palsson B, Ruch P, Setterdahl A, Sutton G, Tate J, Yakunin A, Tchigvintsev D, Plata G, Hu J, Greiner R, Horn D, Sjölander K, Salzberg SL, Vitkup D, Letovsky S, Segrè D, DeLisi C, Roberts RJ, Steffen M, Kasif S.

PLoS Biol. 2013;11(8):e1001638. doi: 10.1371/journal.pbio.1001638. Epub 2013 Aug 27. No abstract available.

50.

Identification of the thiamin salvage enzyme thiazole kinase in Arabidopsis and maize.

Yazdani M, Zallot R, Tunc-Ozdemir M, de Crécy-Lagard V, Shintani DK, Hanson AD.

Phytochemistry. 2013 Oct;94:68-73. doi: 10.1016/j.phytochem.2013.05.017. Epub 2013 Jun 28.

PMID:
23816351

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