Research Topics
| Valerie De Crecy LagardSummaryAffiliation: University of Florida Country: USA Publications
Research Grants
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Detail Information
Publications
Comparative genomics guided discovery of two missing archaeal enzyme families involved in the biosynthesis of the pterin moiety of tetrahydromethanopterin and tetrahydrofolateVALERIE DE CRECY-LAGARD
Department of Microbiology and Department of Microbiology and Cell Science, University of Florida, P O Box 110700, Gainesville, Florida 32611 0700, United States
ACS Chem Biol 7:1807-16. 2012..The discovery of these missing genes solves a long-standing mystery and provides novel examples of convergent evolutions where proteins of dissimilar architectures perform the same biochemical function...- Comparative genomic analysis of the DUF71/COG2102 family predicts roles in diphthamide biosynthesis and B12 salvageVALERIE DE CRECY-LAGARD
Department of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA
Biol Direct 7:32. 2012..Here, we illustrate this shift with the analysis of the DUF71/COG2102 family, a subgroup of the PP-loop ATPase family... 
Biosynthesis and function of posttranscriptional modifications of transfer RNAsBasma El Yacoubi
Department of Microbiology, University of Florida, Gainesville, Florida 32611 0700, USA
Annu Rev Genet 46:69-95. 2012....- YeiR: a metal-binding GTPase from Escherichia coli involved in metal homeostasisCrysten E Blaby-Haas
Department of Microbiology and Cell Science, University of Florida, PO Box 110700, Gainesville, FL 32611 0700, USA
Metallomics 4:488-97. 2012..These results support the predicted connection between the COG0523 P-loop GTPases and roles in metal homeostasis... - Predicting the pathway involved in post-translational modification of elongation factor P in a subset of bacterial speciesMarc Bailly
Department of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA
Biol Direct 5:3. 2010..The homologous lysine of EF-P is also modified to a spermidine derivative in Escherichia coli. However, the biosynthesis pathway of this modification in the bacterial EF-P is yet to be elucidated... - Synergistic use of plant-prokaryote comparative genomics for functional annotationsSvetlana Gerdes
Fellowship for Interpretation of Genomes, Burr Ridge, IL, USA
BMC Genomics 12:S2. 2011..This approach bridges the gap between automated homology-based annotations and the classical gene discovery efforts of experimentalists, and is more powerful than purely computational approaches to identifying gene-function associations... - SOLiD sequencing of four Vibrio vulnificus genomes enables comparative genomic analysis and identification of candidate clade-specific virulence genesPaul A Gulig
Department of Molecular Genetics and Microbiology, University of Florida, Gainesville, Florida, USA
BMC Genomics 11:512. 2010..SOLiD sequencing of four V. vulnificus strains representing different clades (1 and 2) and biotypes (1 and 2) was used for comparative genomic analysis... - A subset of the diverse COG0523 family of putative metal chaperones is linked to zinc homeostasis in all kingdoms of lifeCrysten E Haas
Department of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA
BMC Genomics 10:470. 2009..Even though the first COG0523-encoding gene, cobW, was identified almost 20 years ago, little is known concerning the function of other members belonging to this ubiquitous family... - RNomics and Modomics in the halophilic archaea Haloferax volcanii: identification of RNA modification genesHenri Grosjean
Department of Microbiology, University of Florida, Gainsville, FL 32611, Florida, USA
BMC Genomics 9:470. 2008.... - Comparative genomics of bacterial and plant folate synthesis and salvage: predictions and validationsVALERIE DE CRECY-LAGARD
Department of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA
BMC Genomics 8:245. 2007..This study reports the results of the analysis and integrates them with new and existing experimental data... 
Comparative RNomics and modomics in Mollicutes: prediction of gene function and evolutionary implicationsVALERIE DE CRECY-LAGARD
Department of Microbiology, University of Florida, Gainesville 32611 0700, USA
IUBMB Life 59:634-58. 2007....- Finding novel metabolic genes through plant-prokaryote phylogenomicsVALERIE DE CRECY-LAGARD
Microbiology and Cell Science Department, University of Florida, Gainesville, FL 32611, USA
Trends Microbiol 15:563-70. 2007..This breaks with the past pattern of gene discovery, in which the information flow was most often unidirectional from prokaryotes to plants... - Biosynthesis of wyosine derivatives in tRNA: an ancient and highly diverse pathway in ArchaeaVALERIE DE CRECY-LAGARD
Department of Microbiology and Cell Science, University of Florida, FL, USA
Mol Biol Evol 27:2062-77. 2010..Finally, we proposed that the duplication of the trm5 gene in some Archaea led to a change in function from N1 methylation of guanosine to C7 methylation of 4-demethylwyosine (imG-14)... - Consistent alignment of metabolic pathways without abstractionFerhat Ay
Department of Computer Science and Engineering, University of Florida, Gainesville, FL 32611, USA
Comput Syst Bioinformatics Conf 7:237-48. 2008..Our experiments show that, our method finds biologically and statistically significant alignments in the order of seconds for pathways with approximately 100 entities... - A fast and accurate algorithm for comparative analysis of metabolic pathwaysFerhat Ay
Department of Computer Science and Engineering, University of Florida, Gainesville, FL 32611, USA
J Bioinform Comput Biol 7:389-428. 2009..AVAILABILITY: Our software and the source code in C programming language is available at http://bioinformatics.cise.ufl.edu/pal.html... - 'Unknown' proteins and 'orphan' enzymes: the missing half of the engineering parts list--and how to find itAndrew D Hanson
Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA
Biochem J 425:1-11. 2010..Furthermore, it is cost-efficient and increasingly straightforward to deploy owing to a proliferation of databases and associated tools... - Identification of genes encoding tRNA modification enzymes by comparative genomicsVALERIE DE CRECY-LAGARD
Department of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA
Methods Enzymol 425:153-83. 2007..Methods that link gene and function but do not rely on sequence homology will be detailed, with examples taken from the tRNA modification field... - 6-pyruvoyltetrahydropterin synthase paralogs replace the folate synthesis enzyme dihydroneopterin aldolase in diverse bacteriaAnne Pribat
Horticultural Sciences Department, University of Florida, Gainesville, Florida 32611, USA
J Bacteriol 191:4158-65. 2009.... - Biosynthesis of 7-deazaguanosine-modified tRNA nucleosides: a new role for GTP cyclohydrolase IGabriella Phillips
Department of Microbiology, University of Florida, Gainesville, FL 32611 0700, USA
J Bacteriol 190:7876-84. 2008..These results link the production of a tRNA-modified base to primary metabolism and further clarify the biosynthetic pathway for these complex modified nucleosides... - Phylogenomic and functional analysis of pterin-4a-carbinolamine dehydratase family (COG2154) proteins in plants and microorganismsValeria Naponelli
Department of Horticultural Sciences, University of Florida, Gainesville, Florida 32611, USA
Plant Physiol 146:1515-27. 2008..Besides this role, we propose that partnerless PCDs support the function of as yet unrecognized pterin-dependent enzymes... - FolX and FolM are essential for tetrahydromonapterin synthesis in Escherichia coli and Pseudomonas aeruginosaAnne Pribat
University of Florida, Horticultural Sciences Department, Gainesville, FL 32611, USA
J Bacteriol 192:475-82. 2010.... - Discovery and characterization of an amidinotransferase involved in the modification of archaeal tRNAGabriela Phillips
Department of Microbiology, University of Florida, Gainesville, Florida 32611 0700, USA
J Biol Chem 285:12706-13. 2010..This is the only example of the conversion of a nitrile to a formamidine known in biology and represents a new class of amidinotransferase chemistry... - The universal YrdC/Sua5 family is required for the formation of threonylcarbamoyladenosine in tRNABasma El Yacoubi
Department of Microbiology, University of Florida, Gainesville, FL 32611 0700, USA
Nucleic Acids Res 37:2894-909. 2009..This work lays the foundation for elucidating the function of a protein family found in every sequenced genome to date and understanding the role of t(6)A in vivo... - A Gateway platform for functional genomics in Haloferax volcanii: deletion of three tRNA modification genesBasma El Yacoubi
Department of Microbiology and Department of Microbiology and Cell Science, University of Florida, Gainesville, FL 32611, USA
Archaea 2:211-9. 2009..Preliminary phenotypic analysis of the deletion mutants was conducted, and confirmed all three predictions... - A role for tetrahydrofolates in the metabolism of iron-sulfur clusters in all domains of lifeJeffrey C Waller
Horticultural Sciences, Food Science and Human Nutrition, Microbiology and Cell Science Departments, and Department of Biochemistry and Molecular Biology and National High Magnetic Field Laboratory, and McKnight Brain Institute, University of Florida, Gainesville, FL 32611, USA
Proc Natl Acad Sci U S A 107:10412-7. 2010..Thus COG0354 proteins have an ancient, conserved, folate-dependent function in the activity of certain Fe/S cluster enzymes...
Research Grants
- Biosynthesis of hypermodified guanosinesValerie De Crecy Lagard; Fiscal Year: 2007..Furthermore, one of the enzymes is a novel nitrile oxidoreductase that may have applications in industrial biocatalysis. ..
- Biosynthesis of hypermodified gaunosines.Valerie De Crecy Lagard; Fiscal Year: 2010..Furthermore, one of the enzymes is a novel nitrile oxidoreductase that may have applications in industrial biocatalysis. ..