SELECTED PUBLICATIONS
|
SELECTED PUBLICATIONS |
|||
|
||||
| COIN PRESSE | RÉSUMÉ | HISTOIRE DE LA BIOLOGIE | SUMMARY | JOURNALIST'S CORNER |
Before 2014, only those publications that were cited
more than 30 times at the ISI are shown
The 122 publications cited more than 50 times at
the ISI are shown in green
Google Scholar provides a more complete list of citations than the ISI for recent years
Complete
publications
Publications in philosophy and history of sciences
M Cohn, A Danchin, M
Grunberg-Manago
Proton magnetic
relaxation studies of manganous complexes of transfer RNA and related
compounds
J Mol Biol (1969) 39: 199-217
A Danchin, M Guéron
Cooperative binding
of manganese (II) to transfer RNA
Eur J Biochem (1970) 16: 532-536
A Danchin
tRNA structure and
binding sites for cations
Biopolymers (1972) 11: 1317-1333
|
|
JP Changeux, P Courrège, A Danchin A theory of the epigenesis of neuronal networks by selective stabilisation of synapses Proc Natl Acad Sci USA (1973) 70: 2974-2978 |
A Danchin
Does formylation of
initiator tRNA act as a regulatory signal in E coli ?
FEBS Letters (1973) 34: 327-332
MM Werber, A Oplatka, A Danchin
Affinity labelling of rabbity muscle myosin with a cobalt(III) adenosine
triphosphate complex
Biochemistry (1974) 13: 2683-2688
|
|
JP Changeux, A Danchin Selective stabilisation of developing synapses as a mechanism for the specification of neuronal networks Nature (1973) 264: 705-712 |
M Uzan, A Danchin
A rapid test for the relA
mutation in E coli
Biochem Biophys Res Comm (1976) 69: 751-758
HU Petersen, A Danchin, M Grunberg-Manago
Toward an
understanding of the formylation of initiator tRNA methionine in
prokaryotic protein synthesis II A two-state model for the 70S
ribosome
Biochemistry (1976) 15: 1357-1362
HU Petersen, E Joseph, A Ullmann, A Danchin
Formylation of
initiator tRNA methionine in prokaryotic protein synthesis: in
vivo polarity in lactose operon expression
J Bacteriol (1978) 135: 453-459
M Uzan, A Danchin
Correlation between
the serine sensibility and derepressibility of the ilv genes
in Ecoli relA mutants
Molec Gen Genet (1978) 165: 21-30
A Ullmann, E Joseph, A Danchin
Cyclic AMP as a
modulator of polarity in polycistronic transcriptional units
Proc Natl Acad Sci USA (1979) 76: 3194-3198
1980-1985
C Guidi-Rontani, A Danchin, A Ullmann
Catabolite repression
in Escherichia coli mutants lacking cyclic AMP receptor
protein
Proc Natl Acad Sci USA (1980) 77: 5799-5801
A Roy, A Danchin
Restriction map of
the cya region of Escherichia coli K 12 chromosome
Biochimie (1981) 63: 719-722
C Guidi-Rontani, A Danchin, A Ullmann
Isolation and
characterization of a mutant affected in the regulation of adenylate
cyclase of Escherichia coli
J Bacteriol (1981) 148: 753-761
A Roy, A Danchin
The cya locus
of Escherichia coli K 12: organization and gene products
Molec Gen Genet (1982) 188: 465-471
A Roy, C Haziza, A Danchin
Regulation of
adenylate cyclase synthesis in Escherichia coli: nucleotide
sequence of the control region
EMBO J (1983) 2: 791-797
A Roy, A Danchin, E Joseph, A Ullmann
Two functional
domains in adenylate cyclase of Escherichia coli
J Mol Biol (1983) 165: 197-202
F Traincard, T Ternynck, A Danchin, S Avrameas
Une technique
immunoenzymatique pour la mise en évidence de l'hybridation
moléculaire entre acides nucléiques
Ann Immunol (Pasteur) (1983) 134D: 399-405
A Ullmann, A Danchin
Role of cyclic AMP in bacteria
Adv Cyc Nucl Res (1983) 15: 1-53
H Aiba, K Mori, M Tanaka, T Ooi, A Roy, A Danchin
The complete
nucleotide sequence of the adenylate cyclase gene of Escherichia
coli
Nucl Acid Res (1984) 12: 9427-9440
C Jacq, [...], A Danchin
Antibodies against a
fused "LacZ-yeast mitochondrial intron" gene product allow
identification of the mRNA-maturase encoded by the fourth intron of
the yeast cob-box gene
EMBO J (1984) 3: 1567-1572
H De Reuse, A Roy, A Danchin
Analysis of the ptsH-
ptsI- crr region in Escherichia coli K-12 nucleotide
sequence of the ptsH gene
Gene (1985) 35: 199-220
L Hedegaard, A Danchin
The cya gene region of Erwinia chrysanthemi B374:
organisation and gene products
Mol Gen Genet (1985) 201: 38-42
Creation of the Regulation of Gene Expression Unit 1986-1990
O Gascuel, A Danchin
Protein export in
prokaryotes and eukaryotes: indications for a difference in the
mechanism of exportation
J Mol Evol (1986) 24: 130-141
I St Girons, [...] A Danchin, O Barzu
Structural and catalytic characteristics of E coli adenylate
kinase
J Biol Chem (1987) 262: 622-629
P Glaser, [...] A Danchin
The calmodulin-sensitive adenylate cyclase of Bordetella pertussis:
cloning and expression in Escherichia
Mol Microbiol (1988) 2: 19-30
The adenylate cyclase toxin of Bordetella
pertussis bacteria is stimulated by the human regulatory
protein, calmodulin. A general strategy, using the
adenylate-cyclase-calmodulin interaction as a tool, allowed cloning
and expression of the toxin in Escherichia coli in the absence
of any B. pertussis trans-activating factor. The protein is
synthesized as a large precursor composed of 1706 amino acids. The
calmodulin-stimulated catalytic activity lies in the amino-terminal
450 amino acids of the adenylate cyclase. Expressed in E. coli
the toxin is recognized in Western blots by antibodies directed
against purified B. pertussis adenylate cyclase, and its
activity is inhibited by these antibodies
H De Reuse, A Danchin
The ptsH, ptsI
and crr genes of the Escherichia coli PEP dependent
phosphotransferase system (PTS): a complex operon with several modes
of transcription
J Bacteriol (1988) 170: 3827-3837
M Mock, [...] A Danchin, A Ullmann
Cloning and expression of the calmodulin-sensitive Bacillus
anthracis adenylate cyclase in Escherichia coli
Gene (1988) 64: 277-284
P Glaser, [...] A Danchin
Secretion of cyclolysin, the calmodulin-sensitive adenylate
cyclase-haemolysin bifunctional protein of B. pertussis
EMBO J (1988) 7: 3997-4004
V Escuyer, [...] A Danchin, M Mock
Structural homology between virulence associated bacterial adenylate
cyclases
Gene (1988) 71: 293-298
P Glaser, [...] A Danchin
Identification of residues essential for catalysis and binding of
calmodulin in B. pertussis adenylate cyclase by site-directed
mutagenesis
EMBO J (1989) 8: 967-972
P Bertin, [...] A Danchin
Mutations in bglY, the structural gene for the DNA-binding
protein H1, affect expression of several Escherichia coli
genes
Biochimie (1990) 72:889-891
S Lévy, GQ Zeng, A Danchin
Cyclic AMP synthesis in Escherichia coli strains bearing known
deletions in the pts phosphotransferase operon
Gene (1990) 86: 27-33
A Danchin
Homeotopic transformation and the origin of translation
Progress in Biophysics and Molecular Biology (1990) 54: 81-86
P Lejeune, A Danchin
Mutations in the bglY
gene increase the frequency of spontaneous deletions in E coli
K-12
Proc Natl Acad Sci (1990) 87: 360-363
V De Crécy-Lagard, [...] A Danchin
A Xanthomonas campestris pv campestris protein similar to
catabolite activationfactor is involved in the regulation of
phytopathogenicity
J Bacteriol (1990) 172: 5877-5883
H de Reuse, A
Danchin
Positive regulation of the pts operon of E coli genetic
evidence for a signal transduction mechanism
J Bacteriol (1991) 173: 727-733
H Munier, [...] O Barzu
Isolation and characterization of catalytic and calmodulin-binding
domains of Bordetella pertussis adenylate cyclase
Eur J Biochem (1991) 196: 469-474
C Médigue, [...] A Danchin
Evidence for
horizontal gene transfer in Escherichia coli speciation
J Mol Biol (1991) 222: 851-856
After extracting more than 780 identified Escherichia
coli genes from available data libraries, we investigated the
codon usage of the corresponding coding sequences and extended the
study of gene classes, thus obtained, to the nature and intensity of
short nucleotide sequence selection, related to constraints operating
at the nucleotide level. Using Correspondence Analysis we found that
three classes ought to be included in order to match all data now
available. The first two classes, as known, encompass genes expressed
either continuously at a high level, or at a low level and/or rarely;
the third class consists of genes corresponding to surface elements of
the cell, genes coming from mobile elements as well as genes resulting
in a high fidelity of DNA replication. This suggests that bacterial
strains cultivated in the laboratory have been fixed by specific use
of antimutator genes that are horizontally exchanged
M Santana, [...] A Danchin, P Glaser
Molecular cloning, sequencing and physiological characterization of the
qox operon from Bacillus subtilis encoding the aa3-600 quinol
oxidase
J Biol Chem (1992) 267: 10225-10231
A Danchin
Phylogeny of
adenylyl cyclases
Adv Cyc Nuc Prot Phos Res (1993) 27: 109-162
C Médigue, [...] A Danchin
Colibri: a functional
data base for the Escherichia coli genome
Microbiol Rev (1993) 57: 623-654
P Glaser, [...] A Danchin
Bacillus subtilis genome project: cloning and sequencing of the
97 Kb region from 325o to 333o
Mol Microbiol (1993) 10: 371-384
O Barzu, A Danchin
Adenylyl cyclases: a heterogeneous class of ATP-utilizing enzymes
Prog Nucleic Acid Res Mol Biol (1994) 49: 241-283
P Bertin, [...] A Danchin , E Collatz
The H-NS protein is involved in the biogenesis of flagella in Escherichia
coli
J Bacteriol (1994) 176: 5537-5540
M Santana, [...] A Danchin, P Glaser
Bacillus subtilis
Fo F1 ATPase: DNA sequence of the atp operon and
characterization of atp mutants
J Bacteriol (1994) 176: 6802-6811
P Glaser, A Danchin,
[...] M Nakano
Identification and isolation of a gene required for nitrate assimilation
and anaerobic growth of Bacillus subtilis
J Bacteriol (1995) 177: 1112-1115
I Moszer, P Glaser, A Danchin
SubtiList: a
relational database for the Bacillus subtilis genome
Microbiology (1995) 141: 261-268
L Serina, [...] A Danchin, [...] O Barzu
Escherichia coli UMP-kinase, a member of the aspartokinase
family, is a hexamer regulated by guanine nucleotides and UTP
Biochemistry (1995) 34: 5066-5074
M Borodovsky, [...] A Danchin
Detection of new genes in the bacterial genome using
Markov models for three gene classes
Nucleic Acids Res (1995) 23: 3554-3562
H Cruz-Ramos, [...] A Danchin, P Glaser
Anaerobic
transcription activation in Bacillus subtilis: identification
of distinct FNR-dependent and independant regulatory mechanisms
EMBO J (1995) 14: 5984-5994
1996-1999
N Bucurenci, [...] A
Danchin, O Barzu, AM Gilles
CMP-Kinase from Escherichia coli is structurally related to
other nucleoside monophosphate kinases
J Biol Chem (1996) 271: 2856-2862
A Hénaut, [...] A Danchin
Uneven distribution of GATC motifs in the Escherichia coli
chromosome, its plasmids and its phages
J Mol Biol (1996) 257: 574-585
MM Nakano, [...] A Danchin, FM Hulett
Two-component
regulatory proteins ResD-ResE are required for transcriptional
activation of fnr upon oxygen limitation in Bacillus
subtilis
J Bacteriol (1996) 178: 3796-3802
C Laurent-Winter, S
Ngo, A Danchin, P Bertin
Role of Escherichia
coli histone-like nucleoid structuring protein in bacterial
metabolism and stress response: identification of targets by
two-dimensional electrophoresis
Eur J Biochem (1997) 244: 767-773
F Kunst, N Ogasawara, I Moszer, [...] H Yoshikawa, A
Danchin
The complete genome
sequence of the Gram-positive bacterium Bacillus subtilis
Nature (1997) 390: 249-256
O Sismeiro, [...] A
Danchin
Aeromonas
hydrophila Adenylyl cyclase 2: a new class of adenylyl
cyclases with thermophilic properties and sequence similarities to
proteins from hyperthermophilic Archaebacteria
J Bacteriol (1998) 180: 3339-3344
A
Sekowska, P Bertin, A Danchin
Characterization of
polyamines synthesis pathway in Bacillus subtilis 168
Mol Microbiol (1998) 29: 851-858
F Delbac, [...] A Danchin, C P Vivarès
On proteins of the
microsporidian invasive apparatus: complete sequence of a polar tube
protein of Encephalitozoon cuniculi
Mol Microbiol (1998) 29: 825-834
P Nitschké, [...] A Danchin
Indigo: a
World-Wide-Web review of genomes and gene functions
FEMS Microbiology Reviews (1998) 22: 207-227
EP Rocha, A Danchin ,
A Viari
Universal
replication biases in bacteria
Mol Microbiol (1999) 32: 11-16
E Presecan-Siedel, [...] A Danchin, P Glaser, I
Martin-Verstraete
Catabolite
regulation of the pta gene as part of carbon flow pathways in
Bacillus subtilis
J Bacteriol (1999) 181: 6889-6897
I Moszer, E P Rocha, A Danchin
Codon usage and
lateral gene transfer in Bacillus subtilis
Current Opinion in Microbiology (1999) 2: 524-528
NN Baranova, A Danchin, AA Neyfakh
Mta, a global
MerR-type regulator of the Bacillus subtilis multidrug-efflux
transporters
Molecular Microbiology (1999) 31: 1549-1559
EP Rocha, A Danchin, A Viari
Analysis of long
repeats in bacterial genomes reveals alternative evolutionary
mechanisms in Bacillus subtilis and other competent
prokaryotes
Molecular Biology, Evolution (1999) 16: 1219-1230
EPC Rocha, A Danchin, A
Viari
Translation
in Bacillus subtilis: roles and trends of initiation and
termination, insights from a genome analysis
Nucleic Acids Res (1999) 27: 3567-3576
C Médigue, F
Rechenmann, A Danchin, A Viari
Imagene: an
integrated computer environment for sequence annotation and analysis
Bioinformatics (1999) 15: 2-15
O Soutourina, [...] A Danchin, P Bertin
Multiple control of
flagellum biosynthesis in Escherichia coli: Role of H-NS
protein and the cyclic AMP-catabolite activator protein complex in
transcription of the flhDC master operon
Journal of Bacteriology (1999) 181: 7500-7508
P Bertin, [...] A Danchin, R Brasseur
The structural and
functional organization of H-NS-like proteins is evolutionarily
conserved in gram-negative bacteria
Molecular Microbiology (1999) 31: 319-329
A Sekowska, HF Kung, A Danchin
Sulfur
metabolism in Escherichia coli and related bacteria, facts and
fiction
J Mol Microbiol Biotechnol (2000) 2 : 145-177
A Sekowska, A Danchin, JL Risler
Phylogeny of related
functions: the case of polyamine biosynthetic enzymes
Microbiology (2000) 146: 1815-1828
Creation of the Unit Genetics of Bacterial Genomes
2001 (star: publications in collaboration with the HKU-Pasteur Research Centre, Hong Kong)
| F Hommais,
[...] A Danchin, P Bertin Large-scale monitoring of pleiotropic regulation of gene expression by the prokaryotic nucleoid-associated protein, H-NS Mol Microbiol (2001) 40: 20-36 |
P Bertin , [...] A Danchin
H-NS and H-NS-like
proteins in Gram-negative bacteria and their multiple role in the
regulation of bacterial metabolism
Biochimie (2001) 83: 235-241
*A Sekowska, [...] A Danchin
Extracting
biological information from DNA arrays: an unexpected link between
arginine and methionine metabolism in Bacillus subtilis
GenomeBiology (2001) 2: 191-1912
|
*EPC Rocha, A Danchin, A Viari |
*A Sekowska, [...] A Danchin
MtnK,
methylthioribose kinase, is a starvation-induced protein in Bacillus
subtilis
BMC Microbiology (2001) 1: 15
MF Hullo, I Moszer, A Danchin, I Martin-Verstraete
CotA of Bacillus
subtilis is a copper-dependent laccase
J Bacteriol (2001) 183: 5426-5430
* EPC Rocha, A Danchin
Ongoing evolution of
strand composition in bacterial genomes
Mol Biol Evol (2001) 18: 1789-1799
OA Soutourina, [...] A Danchin, P Bertin
Regulation of
bacterial motility in response to low pH in Escherichia coli:
the role of H-NS protein
Microbiology (2002) 148: 1543-1551
*S Auger, A Danchin, I Martin-Verstraete
Global expression
profile of Bacillus subtilis grown in the presence of sulfate
or methionine
J Bacteriol (2002) 184: 5179-5186
I Guillouard, [...] A Danchin, I
Martin-Verstraete
Identification of Bacillus
subtilis CysL, a regulator of the cysJI operon, which
encodes sulfite reductase
J Bacteriol (2002) 184: 4681-4689
| S Derzelle, [...] A Danchin, P Bertin Identification, characterization, and regulation of a cluster of genes involved in carbapenem biosynthesis in Photorhabdus luminescens Appl Environ Microbiol (2002) 68: 3780-3789 |
|
|
|
*EPC Rocha, A
Danchin Base composition bias might result from competition for metabolic resources Trends in Genetics (2002) 18: 291-294 |
| *A Sekowska , A
Danchin The methionine salvage pathway in Bacillus subtilis BMC Microbiol (2002) 2: 8 |
| *S Auger, [...] I Martin-Verstraete The metIC methionine biosynthesis operon is controlled by transcription antitermination in Bacillus subtilis Microbiology (2002) 148: 507-518 |
|
| *A Danchin Not every truth is good. The dangers of publishing knowledge about potential bioweapons EMBO Rep (2002) 3: 102-104 |
|
| *S Brunak, A Danchin, M Hattori, H Nakamura,
K Shinozaki, T Matise, D Preuss Nucleotide sequence data policies Science (2002) 298: 1333 |
*I Moszer, [...] A Danchin
SubtiList: the
reference database for the Bacillus subtilis genome
Nucleic Acids Research (2002) 30: 62-65
|
*SX Ren, [...], A Danchin, [...] GP Zhao |
|
| *K Kobayashi, [...], A Danchin, [...], H Yoshikawa,
U Zuber, N Ogasawara Essential Bacillus subtilis genes Proceedings of the National Academy of Sciences, USA, (2003) 100: 4678-4683 |
|
| * EPC Rocha, A Danchin Essentiality, not expressiveness, drives gene-strand bias in bacteria Nature Genet (2003) 34: 377-378 |
C Tendeng, OA Soutourina, A
Danchin, PN Bertin
MvaT proteins in Pseudomonas spp.: a novel class of H-NS-like
proteins
Microbiology (2003) 149: 3047-3050
|
*YQ Zhang, [...] A Danchin, YM Wen |
|
|
E Duchaud, [...], A Danchin, F Kunst |
|
| * TW Ng, G Turinici, A Danchin A double epidemic model for the SARS propagation BMC Infectious diseases (2003) 3: 9 |
|
| * EPC Rocha, A Danchin Gene essentiality determines chromosome organisation in bacteria Nucleic Acids Res (2003) 31: 6570-6577 |
2004 (star: publications in collaboration with the HKU-Pasteur Centre, Hong Kong)
| * EPC Rocha, A Danchin An analysis of determinants of amino-acids substitution rates in bacterial proteins Mol Biol Evol (2004) 21: 108-116 |
|
| F Hommais, [...] A Danchin, P Bertin GadE (YhiE): a novel activator involved in the response to acid environment in Escherichia coli Microbiology (2004) 150: 61-72 |
S Derzelle, [...] A Danchin
The PhoP-PhoQ
two-component regulatory system of Photorhabdus luminescens is
essential for virulence in insects
J Bacteriol (2004) 186: 1270-1279
MF Hullo, [...]A Danchin, I Martin-Verstraete
The metNPQ
operon of Bacillus subtilis encodes an ABC permease
transporting methionine sulfoxide, D- and L-methionine
Res Microbiol (2004) 155: 80-86
* A Sekowska, [...] A Danchin
Bacterial
variations on the methionine salvage pathway
BMC Microbiol (2004) 4: 9
P Burguière, [...] A Danchin, I Martin-Verstraete
Three
different systems participate in L-cystine uptake in Bacillus
subtilis
J Bacteriol (2004) 186: 4875-4884
2005 (star: publications in collaboration with the HKU-Pasteur Research Centre
| H Ashida, A Danchin, A Yokota Was photosynthetic RuBisCO recruited by acquisitive evolution from RuBisCO-like proteins involved in sulfur metabolism? Res Microbiol (2005) 156: 611-618 |
|
| HD Song, [...] A
Danchin, [...] GP Zhao Cross-host evolution of severe acute respiratory syndrome coronavirus in palm civet and human Proc Natl Acad Sci USA (2005) 102: 2430-2435 |
|
| Zhang XW, Yap YL, Danchin A Testing the hypothesis of a recombinant origin of the SARS-associated coronavirus Arch Virol (2005) 150:1-20. doi: 10.1007/s00705-004-0413-9 |
|
| Turlin E, Sismeiro O, Le Caer JP, Labas V,
Danchin A, Biville F 3-phenylpropionate catabolism and the Escherichia coli oxidative stress response .Res Microbiol (2005) 156:312-321. doi: 10.1016/j.resmic.2004.10.012 |
S Auger, MP Gomez, A Danchin, I Martin-Verstraete
The PatB protein of
Bacillus subtilis is a C-S-lyase
Biochimie (2005) 87: 231-238
| Zhang, YL Yap, D Wei, F Chen, A Danchin Molecular diagnosis of human cancer type by gene expression profiles and independent component analysis Eur J Hum Genet (2005) 13:1303-1311 |
|
| G Fang, EPC Rocha, A Danchin How essential are non-essential genes? Mol Biol Evol (2005) 22: 2147-2156 |
|
| C Médigue, [...], G von Heijne, A Danchin Coping with cold: the genome of the versatile marine Antarctica bacterium Pseudoalteromonas haloplanktis TAC125 Genome Res (2005) 15: 1325-1335 |
| M
Bailly-Bechet, A Danchin,[...] M Vergassola Codon usage domains over bacterial chromosomes PLoS Computational Biology (2006) 2: e37 |
|
| U Mechold, [...] A
Danchin Oligoribonuclease is a common downstream target of lithium-induced pAp accumulation in Escherichia coli and human cells Nucleic Acids Res (2006) 34: 2364-2373 |
C Carapito, [...] A
Danchin, [...] MC Lett
Identification
of genes and proteins involved in the pleiotropic response to arsenic
stress in Caenibacter arsenoxydans, a metalloresistant
beta-proteobacterium with an unsequenced genome
Biochimie (2006) 8: 595-606
S Even, [...] A Danchin, I
Martin-Verstraete
Global control
of cysteine metabolism by CymR in Bacillus subtilis
J Bacteriol (2006) 188: 2184-2197
Krin E, Chakroun N, Turlin E, Givaudan A,
Gaboriau F, Bonne I, Rousselle JC, Frangeul L, Lacroix C, Hullo MF,
Marisa L, Danchin A, Derzelle S
Pleiotropic role of quorum-sensing autoinducer 2 in Photorhabdus
luminescens
Appl Environ Microbiol (2006) 72: 6439-6451
Z Qin, [...] A Danchin, H
Jiang, D Qu
Structure-based
discovery of inhibitors of the YycG histidine kinase: New chemical
leads to combat Staphylococcus epidermidis infections
BMC Microbiology (2006) 6: 96
A Danchin
Archives or palimpsests? Bacterial genomes unveil a scenario for the
origin of life
Biological Theory
(2007) 2: 52-61
| A Danchin, G Fang, S Noria The extant core bacterial proteome is an archive of the origin of life Proteomics (2007) 7: 875-889 |
|
| MF
Hullo, [...] A Danchin, I Martin-Verstraete The conversion of methionine to cysteine in Bacillus subtilis and its regulation J Bacteriol (2007) 189: 187-197 |
U Mechold, [...] A
Danchin
YtqI from Bacillus subtilis has both oligoribonuclease and
pAp-phosphatase activity
Nucleic Acids Res (2007) 35: 4552-4561
|
D Muller, [...]
A Danchin, PN Bertin |
| RM
Watt, [...] A Danchin, JD Huang Visualizing the proteome of Escherichia coli: an efficient and versatile method for labeling chromosomal coding DNA sequences (CDSs) with fluorescent protein genes Nucleic Acids Res (2007) 35: e37 |
H Ashida, [...] A Danchin, A Yokota
RuBisCO-like
proteins as the enolase enzyme in the methionine salvage pathway:
functional and evolutionary relationships between RuBisCO-like
proteins and photosynthetic RuBisCO
J Exp Bot (2008) 59: 1543-1554.
| V de Lorenzo, A Danchin Synthetic biology: discovering new worlds and new words EMBO Rep (2008) 9: 822-827 |
|
| G André, [...] A Danchin, I Martin-Verstraete, O
Soutourina S-box and T-box riboswitches and antisense RNA control a sulfur metabolic operon of Clostridium acetobutylicum Nucleic Acids Res (2008) 36: 5955-5969 |
G Fang, EP Rocha, A Danchin
Persistence drives
gene clustering in bacterial genomes
BMC Genomics (2008) 9: 4
C Tanous, O Soutourina, B Raynal, MF Hullo, P Mervelet, AM
Gilles, P Noirot, A Danchin, P England, I Martin-Verstraete
The CymR regulator in complex with the enzyme CysK controls cysteine
metabolism in Bacillus subtilis
J Biol Chem (2008) 283: 35551-35560
| M Riley, JT Staley, A Danchin,[...] LS
Thompson Genomics of an extreme psychrophile, Psychromonas ingrahamii BMC Genomics 9: 210 |
| V Barbe, [...] A Danchin From a consortium sequence to a unified sequence: The Bacillus subtilis 168 reference genome a decade later Microbiology (2009) 155: 1758-1775
|
| A Danchin Bacteria as computers making computers FEMS Microbiol Rev (2009) 33: 3-26 |
|
| Jin Y, Watt RM, Danchin A, Huang JD Small noncoding RNA GcvB is a novel regulator of acid resistance in Escherichia coli. BMC Genomics (2009) 10:165 doi: 10.1186/1471-2164-10-165 |
A Danchin
Cells need safety valves
Bioessays (2009) 31: 769-773
In Escherichia coli, the role of lacA,
the third gene of the lactose operon, has remained a mystery. I
propose that its role is a consequence of the need for cells to have
safety valves to protect them from the osmotic effect produced by
their permeases. Safety valves allow them to cope with the build-up of
osmotic pressure under accidental transient conditions. Multidrug
resistance (MDR) efflux, so called because of our anthropocentrism, is
ubiquitous. However, the formation of simple leakages would result in
pointless influx/efflux cycles. Versatile modifying enzymes with low
sensitivity solve the problem when the modified metabolite is the one
exported by MDR permeases. This may explain the ubiquitous presence of
acetyltransferases, such as LacA, associated with acetyl metabolite
exporters. This scenario of constraints imposed by the efficient
influx of metabolites provides us with a model to follow when
constructing synthetic cells.
M Fang, [...] A Danchin, U Mechold
Degradation of
nanoRNA is performed by multiple redundant RNases in Bacillus
subtilis
Nucleic Acids Res (2009) 37: 5114-5125
O Soutourina,[...] A Danchin, T Msadek, I
Martin-Verstraete
CymR, the master
regulator of cysteine metabolism in Staphylococcus aureus,
controls host sulfur source utilization and plays a role in biofilm
formation
Mol Microbiol (2009) 73: 194-211
| M Touchon, [...], A Danchin, [...], C Médigue, EPC
Rocha, E Denamur Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths PLoS Genetics (2009) 5: e1000344 |
A Danchin
Motivated research
EMBO Reports (2010) 11: 488
| Opening: Three years ago, a senior politician attended his country’s Annual Congress for the Advancement of Science to give the introductory lecture. He asked the attending scientists to make science and research more attractive to young students and the general public, and asked his countrymen to support scientists to address the urgent challenges of global climate change, energy needs and dwindling water resources. It was neither a European nor a US politician, but the Indian Prime Minister Manmohan Singh who made this speech about the relationship between research and its practical applications. This is such an important topic that one might think it deserves appropriate attention in Europe, yet we fail to address it properly. Instead, we just discuss how science should serve society or contribute to the ‘knowledge-based economy’, or how ‘basic’ or ‘fundamental’ research is opposed to ‘applied’ or ‘industrial’ research and how funding for ‘big science’ comes at the expense of ‘little academic’ research. |
E Krin, A Danchin, O Soutourina
RcsB plays a central
role in H-NS-dependent regulation of motility and acid stress
resistance in Escherichia coli
Res Microbiol (2010) 161: 363-371
E Krin, A Danchin, O Soutourina
Decrypting the
H-NS-dependent regulatory cascade of acid stress resistance in Escherichia
coli
BMC Microbiology (2010) 10: 273
| F Piette, [...] A Danchin, P Leprince, G Feller Proteomics of life at low temperatures: trigger factor is the primary chaperone in the Antarctic bacterium Pseudoalteromonas haloplanktis TAC125 Molecular Microbiology (2010) 76: 120-132 |
M Vayssier-Taussat, D Le Rhun, HK Deng, F Biville, S
Cescau, A Danchin, G Marignac, E Lenaour, HJ Boulouis, M Mavris, L
Arnaud, H Yang, J Wang, M Quebatte, P Engel, H Saenz, C Dehio
The Trw type IV secretion system of Bartonella mediates host-specific
adhesion to erythrocytes
PLoS Pathogens (2010) 6: e1000946
PM Binder, A Danchin
Life's demons:
information and order in biology. What subcellular machines gather and
process the information necessary to sustain life?
EMBO Reports (2011) 12: 495-499
|
|
In his seventeenth-century classic, Novum Organum, Francis Bacon wrote, “we cannot command nature except by obeying her” (Bacon, re-ed. 2010). Although our knowledge of living systems is much improved since Bacon’s time, we are still far from understanding—or commanding—all the complex mechanisms of life. To take full advantage of living organisms for the benefit of mankind, we will need to understand those mechanisms to the furthest possible extent. To do so will require that the concept of information and the theories of information science take a more-prominent role in the understanding of living systems... |
| A Danchin, PM Binder, S Noria Antifragility and tinkering in biology (and in business): Flexibility provides an efficient epigenetic way to manage risk Genes (2011), 2: 998-1016; doi:10.3390/genes2040998 |
|
| |
F Piette, [...] A Danchin, P Leprince, G Feller Life in the cold: a proteomic study of cold-repressed proteins in the Antarctic bacterium Pseudoalteromonas haloplanktis TAC125 Applied and Environmental Microbiology (2011) 77: 3881-3883 |
| M Porcar, A Danchin, [...] A Moya The ten grand challenges of synthetic life Systems and Synthetic Biology (2011) 5: 1-9 |
|
| H Rohde, [...], A Danchin, [...] J Xu, the E.
coli O104:H4 Genome Analysis Crowd-sourcing consortium, MJ
Pallen, J Wang, M Aepfelbacher, R Yang Open-source genomics of an isolate from a german family outbreak of Shiga-toxin-producing Escherichia coli O104:H4 New England Journal of Medicine (2011) 365: 718-724 |
|
| Y Wang, [...] A Danchin, P-Y Qian Bacterial niche-specific genome expansion Is coupled with highly frequent gene disruptions in deep-sea sediments PLoS ONE (2011) 6: e29149 |
Y Wang, [...], A Danchin, PY Qian
Hydrothermally
generated aromatic compounds are consumed by bacteria colonizing in
Atlantis II Deep of the Red Sea
ISME J (2011) 5: 1652-1659
B Wilmes, [...] A Danchin, [...] M Schweder
Cytoplasmic
and periplasmic proteomic signatures of exponentially growing cells of
the psychrophilic bacterium Pseudoalteromonas haloplanktis
TAC125
Applied and Environmental Microbiology (2011) 77: 1276-1283
|
|
RM Couture, A Sekowska, G Fang, A
Danchin Linking selenium biogeochemistry to the sulfur-dependent biological detoxification of arsenic Environ Microbiol (2012) 14: 1612-1623. doi: 10.1111/j.1462-2920.2012.02758.x. |
|
|
A Danchin Scaling up synthetic biology: Do not forget the chassis FEBS Letters (2012) 586: 2129-2137 |
| A Danchin Synthetic biology's flywheel EMBO Reports (2012) 13: 92 |
|
|
|
S Engelen, D Vallenet, C Médigue, A
Danchin Distinct co-evolution patterns of genes associated to DNA polymerase III DnaE and PolC BMC Genomics (2012) 13: 69 |
|
|
Karsch-Mizrachi I, Nakamura Y, Cochrane G International Nucleotide Sequence Database Collaboration Advisors: Miyano S, Nakamura H, Sugano S, Danchin A, Savakis B, Weissenbach J, Weng Z, Salzberg S The International Nucleotide Sequence Database Collaboration Nucleic Acids Research (2012) 40: D33-D37 |
MF Liu, [...] A Danchin, HJ Boulouis, F Biville
Identification of a
new nanoRNase in Bartonella
Microbiology (2012)158: 886-895
|
|
G Postic, A Danchin, U Mechold Characterization of NrnA homologs from Mycobacterium tuberculosis and Mycoplasma pneumoniae RNA (2012) 18: 155-165 |
| E Toledano, V Ogryzko, A Danchin, D
Ladant, U Mechold 3’‐5’phosphoadenosine phosphate is an inhibitor of Poly(ADP-ribose) Polymerase 1 and a potential mediator of the lithium-dependent inhibition of PARP‐1 in vivo Biochemical Journal (2012) 443: 485-490 |
|
|
CG Acevedo-Rocha, G Fang, M Schmidt, DW Ussery, A
Danchin From essential to persistent genes: a functional approach to constructing synthetic life Trends Genet (2013) 29: 273-279 |
|
|
E Belda E, A Sekowska, F Le Fèvre, A Morgat, D
Mornico, C Ouzounis, D Vallenet, C Médigue, A Danchin An updated metabolic view of the Bacillus subtilis 168 genome Microbiology (2013) 159: 757-770 |
|
|
V de Lorenzo, A Sekowska, A Danchin, Chemical reactivity drives spatiotemporal organisation of bacterial metabolism FEMS Microbiology Reviews (2015) 39: 96-119 Abstract We examine how bacterial metabolism is shaped by chemical constraints acting on the material and dynamic layout of enzymatic networks and beyond. These are moulded not only for optimisation of given metabolic objectives (e.g. synthesis of a particular amino acid or nucleotide) but also for curbing the detrimental reactivity of chemical intermediates. Besides substrate channelling, toxicity is avoided by barriers to free diffusion (i.e. compartments) that separate otherwise incompatible reactions, along with ways for distinguishing damaging vs. harmless molecules. On the other hand, enzymes age and their operating lifetime must be tuned to upstream and downstream reactions. This time dependence of metabolic pathways creates time-linked information, learning and memory. These features suggest that the physical structure of existing biosystems, from operon assemblies to multicellular development may ultimately stem from the need to restrain chemical damage and limit the waste inherent to basic metabolic functions. This provides a new twist of our comprehension of fundamental biological processes in live systems as well as practical take-home lessons for the forward DNA-based engineering of novel biological objects |
|
|
M Blaxter, A Danchin, B Savakis, K
Fukami-Kobayashi, K Kurokawa, S Sugano, RJ Roberts, SL Salzberg,
CI Wu Reminder to deposit DNA sequences Science (2016) 352: 780 |
|
|
E Belda, RG van Heck, MJ Lopez-Sanchez, S
Cruveiller, V Barbe, C Fraser, HP Klenk, J Petersen, A Morgat, PI
Nikel, D Vallenet, Z Rouy, A Sekowska, VA Martins Dos Santos, V de
Lorenzo, A Danchin, C Médigue The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis Environ Microbiol (2016) doi: 10.1111/1462-2920.13230 |
|
|
A Danchin From function to structure take the archaeal TRAM Environ Microbiol (2016) 18: 2776-2778 |
|
|
A Danchin Nature or manufacture: What should we fear most? C R Biol (2016) doi: 10.1016/j.crvi.2016.05.001 |
|
|
A Danchin, G Fang Unknown unknowns: essential genes in quest for function Microb Biotechnol. (2016) doi: 10.1111/1751-7915.12384 |
|
|
PI Nikel, M Chavarría, A Danchin, V de Lorenzo From dirt to industrial applications: Pseudomonas putida as a Synthetic Biology chassis for hosting harsh biochemical reactions Curr Opin Chem Biol (2016) 34: 20-29 |
|
|
Y Wang, JM Huang, SL Wang, ZM Gao, AQ
Zhang, A Danchin, LS He Genomic characterization of symbiotic mycoplasmas from the stomach of deep-sea isopod Bathynomus sp. Environ Microbiol (2016) doi: 10.1111/1462-2920.13411 |
|
|
A Danchin Coping with inevitable accidents of metabolism Microb Biotechnol. (2017) 10: 57-72 doi: 10.1111/1751-7915.12461 |
|
|
K Bastard, [...], A
Danchin, [...], V de Berardinis Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis Nat Chem Biol. (2017)13: 858-866 doi:10.1038/nchembio.2397 |
|
|
A Danchin From chemical metabolism to life: the origin of the genetic coding process Beilstein J Org Chem. (2017) 13: 1119-1135 doi:10.3762/bjoc.13.111 |
|
|
A Danchin, S Braham Coenzyme B12 synthesis as a baseline to study metabolite contribution of animal microbiota Microb Biotechnol. (2017) 10: 688-701 doi:10.1111/1751-7915.12722 |
|
|
Timmis K, [...], Danchin A, [...], Singh BK The contribution of microbial biotechnology to sustainable development goals Microb Biotechnol. (2017) 10: 984-987 doi: 10.1111/1751-7915.12818 |
|
|
Timmis K, de Lorenzo V, Verstraete W,
Ramos JL, Danchin A, Brüssow H, Singh BK, Timmis JK The contribution of microbial biotechnology to economic growth and employment creation Microb Biotechnol. (2017) 10: 1137-1144 doi: 10.1111/1751-7915.12845 |
|
|
He LS, Zhang PW, Huang JM, Zhu FC, Danchin
A, Wang Y The enigmatic genome of an obligate ancient Spiroplasma symbiont in a hadal holothurian. Appl Environ Microbiol. (2017) 84: e01965-17 doi: 10.1128/AEM.01965-17 |
|
|
R Borriss, A Danchin, CR
Harwood, C Médigue, EPC Rocha, A Sekowska, D Vallenet Bacillus subtilis, the model Gram-positive bacterium: 20 years of annotation refinement Microb Biotechnol. (2018) 11: 3-17 doi: 10.1111/1751-7915.12461 |
|
|
|
Y Wang, FC Zhu, LS He, A
Danchin Unique tRNA gene profile suggests paucity of nucleotide modifications in anticodons of a deep-sea symbiotic Spiroplasma Nucleic Acids Res. (2018) 46: 2197-2203 doi:10.1111/1751-7915.12461 |
|
|
|
A Danchin Bacteria in the ageing gut: Did the taming of fire promote a long human lifespan? Environ Microbiol. (2018) 20: 1066-1087 doi:10.1111/1462-2920.14255 |
|
|
|
A Danchin, C Ouzounis, T Tokuyasu, JD
Zucker No wisdom in the crowd: genome annotation in the era of big data - current status and future prospects Microb Biotechnol. (2018) 11: 588-605 doi:10.1111/1751-7915.13284 |
|
|
|
A Danchin Retour sur les origines de la vie: De l'atome aux molécules, reproduction, réplication Med Sci (Paris) (2018) 34: 857-864 doi:10.1051/medsci/2018212 |
|
|
|
A Danchin Retour sur les origines de la vie: Des métabolites aux cellules Med Sci (Paris) (2018) 34: 984-899 doi:10.1051/medsci/2018234 |
|
|
|
A Danchin, A Sekowska, S Noria Chapter 5. Functional requirements in the program and
the cell chassis for next-generation synthetic biology pp.
81-108 ISBN: 978-3-527-68808-1 |
|
| A Danchin Multiple clocks in the evolution of living organisms pp. 101-118 In: Molecular Mechanisms of Microbial Evolution (2018) edited by Pabulo H. Rampelotto, Springer ISBN: 978-3-319-69078-0 |
|
|
Amann RI, [...], Xenarios I Consent insufficient for data release—Response. Science (2019) 364: 446 doi: 10.1126/science.aax7509 |
|
|
Iliopoulos I, Ananiadou S, Danchin A,
Ioannidis JP, Katsikis PD, Ouzounis CA, Promponas VJ Hypothesis, analysis and synthesis, it's all Greek to me eLife (2019) 8: e43514 doi: 10.7554/eLife.43514 10.1111/1751-7915.13324 |
|
|
Iliopoulos I, Ananiadou S, Danchin A,
Ioannidis JP, Katsikis PD, Ouzounis CA, Promponas VJ Preprint with more details Hypothesis, analysis and synthesis, it's all Greek to me BioRxiv 561175 doi: 10.1101/561175. |
|
|
A Sekowska, H Ashida, A Danchin Revisiting the methionine salvage pathway and its paralogues Microb Biotechnol. (2019) 12: 77-97 doi: 10.1111/1751-7915.13324 |
|
|
A Danchin Conceptual sequel to biological expeditions at the time of global changes Environ Microbiol Rep. (2019) 11: 38-40 doi:10.1111/1758-2229.12722 |
|
|
Frendorf PO, Lauritsen I, Sekowska A,
Danchin A, Nørholm MHH Mutations in the global transcription factor CRP/CAP: insights from experimental evolution and deep sequencing. Comput Struct Biotechnol J. (2019) 17: 730-736 doi: 10.1016/j.csbj.2019.05.009. |
|
|
Amann RI, [...] Danchin A, de Lorenzo V,
[...], Xenarios I Toward unrestricted use of public genomic data. Science (2019) 363: 350-352 doi: 10.1126/science.aaw1280 |
|
|
G Boël, O Danot, V de Lorenzo, A Danchin Omnipresent Maxwell’s demons orchestrate information management in living cells Microb Biotechnol. (2019) 12: 210-242 doi: 10.1111/1751-7915.13378 |
|
|
Z Li, Q Pan, Y Xiao, X Fang X, R Shi, C
Fu, A Danchin, C You Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation Microb Biotechnol. (2019) 12: 360-376 doi:10.1111/1751-7915.13343 |
|
|
Timmis K, [...], Danchin A, [...], Harper L The urgent need for microbiology literacy in society Environ Microbiol. (2019) 21: 1513-1528 doi: 10.1111/1462-2920.14611 |
|
|
Danchin A, Nikel PI Why nature chose potassium J Mol Evol. (2019) 87: 271-288 doi: 10.1007/s00239-019-09915-2 |
A Danchin
Origin
of the first cells: the engineer’s point of view
Encyclopédie de l'environnement. UGA Éditions, Grenoble
2020 Chromosome length and allometry / SARS-CoV-2
|
|
Lian CA, Yan GY, Huang JM, Danchin A, Wang
Y and LS He Genomic characterization of a novel gut symbiont from the hadal snailfish Front Microbiol (2020) 10: 2978 doi: 10.3389/fmicb.2019.02978 |
|
|
Danchin A, Ng TWP, Turinici, G A new transmission route for the propagation of the SARS-CoV-2 coronavirus medRxiv (2020) doi: 10.1101/2020.02.14.20022939 |
|
|
Danchin A, Sekowska A, You CY One-carbon metabolism, folate, zinc and translation Microbial Biotechnology (2020) 13: 899-925 doi: 10.1111/1751-7915.13550 |
|
|
Danchin A Zinc, an unexpected integrator of metabolism? Microbial Biotechnology (2020) 13: 895-898 doi: 10.1111/1751-7915.13549 |
|
|
Prifti E, Chevaleyre Y, Hanczar B, Belda
E, Danchin A, Clément K, Zucker JD Interpretable and accurate prediction models for metagenomics data Gigascience (2020) 9: pii: giaa010 doi: 10.1093/gigascience/giaa010 |
|
|
Danchin A Isobiology: A variational principle for exploring synthetic life Chembiochem (2020) 21: 1781-1792 doi: 10.1002/cbic.202000060 |
|
|
Danchin A, Marlière P Cytosine drives evolution of SARS-CoV-2 Environ Microbiol (2020) 22: 1977-1985 doi: 10.1111/1462-2920.15025 |
|
|
Armengaud J, Delaunay-Moisan A, Thuret JY,
van Anken E, Acosta-Alvear D, Aragón T, Arias C, Blondel M,
Braakman I, Collet JF, Courcol R, Danchin A, Deleuze JF, Lavigne
JP, Lucas S, Michiels T, Moore ERB, Nixon-Abell J, Rossello-Mora
R, Shi Z, Siccardi AG, Sitia R, Tillett D, Timmis KN, Toledano
MB, van der Sluijs P, Vicenzi E The importance of naturally attenuated SARS-CoV-2 in the fight against Covid-19. Environ Microbiol (2020) 22: 1997-2000 doi: 10.1111/1462-2920.15039 |
|
|
Danchin A, Timmis K SARS-CoV-2 variants: relevance for symptom granularity, epidemiology, immunity (herd, vaccines), virus origin and containment? Environ Microbiol (2020) 22: 2001-2006 doi: 10.1111/1462-2920.15053 |
|
|
McGenity TJ, Gessesse A, Hallsworth JE,
Garcia Cela E, Verheecke-Vaessen C, Wang F, Chavarría M,
Haggblom MM, Molin S, Danchin A, Smid EJ, Lood C, Cockell CS,
Whitby C, Liu SJ, Keller NP, Stein LY, Bordenstein SR, Lal R,
Nunes OC, Gram L, Singh BK, Webster NS, Morris C, Sivinski S,
Bindschedler S, Junier P, Antunes A, Baxter BK, Scavone P,
Timmis K Visualizing the invisible: class excursions to ignite children's enthusiasm for microbes Microbial Biotechnology (2020) 13: 844-887 doi: 10.1111/1751-7915.13576 |
|
|
Wang Y, Huang JM, Zhou YL, Almeida A, Finn
RD, Danchin A, He LS Phylogenomics of expanding uncultured environmental Tenericutes provides insights into their pathogenicity and evolutionary relationship with Bacilli BMC Genomics (2020) 21: 408 doi: 10.1186/s12864-020-06807-4 |
|
|
Courtier-Orgogozo V, Danchin A, Gouyon PH,
Boëte C Evaluating the probability of CRISPR-based gene drive contaminating another species Evol Appl (2020) 13: 1888-1905 doi: 10.1111/eva.12939 |
|
|
Cluzel N, Lambert A, Maday Y, Turinici G,
Danchin A Biochemical and statistical lessons from the evolution of the SARS-CoV-2 virus: paths for novel antiviral warfare CR Biol (2020) 343: 177-209 doi: 10.5802/crbiol.16 |
| |
Danchin A Le feu sacré de la vie Pour la Science (2020) 109: 58-63 |
|
|
Ou Z, Ouzounis C, Wang D, Sun W, Li J,
Chen W, Marlière P, Danchin A A path toward SARS-CoV-2 attenuation: Metabolic pressure on CTP synthesis rules the virus evolution Genome Biol Evol (2020) 12: 2467-2485 doi: 10.1093/gbe/evaa229 |
2021 CTP synthetase solves the non-homothetic growth paradox
|
|
Luo R, Delaunay-Moisan A, Timmis K,
Danchin A SARS-CoV-2 biology and variants: anticipation of viral evolution and what needs to be done Environ Microbiol (2021) 23: 2339-2363 doi: 10.1111/1462-2920.15487 |
|
|
Pan Q, Li Z, Ju X, Hou C, Xiao Y, Shi R,
Fu C, Danchin A, You C Escherichia coli segments its controls on carbon-dependent gene expression into global and specific regulations Microb Biotechnol (2021) 14: 1084-1106 doi: 10.1111/1751-7915.13776 |
|
|
Danchin A, Turinici G Immunity after COVID-19: Protection or sensitization? Math Biosci (2021) 331: 108499 doi: 10.1016/j.mbs.2020.108499 |
|
|
Richard P, Kozlowski L, Guillorit H,
Garnier P, McKnight NC, Danchin A, Manière X Queuine, a bacterial-derived hypermodified nucleobase, shows protection in in vitro models of neurodegeneration PLoS ONE (2021) 16: e0253216 doi: 10.1371/journal.pone.0253216 |
|
|
Danchin A Biological innovation in the functional landscape of a model regulator, or the lactose operon repressor CR Biol (2021) 344: 111-126 doi: 10.5802/crbiol.52 |
|
|
Lauritsen I, Frendorf PO, Capucci S, Heyde
SAH, Blomquist SD, Wendel S, Fischer EC, Sekowska A, Danchin A,
Nørholm MHH Temporal evolution of master regulator Crp identifies pyrimidines as catabolite modulator factors Nature Communications (2021) 12: 5880 doi: 10.1038/s41467-021-26098-x |
|
|
Karapiperis C, Kouklis P, Papastratos S,
Chasapi A, Danchin A, Angelis L, Ouzounis CA A strong seasonality pattern for Covid-19 incidence rates modulated by UV radiation levels Viruses (2021) 13: 574 doi: 10.3390/v13040574 |
2022 Time for Synthetic Biology: Maxwell demons and CTP synthesis
|
|
Danchin A In vivo, in vitro and in silico: an open space for the development of microbe-based applications of synthetic biology Microb Biotechnol (2022) 15: 42-64 doi: 10.1111/1751-7915.13937 |
|
|
Wang Y, Li WL, Baker
BJ, Zhou YL, He LS, Danchin A, Li QM, Gao ZM Carbon metabolism and adaptation of hyperalkaliphilic microbes in serpentinizing spring of Manleluag, the Philippines Environ Microbiol Rep (2022) 14: 308-319 doi: 10.1111/1758-2229.13052 |
|
|
Hu YF, Hu JC, Gong
HR, Danchin A, Sun R, Chu H, Hung IF, Yuen KY, To KK, Zhang BZ,
Yau T, Huang JD Computation of antigenicity predicts SARS-CoV-2 vaccine breakthrough variants Front Immunol (2022) 13: 861050 doi: 10.3389/fimmu.2022.861050 |
|
|
Hazra S, Bhandari DM, Krishnamoorthy K,
Sekowska A, Danchin A, Begley TP Cysteine dealkylation in Bacillus subtilis by a novel flavin-dependent monooxygenase Biochemistry (2022) 61: 952-955 doi: 10.1021/acs.biochem.2c00020 |
|
|
Danchin A, Pagani-Azizi O, Turinici G,
Yahiaoui G COVID-19 Adaptive Humoral Immunity Models: Weakly Neutralizing Versus Antibody-Disease Enhancement Scenarios Acta Biotheoretica (2022) 70: 23 doi: 10.1007/s10441-022-09447-1 |
|
|
de Crécy-Lagard V, Amorin de Hegedus R,
Arighi C, Babor J, Bateman A, Blaby I, Blaby-Haas C, Bridge AJ,
Burley SK, Cleveland S, Colwell LJ, Conesa A, Dallago C, Danchin
A, de Waard A, Deutschbauer A, Dias R, Ding Y, Fang G, Friedberg
I, Gerlt J, Goldford J, Gorelik M, Gyori BM, Henry C, Hutinet G,
Jaroch M, Karp PD, Kondratova L, Lu Z, Marchler-Bauer A, Martin
MJ, McWhite C, Moghe GD, Monaghan P, Morgat A, Mungall CJ,
Natale DA, Nelson WC, O'Donoghue S, Orengo C, O'Toole KH,
Radivojac P, Reed C, Roberts RJ, Rodionov D, Rodionova IA,
Rudolf JD, Saleh L, Sheynkman G, Thibaud-Nissen F, Thomas PD,
Uetz P, Vallenet D, Carter EW, Weigele PR, Wood V, Wood-Charlson
EM, Xu J A roadmap for the functional annotation of protein families: a community perspective Database (2022) 2022: baac062 doi: 10.1093/database/baac062 |
|
|
Pollo-Oliveira L, Davis NK, Hossain I, Ho
P, Yuan Y, Salguero García P, Pereira C, Byrne SR, Leng J, Sze
M, Blaby-Haas CE, Sekowska A, Montoya A, Begley T, Danchin A,
Aalberts DP, Angerhofer A, Hunt J, Conesa A, Dedon PC, de
Crécy-Lagard V The absence of the queuosine tRNA modification leads to pleiotropic phenotypes revealing perturbations of metal and oxidative stress homeostasis in Escherichia coli K12 Metallomics (2022) 14: mfac065 doi: 10.1093/mtomcs/mfac065 |
|
|
Danchin A Pasteur and "motivated" research C R Biol (2022) 345: 109-119 doi: 10.5802/crbiol.89 |
2023 Synthetic Biology / Antivirals
|
|
Danchin A, Huang JD SynBio 2.0, a new era for synthetic life: Neglected essential functions for resilience Environ Microbiol (2023) 25: 64-68 doi: 10.1111/1462-2920.16140 |
|
|
Timmis K, Berry D, Bonfante P, Coleman M,
Cunliffe M, Danchin A, Galperin M, Huang W, Lopez P, Stewart F,
Wood T Juan Luis Ramos: an exceptional editor of Environmental Microbiology Environ Microbiol (2023) 25: 595-596 doi: 10.1111/1462-2920.16315 |
|
|
Bremer E, Calteau A, Danchin A, Harwood C,
Helmann JD, Médigue C, Palsson BO, Sekowska A, Vallenet D,
Zuniga A, Zuniga C A model industrial workhorse: Bacillus subtilis strain 168 and its genome after a quarter of a century Microb biotechnol (2023) : doi: 10.1093/mtomcs/mfac065 |
|
|
Danchin A La guerre biologique au temps de la biologie synthétique Raison présente (2023) 225: 47-56 doi: 10.3917/rpre.225.0047 |
|
|
Danchin A Science, method and critical thinking Microb biotechnol (2023) 16: 1888-1894 doi: 10.1111/1751-7915.14315 |
|
|
Wirth NT, Rohr K, Danchin A, Nikel PI Recursive genome engineering decodes the evolutionary origin of an essential thymidylate kinase activity in Pseudomonas putida KT2440 mBio (2023) : e0108123 doi: 10.1128/mbio.01081-23 |
|
|
Danchin A Faire évoluer les virus vers des formes plus pathogènes, est-ce vraiment raisonnable ? Raison présente (2023) 228: 35-43 doi: 10.3917/rpre.228.0035 |
2024 Synthetic Biology / Artificial Intelligence
|
|
Danchin A Exploring overlooked growth-promoting mechanisms by plant-associated bacteria Sustainable Microbiology (2024) 1: qvae011 doi: 10.1093/sumbio/qvae011 |
|
|
Danchin A Artificial intelligence-based prediction of pathogen emergence and evolution in the world of synthetic biology Microb biotechnol (2024) 17: e70014 doi: 10.1111/1751-7915.70014 |
Origine de la Vie •
From Minerals to Life • 
Dai Minerali alla Vita |
