Gans J, Wolinsky M, Dunbar J (2005) Computational improvements
reveal great bacterial diversity and high metal toxicity in soil.
Science 309:1387–1390
Gao M, Mack TR, Stock AM (2007) Bacterial response regulators:
versatile regulatory strategies from common domains. Trends
Biochem Sci 32:225–234
Garcia-Pichel F, Lopez-Cortes A, Nubel U (2001) Phylogenetic and
morphological diversity of cyanobacteria in soil desert crusts from
the Colorado Plateau. Appl Environ Microbiol 67:1902–1910
Gerdes K, Nielsen A, Thorsted P, Wagner EG (1992) Mechanism of
killer gene activation. Antisense RNA-dependent RNase III cleavage Ensures rapid turnover of the stable, hok, RSNB effector messenger RNAs and NADP. J Mol Biol 226:637–649
Giovannoni SJ, Sting V (2005) Molecular diversity and ecology of
microbial plankton. Nature 437:343–348
Gommeaux M, Barakat M, Lesourd M, Thiery J, Heulin T (2005)
A morphological transition in the pleomorphic bacterium Ramlibacter
tataouinensis TTB310. Res Microbiol 156:1026–1030
Go ¨tz C et al (2007) Uptake, degradation and chiral discrimination of
N-acyl-D/L-homoserine lactones by barley (Hordeum vulgare) and
yam bean (Pachyrhizus erosus) plants. Anal Bioanal Chem
389:1447–1457
Graumann PL, Marahiel MA (1998) A superfamily of proteins that
contain the cold-shock domain. Trends Biochem Sci 23:286–290
Grogan DW (2004) Stability and repair of DNA in hyperthermophilic
Archaea. Curr Issues Mol Biol 6:137–144
Halladay JT, Ng WL, DasSarma S (1992) Genetic transformation of a
halophilic archaebacterium with a gas vesicle gene cluster restores
its ability to float. Gene 119:131–136
Hamamoto T, Hashimoto M, Hino M, Kitada M, Seto Y, Kudo T,
Horikoshi K (1994) Characterization of a gene responsible for
the Na+/H+antiporter system of alkalophilic Bacillus species strain
C-125. Mol Microbiol 14:939–946
Han B, Pain A, Johnstone K (1997) Spontaneous duplication of a
661 bp element within a two-component sensor regulator gene
causes phenotypic switching in colonies of Pseudomonas tolaasii,
cause of brown blotch disease of mushrooms. Mol Microbiol
25:211–218
Hayes F (2003) Toxins-antitoxins: plasmid maintenance, programmed
cell death, and cell cycle arrest. Science 301:1496–1499
Healy VL, Lessard IA, Roper DI, Knox JR, Walsh CT (2000) Vancomycin
resistance in enterococci: reprogramming of the D-ala-D-Ala ligases
in bacterial peptidoglycan biosynthesis. Chem Biol 7:R109–R119
Hense BA, Kuttler C, Muller J, Rothballer M, Hartmann A, Kreft JU
(2007) Does efficiency sensing unify diffusion and quorum sensing?
Nat Rev Microbiol 5:230–239
Hermans MA, Neuss B, Sahm H (1991) Content and composition of
hopanoids in Zymomonas mobilis under various growth conditions.
J Bacteriol 173:5592–5595
Hernday AD, Braaten BA, Low DA (2003) The mechanism by which
DNA adenine methylase and PapI activate the pap epigenetic
switch. Mol Cell 12:947–957
Heulin T, Barakat M, Christen R, Lesourd M, Sutra L, De Luca G,
Achouak W (2003) Ramlibacter tataouinensis gen. November,
sp. November, and Ramlibacter henchirensis sp. November,
cyst-producing bacteria isolated from soil in Tunisia subdesert. Int
J Syst Evol Microbiol 53:589–594
Hickman JW, Tifrea DF, Harwood CS (2005) A chemosensory system
that regulates biofilm formation through modulation of cyclic
diguanylate levels. Proc Natl Acad Sci U S A 102:14422–14427
Hopwood DA, Sherman DH (1990) Molecular genetics of polyketides
and its comparison to fatty acid biosynthesis. Annu Rev Genet
24:37–66
Howell-Adams B, Seifert HS (2000) Molecular models accounting for
the gene conversion reactions mediating gonococcal pilin antigenic
variation. Mol Microbiol 37:1146–1158
Hu ¨ttenhofer A, Vogel J (2006) Experimental approaches to identify
non-coding RNAs. Nucleic Acids Res 34:635–646
Imhoff J (1988) Halophilic phototrophic bacteria. In: Rodriguez-Valera
F (ed) Halophilic bacteria. CRC Press, Boca Raton, pp 85–108
Inouye M (2006) Signaling by transmembrane proteins shifts gears.
Cell 126:829–831
Joint I, Tait K, Callow ME, Callow JA, Milton D, Williams P, Camara
M (2002) Cell-to-cell communication across the prokaryoteeukaryote boundary. Science 298:1207
Juhas M, Eberl L, Tummler B (2005) Quorum sensing: the power of
cooperation in the world of Pseudomonas. Environ Microbiol
7:459–471
Kaci Y, Heyraud A, Barakat M, Heulin T (2005) Isolation and identification of EPS-producing Rhizobium year strain from arid soil
(Algeria): characterization of EPS icts and the effect of inoculation
on wheat rhizosphere soil structure. Res Microbiol 156:522–531
Karner MB, Delong EF, Karl DM (2001) Archeal dominance in the
mesopelagic zone of the Pacific Ocean. Nature 409:507–510
Kazmierczak BI, Lebron MB, Murray TS (2006) Analysis of FimX, a
phosphodiesterase that governs twitching motility in Pseudomonas
aeruginosa. Mol Microbiol 60:1026–1043
Kentner D, Sourjik V (2006) Spatial organization of the bacterial
chemotaxis system. Curr Opin Microbiol 9:619–624
Keshavan ND, Chowdhary PK, Haines DC, Gonzalez JE (2005)
L-Canavanine made by Medicago sativa interferes with quorum
sensing in Sinorhizobium meliloti. J Bacteriol 187:8427–8436
Khajanchi BK, Kirtley ML, Brackman SM, Chopra AK (2011)
Immunomodulatory and protective roles of quorum-sensing
signaling molecules N-acyl homoserine lactones during infection
of mice with Aeromonas hydrophila. Infect Immun 79:2646–2657
Khan S (1992) Motility. In: Lederberg J (ed) Encyclopedia of
microbiology. Academic, New York, pp 193–202
Kharel MK, Subba B, Basnet DB, Woo JS, Lee HC, Liou K, Sohng JK
(2004) A gene cluster for biosynthesis of kanamycin from
Streptomyces kanamyceticus: comparison with gentamicin
biosynthetic gene cluster. Arch Biochem Biophys 429:204–214
Khorchid A, Ikura M (2006) Bacterial histidine kinase as signal sensor
and transducer. Int J Biochem Cell Biol 38:307–312
Kiem S et al (2004) Phase variation of biofilm formation in Staphylococcus aureus by IS 256 insertion and its impact on the capacity
adhering to polyurethane surface. J Korean Med Sci 19:779–782
Kirillina O, Fetherston JD, Bobrov AG, Abney J, Perry RD (2004)
HmsP, a putative phosphodiesterase, and HmsT, a putative
diguanylate cyclase, control Hms-dependent biofilm formation in
Yersinia pestis. Mol Microbiol 54:75–88
Klemm P (1986) Two regulatory fim genes, fimB and fimE, control the
phase variation of type 1 fimbriae in Escherichia coli. EMBO J
5:1389–1393
Kohanski MA, Dwyer DJ, Hayete B, Lawrence CA, Collins JJ (2007)
A common mechanism of cellular death induced by bactericidal
antibiotics. Cell 130:797–810
Kolodkin-Gal I, Hazan R, Gaathon A, Carmeli S, Engelberg-Kulka H
(2007) A linear pentapeptide is a quorum-sensing factor required for
mazEF-mediated cell death in Escherichia coli. Science 318:652–655
Konopka AE, Lara JC, Staley JT (1977) Isolation and characterization
of gas vesicles from Microcyclus aquaticus. Arch Microbiol
112:133–140
Konstantinidis KT, Tiedje JM (2004) Trends between gene content and
genome size in prokaryotic species with larger genomes. Proc Natl
Acad Sci U S A 101:3160–3165
Krasteva PV, Giglio KM, Sondermann H (2012) Sensing the messenger:
The diverse ways that bacteria signal trough c-diGMP. Protein Sci
21:929–948
Krupa A, Srinivasan N (2005) Diversity in domain architectures of
Ser/Thr kinases and their homologues in prokaryotes. BMC
Genomics 6:129
348
P. Normand et al.
reveal great bacterial diversity and high metal toxicity in soil.
Science 309:1387–1390
Gao M, Mack TR, Stock AM (2007) Bacterial response regulators:
versatile regulatory strategies from common domains. Trends
Biochem Sci 32:225–234
Garcia-Pichel F, Lopez-Cortes A, Nubel U (2001) Phylogenetic and
morphological diversity of cyanobacteria in soil desert crusts from
the Colorado Plateau. Appl Environ Microbiol 67:1902–1910
Gerdes K, Nielsen A, Thorsted P, Wagner EG (1992) Mechanism of
killer gene activation. Antisense RNA-dependent RNase III cleavage Ensures rapid turnover of the stable, hok, RSNB effector messenger RNAs and NADP. J Mol Biol 226:637–649
Giovannoni SJ, Sting V (2005) Molecular diversity and ecology of
microbial plankton. Nature 437:343–348
Gommeaux M, Barakat M, Lesourd M, Thiery J, Heulin T (2005)
A morphological transition in the pleomorphic bacterium Ramlibacter
tataouinensis TTB310. Res Microbiol 156:1026–1030
Go ¨tz C et al (2007) Uptake, degradation and chiral discrimination of
N-acyl-D/L-homoserine lactones by barley (Hordeum vulgare) and
yam bean (Pachyrhizus erosus) plants. Anal Bioanal Chem
389:1447–1457
Graumann PL, Marahiel MA (1998) A superfamily of proteins that
contain the cold-shock domain. Trends Biochem Sci 23:286–290
Grogan DW (2004) Stability and repair of DNA in hyperthermophilic
Archaea. Curr Issues Mol Biol 6:137–144
Halladay JT, Ng WL, DasSarma S (1992) Genetic transformation of a
halophilic archaebacterium with a gas vesicle gene cluster restores
its ability to float. Gene 119:131–136
Hamamoto T, Hashimoto M, Hino M, Kitada M, Seto Y, Kudo T,
Horikoshi K (1994) Characterization of a gene responsible for
the Na+/H+antiporter system of alkalophilic Bacillus species strain
C-125. Mol Microbiol 14:939–946
Han B, Pain A, Johnstone K (1997) Spontaneous duplication of a
661 bp element within a two-component sensor regulator gene
causes phenotypic switching in colonies of Pseudomonas tolaasii,
cause of brown blotch disease of mushrooms. Mol Microbiol
25:211–218
Hayes F (2003) Toxins-antitoxins: plasmid maintenance, programmed
cell death, and cell cycle arrest. Science 301:1496–1499
Healy VL, Lessard IA, Roper DI, Knox JR, Walsh CT (2000) Vancomycin
resistance in enterococci: reprogramming of the D-ala-D-Ala ligases
in bacterial peptidoglycan biosynthesis. Chem Biol 7:R109–R119
Hense BA, Kuttler C, Muller J, Rothballer M, Hartmann A, Kreft JU
(2007) Does efficiency sensing unify diffusion and quorum sensing?
Nat Rev Microbiol 5:230–239
Hermans MA, Neuss B, Sahm H (1991) Content and composition of
hopanoids in Zymomonas mobilis under various growth conditions.
J Bacteriol 173:5592–5595
Hernday AD, Braaten BA, Low DA (2003) The mechanism by which
DNA adenine methylase and PapI activate the pap epigenetic
switch. Mol Cell 12:947–957
Heulin T, Barakat M, Christen R, Lesourd M, Sutra L, De Luca G,
Achouak W (2003) Ramlibacter tataouinensis gen. November,
sp. November, and Ramlibacter henchirensis sp. November,
cyst-producing bacteria isolated from soil in Tunisia subdesert. Int
J Syst Evol Microbiol 53:589–594
Hickman JW, Tifrea DF, Harwood CS (2005) A chemosensory system
that regulates biofilm formation through modulation of cyclic
diguanylate levels. Proc Natl Acad Sci U S A 102:14422–14427
Hopwood DA, Sherman DH (1990) Molecular genetics of polyketides
and its comparison to fatty acid biosynthesis. Annu Rev Genet
24:37–66
Howell-Adams B, Seifert HS (2000) Molecular models accounting for
the gene conversion reactions mediating gonococcal pilin antigenic
variation. Mol Microbiol 37:1146–1158
Hu ¨ttenhofer A, Vogel J (2006) Experimental approaches to identify
non-coding RNAs. Nucleic Acids Res 34:635–646
Imhoff J (1988) Halophilic phototrophic bacteria. In: Rodriguez-Valera
F (ed) Halophilic bacteria. CRC Press, Boca Raton, pp 85–108
Inouye M (2006) Signaling by transmembrane proteins shifts gears.
Cell 126:829–831
Joint I, Tait K, Callow ME, Callow JA, Milton D, Williams P, Camara
M (2002) Cell-to-cell communication across the prokaryoteeukaryote boundary. Science 298:1207
Juhas M, Eberl L, Tummler B (2005) Quorum sensing: the power of
cooperation in the world of Pseudomonas. Environ Microbiol
7:459–471
Kaci Y, Heyraud A, Barakat M, Heulin T (2005) Isolation and identification of EPS-producing Rhizobium year strain from arid soil
(Algeria): characterization of EPS icts and the effect of inoculation
on wheat rhizosphere soil structure. Res Microbiol 156:522–531
Karner MB, Delong EF, Karl DM (2001) Archeal dominance in the
mesopelagic zone of the Pacific Ocean. Nature 409:507–510
Kazmierczak BI, Lebron MB, Murray TS (2006) Analysis of FimX, a
phosphodiesterase that governs twitching motility in Pseudomonas
aeruginosa. Mol Microbiol 60:1026–1043
Kentner D, Sourjik V (2006) Spatial organization of the bacterial
chemotaxis system. Curr Opin Microbiol 9:619–624
Keshavan ND, Chowdhary PK, Haines DC, Gonzalez JE (2005)
L-Canavanine made by Medicago sativa interferes with quorum
sensing in Sinorhizobium meliloti. J Bacteriol 187:8427–8436
Khajanchi BK, Kirtley ML, Brackman SM, Chopra AK (2011)
Immunomodulatory and protective roles of quorum-sensing
signaling molecules N-acyl homoserine lactones during infection
of mice with Aeromonas hydrophila. Infect Immun 79:2646–2657
Khan S (1992) Motility. In: Lederberg J (ed) Encyclopedia of
microbiology. Academic, New York, pp 193–202
Kharel MK, Subba B, Basnet DB, Woo JS, Lee HC, Liou K, Sohng JK
(2004) A gene cluster for biosynthesis of kanamycin from
Streptomyces kanamyceticus: comparison with gentamicin
biosynthetic gene cluster. Arch Biochem Biophys 429:204–214
Khorchid A, Ikura M (2006) Bacterial histidine kinase as signal sensor
and transducer. Int J Biochem Cell Biol 38:307–312
Kiem S et al (2004) Phase variation of biofilm formation in Staphylococcus aureus by IS 256 insertion and its impact on the capacity
adhering to polyurethane surface. J Korean Med Sci 19:779–782
Kirillina O, Fetherston JD, Bobrov AG, Abney J, Perry RD (2004)
HmsP, a putative phosphodiesterase, and HmsT, a putative
diguanylate cyclase, control Hms-dependent biofilm formation in
Yersinia pestis. Mol Microbiol 54:75–88
Klemm P (1986) Two regulatory fim genes, fimB and fimE, control the
phase variation of type 1 fimbriae in Escherichia coli. EMBO J
5:1389–1393
Kohanski MA, Dwyer DJ, Hayete B, Lawrence CA, Collins JJ (2007)
A common mechanism of cellular death induced by bactericidal
antibiotics. Cell 130:797–810
Kolodkin-Gal I, Hazan R, Gaathon A, Carmeli S, Engelberg-Kulka H
(2007) A linear pentapeptide is a quorum-sensing factor required for
mazEF-mediated cell death in Escherichia coli. Science 318:652–655
Konopka AE, Lara JC, Staley JT (1977) Isolation and characterization
of gas vesicles from Microcyclus aquaticus. Arch Microbiol
112:133–140
Konstantinidis KT, Tiedje JM (2004) Trends between gene content and
genome size in prokaryotic species with larger genomes. Proc Natl
Acad Sci U S A 101:3160–3165
Krasteva PV, Giglio KM, Sondermann H (2012) Sensing the messenger:
The diverse ways that bacteria signal trough c-diGMP. Protein Sci
21:929–948
Krupa A, Srinivasan N (2005) Diversity in domain architectures of
Ser/Thr kinases and their homologues in prokaryotes. BMC
Genomics 6:129
348
P. Normand et al.