Gherbi H et al (2008) SymRK defines a common genetic basis for plant
root endosymbioses with arbuscular mycorrhiza fungi, rhizobia, and
Frankia bacteria. Proc Natl Acad Sci U S A 105:4928–4932
Gilbert GS, Parke JL, Clayton MK, Handelsman J (1993) Effects of an
introduced bacterium on bacterial communities on roots. Ecology
74:840–854
Giraud E et al (2007) Legumes symbioses: absence of nod genes in
photosynthetic bradyrhizobia. Science 316:1307–1312
Goebel W, Gross R (2001) Intracellular survival strategies of mutualistic and parasitic prokaryotes. Trends Microbiol 9:267–273
Goodrich-Blair H, Clarke DJ (2007) Mutualism and pathogenesis in
Xenorhabdus and Photorhabdus: two roads to the same destination.
Mol Microbiol 64:260–268
Gottlieb Y et al (2006) Identification and localization of a Rickettsia sp.
in Bemisia tabaci (Homoptera: Aleyrodidae). Appl Environ
Microbiol 72:3646–3652
Gould SJ (1989) Wonderful life – the burgess shale and the nature of
history. W.W. Norton & Company, New York
Gould SJ, Vrba ES (1982) Exaptation – a missing term in the science of
form. Paleobiology 8:4–15
Griffiths RI, Manefield M, Ostle N, McNamara N, O’Donnell AG,
Bailey MJ, Whiteley AS (2004)
13
CO 2 pulse labelling of plants in
tandem with stable isotope probing: methodological considerations
for examining microbial function in the rhizosphere. J Microbiol
Methods 58:119–129
Groppa MD, Benavides MP, Zawoznik MS (2012) Root hydraulic
conductance, aquaporins and plant growth promoting
microorganisms: a revision. Appl Soil Ecol 61:247–254
Guntli D, Burgos S, Moe ¨nne-Loccoz Y, De ´fago G (1999) Calystegine
degradation capacities of microbial rhizosphere communities of Zea
mays (calystegine-negative) and Calystegia sepium (calystegine
positive). FEMS Microbiol Ecol 28:75–84
Hacker J, Carniel E (2001) Ecological fitness, genomic islands and
bacterial pathogenicity. EMBO Rep 2:376–381
Hacker J, Kaper JB (2000) Pathogenicity islands and the evolution of
microbes. Annu Rev Microbiol 54:641–679
Harman GE, Howell CR, Viterbo A, Chet I, Lorito M (2004)
Trichoderma species – opportunistic, avirulent plant symbionts.
Nat Rev Microbiol 2:43–56
Hay BA, Guo M (2006) Caspase-dependent cell death in Drosophila.
Ann Rev Cell Dev Biol 22:623–650
Heddi A, Grenier AM, Khatchadourian C, Charles H, Nardon P (1999)
Four intracellular genomes direct weevil biology: nuclear, mitochondrial, principal endosymbiont, and Wolbachia. Proc Natl
Acad Sci U S A 96:6814–6819
Hedges LM, Brownlie JC, O’Neill SL, Johnson KN (2008) Wolbachia
and virus protection in insects. Science 322:702
Heitman J (2011) Microbial pathogens in the fungal kingdom. Fungal
Biol Rev 25:48–60
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
Hentschel U, Steinert M, Hacker J (2000) Common molecular
mechanisms of symbiosis and pathogenesis. Trends Microbiol
8:226–231
Hersh D, Monack DM, Smith MR, Ghori N, Falkow S, Zychlinsky A
(1999) The Salmonella invasin SipB induces macrophage apoptosis
by binding to caspase-1. Proc Natl Acad Sci U S A 96:2396–2401
Hery M, Herrera A, Vogel TM, Normand P, Navarro E (2005) Effect of
carbon and nitrogen input on the bacterial community structure of
Neocaledonian nickel mine spoils. FEMS Microbiol Ecol 51:333–340
Heussler VT, Ku ¨enzi P, Rottenberg S (2001) Inhibition of apoptosis by
intracellular protozoan parasites. Int J Parasitol 31:1166–1176
Hilgenboecker K, Hammerstein P, Schlattmann P, Telschow A, Werren
JH (2008) How many species are infected with Wolbachia? A statistical analysis of current data. FEMS Microbiol Lett 281:215–220
Hinsinger P, Plassard C, Tang C, Jaillard B (2003) Origins of rootmediated pH changes in the rhizosphere and their responses to
environmental constraints: a review. Plant Soil 248:43–59
Hoffmann J (2003) The immune response of Drosophila. Nature
426:33–38
Hosokawa T, Koga R, Kikuchi Y, Meng XY, Fukatsu T (2010)
Wolbachia as a bacteriocyte-associated nutritional mutualist. Proc
Natl Acad Sci U S A 107:769–774
Hongoh Y, Ekpornprasit L, Inoue T, Moriya S, Trakulnaleamsai S,
Ohkuma M, Noparatnaraporn N, Kudo T (2006) Intracolony variation of bacterial gut microbiota among castes and ages in the
fungus-growing termite Macrotermes gilvus. Mol Ecol 15:505–516
Hooper LV, Stappenbeck TS, Hong CV, Gordon JI (2003)
Angiogenins: a new class of microbicidal proteins involved in
innate immunity. Nat Immunol 4:269–273
Hotopp JC, Clark ME, Oliveira DC (2007) Widespread lateral gene
transfer from intracellular bacteria to multicellular eukaryotes.
Science 317:1753–1756
Huguet V, Gouy M, Normand P, Zimpfer JF, Fernandez MP (2005)
Molecular phylogeny of Myricaceae: a reexamination of hostsymbiont specificity. Mol Phylogenet Evol 34:557–568
Hurd H, Grant KM, Arambage SC (2006) Apoptosis-like death as a
feature of malaria infection in mosquitoes. Parasitology 132(Suppl):
S33–S47
Ingram LC, Richmond MH, Sykes RB (1973) Molecular characterization of the R factors implicated in the carbenicillin resistance of a
sequence of Pseudomonas aeruginosa strains isolated from burns.
Antimicrob Agents Chemother 3:279–288
Jacobson MD, Weil M, Raff MC (1997) Programmed cell death in
animal development. Cell 88:347–354
Jahn U, Gallenberger M, Junglas B, Eisenreich W, Stetter KO, Rachel
R, Huber H (2008) Nanoarchaeum equitans and Ignicoccus
hospitalis: new insights into a unique, intimate association of two
Archaea. J Bacteriol 190:1743–1750
Jeyaprakash A, Hoy MA (2000) Long PCR improves Wolbachia DNA
amplification: wsp sequences found in 76 % of sixty-three arthropod
species. Insect Mol Biol 9:393–405
Johnston KL, Taylor MJ (2007) Wolbachia in filarial parasites: targets
for filarial infection and disease control. Curr Infect Dis Rep
9:55–59
Jones ML (1981) Rifitia pachyptila Jones: observations on the vestimentiferan worm from the Galapagos rift. Science 213:333–336
Jones JDG, Dangl JL (2006) The plant immune system. Nat Rev
444:323–329
Jousset A, Rochat L, Pe ´chy-Tarr M, Keel C, Scheu S, Bonkowski M
(2009) Predators promote defence of rhizosphere bacterial
populations by selective feeding on non-toxic cheaters. ISME J
3:666–674
Karolis DKR, Somara S, Maneval DR Jr, Johnson JA, Kaper JB (1999)
A bacteriophage encoding a pathogenicity island, a type-IV pilus
and a phage receptor in cholera bacteria. Nature 399:375–379
Kazemi-Pour N, Condemine G, Hugouvieux-Cotte-Pattat N (2004) The
secretome of the plant pathogenic bacterium Erwinia chrysanthemi.
Proteomics 4:3177–3186
Khan AG (2005) Role of soil microbes in the rhizospheres of plants
growing on trace metal contaminated soils in phytoremediation.
J Trace Elem Med Biol 18:355–364
Kimbell JR, McFall-Ngai M (2004) Symbiont-induced changes in host
actin during the onset of beneficial animal-bacterial association.
Appl Environ Microbiol 70:1434–1441
Kinkel LL, Wilson M, Lindow SE (2000) Plant species and plant
incubation conditions influence variability in epiphytic bacterial
population size. Microb Ecol 39:1–11
Kirby JE, Nekorchuk DM (2002) Bartonella-associated endothelial
proliferation depends on inhibition of apoptosis. Proc Natl Acad
Sci U S A 99:4656–4666
440
Y. Moe ¨nne-Loccoz et al.
root endosymbioses with arbuscular mycorrhiza fungi, rhizobia, and
Frankia bacteria. Proc Natl Acad Sci U S A 105:4928–4932
Gilbert GS, Parke JL, Clayton MK, Handelsman J (1993) Effects of an
introduced bacterium on bacterial communities on roots. Ecology
74:840–854
Giraud E et al (2007) Legumes symbioses: absence of nod genes in
photosynthetic bradyrhizobia. Science 316:1307–1312
Goebel W, Gross R (2001) Intracellular survival strategies of mutualistic and parasitic prokaryotes. Trends Microbiol 9:267–273
Goodrich-Blair H, Clarke DJ (2007) Mutualism and pathogenesis in
Xenorhabdus and Photorhabdus: two roads to the same destination.
Mol Microbiol 64:260–268
Gottlieb Y et al (2006) Identification and localization of a Rickettsia sp.
in Bemisia tabaci (Homoptera: Aleyrodidae). Appl Environ
Microbiol 72:3646–3652
Gould SJ (1989) Wonderful life – the burgess shale and the nature of
history. W.W. Norton & Company, New York
Gould SJ, Vrba ES (1982) Exaptation – a missing term in the science of
form. Paleobiology 8:4–15
Griffiths RI, Manefield M, Ostle N, McNamara N, O’Donnell AG,
Bailey MJ, Whiteley AS (2004)
13
CO 2 pulse labelling of plants in
tandem with stable isotope probing: methodological considerations
for examining microbial function in the rhizosphere. J Microbiol
Methods 58:119–129
Groppa MD, Benavides MP, Zawoznik MS (2012) Root hydraulic
conductance, aquaporins and plant growth promoting
microorganisms: a revision. Appl Soil Ecol 61:247–254
Guntli D, Burgos S, Moe ¨nne-Loccoz Y, De ´fago G (1999) Calystegine
degradation capacities of microbial rhizosphere communities of Zea
mays (calystegine-negative) and Calystegia sepium (calystegine
positive). FEMS Microbiol Ecol 28:75–84
Hacker J, Carniel E (2001) Ecological fitness, genomic islands and
bacterial pathogenicity. EMBO Rep 2:376–381
Hacker J, Kaper JB (2000) Pathogenicity islands and the evolution of
microbes. Annu Rev Microbiol 54:641–679
Harman GE, Howell CR, Viterbo A, Chet I, Lorito M (2004)
Trichoderma species – opportunistic, avirulent plant symbionts.
Nat Rev Microbiol 2:43–56
Hay BA, Guo M (2006) Caspase-dependent cell death in Drosophila.
Ann Rev Cell Dev Biol 22:623–650
Heddi A, Grenier AM, Khatchadourian C, Charles H, Nardon P (1999)
Four intracellular genomes direct weevil biology: nuclear, mitochondrial, principal endosymbiont, and Wolbachia. Proc Natl
Acad Sci U S A 96:6814–6819
Hedges LM, Brownlie JC, O’Neill SL, Johnson KN (2008) Wolbachia
and virus protection in insects. Science 322:702
Heitman J (2011) Microbial pathogens in the fungal kingdom. Fungal
Biol Rev 25:48–60
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
Hentschel U, Steinert M, Hacker J (2000) Common molecular
mechanisms of symbiosis and pathogenesis. Trends Microbiol
8:226–231
Hersh D, Monack DM, Smith MR, Ghori N, Falkow S, Zychlinsky A
(1999) The Salmonella invasin SipB induces macrophage apoptosis
by binding to caspase-1. Proc Natl Acad Sci U S A 96:2396–2401
Hery M, Herrera A, Vogel TM, Normand P, Navarro E (2005) Effect of
carbon and nitrogen input on the bacterial community structure of
Neocaledonian nickel mine spoils. FEMS Microbiol Ecol 51:333–340
Heussler VT, Ku ¨enzi P, Rottenberg S (2001) Inhibition of apoptosis by
intracellular protozoan parasites. Int J Parasitol 31:1166–1176
Hilgenboecker K, Hammerstein P, Schlattmann P, Telschow A, Werren
JH (2008) How many species are infected with Wolbachia? A statistical analysis of current data. FEMS Microbiol Lett 281:215–220
Hinsinger P, Plassard C, Tang C, Jaillard B (2003) Origins of rootmediated pH changes in the rhizosphere and their responses to
environmental constraints: a review. Plant Soil 248:43–59
Hoffmann J (2003) The immune response of Drosophila. Nature
426:33–38
Hosokawa T, Koga R, Kikuchi Y, Meng XY, Fukatsu T (2010)
Wolbachia as a bacteriocyte-associated nutritional mutualist. Proc
Natl Acad Sci U S A 107:769–774
Hongoh Y, Ekpornprasit L, Inoue T, Moriya S, Trakulnaleamsai S,
Ohkuma M, Noparatnaraporn N, Kudo T (2006) Intracolony variation of bacterial gut microbiota among castes and ages in the
fungus-growing termite Macrotermes gilvus. Mol Ecol 15:505–516
Hooper LV, Stappenbeck TS, Hong CV, Gordon JI (2003)
Angiogenins: a new class of microbicidal proteins involved in
innate immunity. Nat Immunol 4:269–273
Hotopp JC, Clark ME, Oliveira DC (2007) Widespread lateral gene
transfer from intracellular bacteria to multicellular eukaryotes.
Science 317:1753–1756
Huguet V, Gouy M, Normand P, Zimpfer JF, Fernandez MP (2005)
Molecular phylogeny of Myricaceae: a reexamination of hostsymbiont specificity. Mol Phylogenet Evol 34:557–568
Hurd H, Grant KM, Arambage SC (2006) Apoptosis-like death as a
feature of malaria infection in mosquitoes. Parasitology 132(Suppl):
S33–S47
Ingram LC, Richmond MH, Sykes RB (1973) Molecular characterization of the R factors implicated in the carbenicillin resistance of a
sequence of Pseudomonas aeruginosa strains isolated from burns.
Antimicrob Agents Chemother 3:279–288
Jacobson MD, Weil M, Raff MC (1997) Programmed cell death in
animal development. Cell 88:347–354
Jahn U, Gallenberger M, Junglas B, Eisenreich W, Stetter KO, Rachel
R, Huber H (2008) Nanoarchaeum equitans and Ignicoccus
hospitalis: new insights into a unique, intimate association of two
Archaea. J Bacteriol 190:1743–1750
Jeyaprakash A, Hoy MA (2000) Long PCR improves Wolbachia DNA
amplification: wsp sequences found in 76 % of sixty-three arthropod
species. Insect Mol Biol 9:393–405
Johnston KL, Taylor MJ (2007) Wolbachia in filarial parasites: targets
for filarial infection and disease control. Curr Infect Dis Rep
9:55–59
Jones ML (1981) Rifitia pachyptila Jones: observations on the vestimentiferan worm from the Galapagos rift. Science 213:333–336
Jones JDG, Dangl JL (2006) The plant immune system. Nat Rev
444:323–329
Jousset A, Rochat L, Pe ´chy-Tarr M, Keel C, Scheu S, Bonkowski M
(2009) Predators promote defence of rhizosphere bacterial
populations by selective feeding on non-toxic cheaters. ISME J
3:666–674
Karolis DKR, Somara S, Maneval DR Jr, Johnson JA, Kaper JB (1999)
A bacteriophage encoding a pathogenicity island, a type-IV pilus
and a phage receptor in cholera bacteria. Nature 399:375–379
Kazemi-Pour N, Condemine G, Hugouvieux-Cotte-Pattat N (2004) The
secretome of the plant pathogenic bacterium Erwinia chrysanthemi.
Proteomics 4:3177–3186
Khan AG (2005) Role of soil microbes in the rhizospheres of plants
growing on trace metal contaminated soils in phytoremediation.
J Trace Elem Med Biol 18:355–364
Kimbell JR, McFall-Ngai M (2004) Symbiont-induced changes in host
actin during the onset of beneficial animal-bacterial association.
Appl Environ Microbiol 70:1434–1441
Kinkel LL, Wilson M, Lindow SE (2000) Plant species and plant
incubation conditions influence variability in epiphytic bacterial
population size. Microb Ecol 39:1–11
Kirby JE, Nekorchuk DM (2002) Bartonella-associated endothelial
proliferation depends on inhibition of apoptosis. Proc Natl Acad
Sci U S A 99:4656–4666
440
Y. Moe ¨nne-Loccoz et al.