Living inside plants: bacterial endophytes

Quispel, 1992, A search of signals in endophytic microorganisms, 471

Compant, 2010, Plant growth-promoting bacteria in the rhizo- and endosphere of plants: their role, colonization, mechanisms involved and prospects for utilization, Soil Biol Biochem, 42, 669, 10.1016/j.soilbio.2009.11.024

Weyens, 2009, Phytoremediation: plant–endophyte partnerships take the challenge, Curr Opin Biotechnol, 20, 248, 10.1016/j.copbio.2009.02.012

Rosenblueth, 2006, Bacterial endophytes and their interactions with hosts, Mol Plant–Microbe Interact, 19, 827, 10.1094/MPMI-19-0827

Chelius, 2001, The diversity of archaea and bacteria in association with the roots of Zea mays L., Microb Ecol, 41, 252, 10.1007/s002480000087

Sun, 2008, Endophytic bacterial diversity in rice (Oryza sativa L.) roots estimated by 16S rDNA sequence analysis, Microb Ecol, 55, 415, 10.1007/s00248-007-9287-1

Großkopf, 1998, Novel euryarchaeotal lineages detected on rice roots and in the anoxic bulk soil of flooded rice microcosms, Appl Environ Microbiol, 64, 4983, 10.1128/AEM.64.12.4983-4989.1998

Hurek, 2002, Azoarcus grass endophytes contribute fixed nitrogen to the plant in an unculturable state, Mol Plant–Microbe Interact, 15, 233, 10.1094/MPMI.2002.15.3.233

van der Lelie, 2009, Poplar and its bacterial endophytes: coexistence and harmony, Crit Rev Plant Sci, 28, 346, 10.1080/07352680903241204

Hardoim, 2008, Properties of bacterial endophytes and their proposed role in plant growth, Trends Microbiol, 16, 463, 10.1016/j.tim.2008.07.008

Reinhold-Hurek, 1998, Interactions of gramineous plants with Azoarcus spp. and other diazotrophs: identification, localization and perspectives to study their function, Crit Rev Plant Sci, 17, 29, 10.1016/S0735-2689(98)00355-4

Hurek, 1991, Infection of intact roots of Kallar grass and rice seedlings by Azoarcus, 235

Coombs, 2003, Visualization of an endophytic Streptomyces species in wheat seed, Appl Environ Microbiol, 69, 4260, 10.1128/AEM.69.7.4260-4262.2003

Reinhold-Hurek, 1998, Life in grasses: diazotrophic endophytes, Trends Microbiol, 6, 139, 10.1016/S0966-842X(98)01229-3

Chi, 2005, Ascending migration of endophytic rhizobia, from roots to leaves, inside rice plants and assessment of benefits to rice growth physiology, Appl Environ Microbiol, 71, 7271, 10.1128/AEM.71.11.7271-7278.2005

Compant, 2005, Endophytic colonization of Vitis vinifera L. by plant growth-promoting bacterium Burkholderia sp. strain PsJN, Appl Environ Microbiol, 71, 1685, 10.1128/AEM.71.4.1685-1693.2005

Lacava, 2007, Evaluation of endophytic colonization of Citrus sinensis and Catharanthus roseus seedlings by endophytic bacteria, J Microbiol, 45, 11

James, 2002, Infection and colonization of rice seedlings by the plant growth-promoting bacterium Herbaspirillum seropedicae Z67, Mol Plant–Microbe Interact, 15, 894, 10.1094/MPMI.2002.15.9.894

Ikeda, 2010, Community- and genome-based views of plant-associated bacteria: plant–bacterial interactions in soybean and rice, Plant Cell Physiol, 51, 1398, 10.1093/pcp/pcq119

Rothballer, 2008, Endophytic root colonization of gramineous plants by Herbaspirillum frisingense, FEMS Microbiol Ecol, 66, 85, 10.1111/j.1574-6941.2008.00582.x

Rouws, 2010, Monitoring the colonization of sugarcane and rice plants by the endophytic diazotrophic bacterium Gluconacetobacter diazotrophicus marked with gfp and gusA reporter genes, Lett Appl Microbiol, 51, 325, 10.1111/j.1472-765X.2010.02899.x

Taghavi, 2009, Genome survey and characterization of endophytic bacteria exhibiting a beneficial effect on growth and development of poplar trees, Appl Environ Microbiol, 75, 748, 10.1128/AEM.02239-08

Roncato-Maccari, 2003, Endophytic Herbaspirillum seropedicae expresses nif genes in gramineous plants, FEMS Microbiol Ecol, 45, 39, 10.1016/S0168-6496(03)00108-9

Reinhold-Hurek, 2007, The rice apoplast as a habitat for endophytic N2-fixing bacteria

dos Santos, 2010, Proteome of Gluconacetobacter diazotrophicus co-cultivated with sugarcane plantlets, J Proteomics, 73, 917, 10.1016/j.jprot.2009.12.005

Ikeda, 2010, Community shifts of soybean stem-associated bacteria responding to different nodulation phenotypes and N levels, ISME J, 4, 315, 10.1038/ismej.2009.119

Bressan, 2009, Exogenous glucosinolate produced by Arabidopsis thaliana has an impact on microbes in the rhizosphere and plant roots, ISME J, 3, 1243, 10.1038/ismej.2009.68

Demba Diallo, 2008, Evaluation of PCR primers for universal nifH gene targeting and for assessment of transcribed nifH pools in roots of Oryza longistaminata with and without low nitrogen input, FEMS Microbiol Ecol, 65, 220, 10.1111/j.1574-6941.2008.00545.x

Knauth, 2005, Influence of different Oryza cultivars on expression of nifH gene pools in roots of rice, Environ Microbiol, 7, 1725, 10.1111/j.1462-2920.2005.00841.x

Zhang, 2007, Microarray-based analysis of nitrogenase gene pool diversity in soils of different plant diversity, Environ Microbiol, 53, 456

Burbano, 2011, Predominant nifH transcript phylotypes related to Rhizobium rosettiformans in field-grown sugarcane plants and in Norway spruce, Environ Microbiol Rep, 10.1111/j.1758-2229.2010.00238.x

Boddey, 1995, Biological nitrogen fixation associated with sugar cane and rice: contributions and prospects for improvement, Plant Soil, 174, 195, 10.1007/BF00032247

Baldani, 2002, A brief story of nitrogen fixation in sugarcane — reasons for success in Brazil, Funct Plant Biol, 29, 417, 10.1071/PP01083

Thaweenut, 2011, Two seasons’ study on nifH gene expression and nitrogen fixation by diazotrophic endophytes in sugarcane (Saccharum spp. hybrids): expression of nifH genes similar to those of rhizobia, Plant Soil, 338, 435, 10.1007/s11104-010-0557-1

Burbano, 2010, LNA-substituted degenerate primers improve detection of nitrogenase gene transcription in environmental samples, Environ Microbiol Rep, 2, 251, 10.1111/j.1758-2229.2009.00107.x

Huang, 2009, Resolving genetic functions within microbial populations: in situ analyses using rRNA and mRNA stable isotope probing coupled with single-cell Raman-fluorescence in situ hybridization, Appl Environ Microbiol, 75, 234, 10.1128/AEM.01861-08

Dumont, 2011, DNA-, rRNA- and mRNA-based stable isotope probing of aerobic methanotrophs in lake sediment, Environ Microbiol, 11, 1153, 10.1111/j.1462-2920.2010.02415.x

Clode, 2009, In situ mapping of nutrient uptake in the rhizosphere using nanoscale secondary ion mass spectrometry, Plant Physiol, 151, 1751, 10.1104/pp.109.141499

Yang, 2009, Translating metabolic exchange with imaging mass spectrometry, Nat Chem Biol, 5, 885, 10.1038/nchembio.252

Ikeda, 2009, Development of a bacterial cell enrichment method and its application to the community analysis in soybean stems, Microb Ecol, 58, 703, 10.1007/s00248-009-9566-0

Cashins, 2008, Sodium hypochlorite denatures the DNA of the amphibian chytrid fungus Batrachochytrium dendrobatidis, Dis Aquat Organ, 80, 63, 10.3354/dao01919

Bednarek, 2010, Not a peripheral issue: secretion in plant–microbe interactions, Curr Opin Plant Biol, 13, 378, 10.1016/j.pbi.2010.05.002

McClung, 1983, Enumeration and localization of N2-fixing bacteria associated with roots of Spartina alterniflora Loisel, Appl Environ Microbiol, 45, 1914, 10.1128/AEM.45.6.1914-1920.1983

Reinhold, 1986, Close association of Azospirillum and diazotrophic rods with different root zones of Kallar grass, Appl Environ Microbiol, 52, 520, 10.1128/AEM.52.3.520-526.1986

Balsanelli, 2010, Herbaspirillum seropedicae rfbB and rfbC genes are required for maize colonization, Environ Microbiol, 2233, 10.1111/j.1462-2920.2010.02187.x

Dörr, 1998, Type IV, pili are involved in plant–microbe and fungus–microbe interactions, Mol Microbiol, 30, 7, 10.1046/j.1365-2958.1998.01010.x

Reinhold-Hurek, 2006, An endoglucanase is involved in infection of rice roots by the not cellulose-metabolizing endophyte Azoarcus sp. BH72, Mol Plant–Microbe Interact, 19, 181, 10.1094/MPMI-19-0181

Böhm, 2007, Twitching motility is essential for endophytic rice colonization by the N2-fixing endophyte Azoarcus sp. strain BH72, Mol Plant–Microbe Interact, 20, 526, 10.1094/MPMI-20-5-0526

Meng, 2005, Upstream migration of Xylella fastidiosa via pilus-driven twitching motility, J Bacteriol, 187, 5560, 10.1128/JB.187.16.5560-5567.2005

Pérez-Donoso, 2010, Cell wall-degrading enzymes enlarge the pore size of intervessel pit membranes in healthy and Xylella fastidiosa-infected grapevines, Plant Physiol, 152, 1748, 10.1104/pp.109.148791

Iniguez, 2005, Regulation of enteric endophytic bacterial colonization by plant defenses, Mol Plant–Microbe Interact, 18, 169, 10.1094/MPMI-18-0169

Jones, 2006, The plant immune system, Nature, 444, 323, 10.1038/nature05286

Cooley, 2003, Colonization of Arabidopsis thaliana with Salmonella enterica and enterohemorrhagic Escherichia coli O157:H7 and competition by Enterobacter asburiae, Appl Environ Microbiol, 69, 4915, 10.1128/AEM.69.8.4915-4926.2003

Miché, 2006, Upregulation of jasmonate-inducible defense proteins and differential colonization of roots of Oryza sativa cultivars with the endophyte Azoarcus sp., Mol Plant–Microbe Interact, 19, 502, 10.1094/MPMI-19-0502

Shah, 2009, Plants under attack: systemic signals in defence, Curr Opin Plant Biol, 12, 459, 10.1016/j.pbi.2009.05.011

Yasuda, 2009, Effects of colonization of a bacterial endophyte, Azospirillum sp. B510, on disease resistance in rice, Biosci Biotech Biochem, 73, 2595, 10.1271/bbb.90402

Conn, 2008, Endophytic actinobacteria induce defense pathways in Arabidopsis thaliana, Mol Plant–Microbe Interact, 21, 208, 10.1094/MPMI-21-2-0208

Bordiec, 2010, Comparative analysis of defence responses induced by the endophytic plant growth-promoting rhizobacterium Burkholderia phytofirmans strain PsJN and the non-host bacterium Pseudomonas syringae pv. pisi in grapevine cell suspensions, J Exp Bot, 62, 595, 10.1093/jxb/erq291

Long, 2010, The structure of the culturable root bacterial endophyte community of Nicotiana attenuata is organized by soil composition and host plant ethylene production and perception, New Phytol, 185, 554, 10.1111/j.1469-8137.2009.03079.x

Cavalcante, 2007, Members of the ethylene signalling pathway are regulated in sugarcane during the association with nitrogen-fixing endophytic bacteria, J Exp Bot, 58, 673, 10.1093/jxb/erl242

Krause, 2006, Genomic insights into the lifestyle of the mutualistic, N2-fixing grass endophyte Azoarcus sp. strain BH72, Nat Biotechnol, 24, 1385, 10.1038/nbt1243

Kaneko, 2010, Complete genomic structure of the cultivated rice endophyte Azospirillum sp. B510, DNA Res, 17, 37, 10.1093/dnares/dsp026

Taghavi, 2010, Genome sequence of the plant growth promoting endophytic bacterium Enterobacter sp. 638, PLoS Genet, 6, e1000943, 10.1371/journal.pgen.1000943

Bertalan, 2009, Complete genome sequence of the sugarcane nitrogen-fixing endophyte Gluconacetobacter diazotrophicus Pal5, BMC Genomics, 10, 450, 10.1186/1471-2164-10-450

Fouts, 2008, Complete genome sequence of the N2-fixing broad host range endophyte Klebsiella pneumoniae 342 and virulence predictions verified in mice, PLoS Biol, 4, e1000141

Yan, 2008, Nitrogen fixation island and rhizosphere competence traits in the genome of root-associated Pseudomonas stutzeri A1501, Proc Natl Acad Sci U S A, 105, 7564, 10.1073/pnas.0801093105

Downie, 2010, The roles of extracellular proteins, polysaccharides and signals in the interactions of rhizobia with legume roots, FEMS Microbiol Rev, 34, 150, 10.1111/j.1574-6976.2009.00205.x

Boyer, 2009, Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources?, BMC Genomics, 10, 104, 10.1186/1471-2164-10-104

Pukatzki, 2009, The type VI secretion system: translocation of effectors and effector-domains, Curr Opin Microbiol, 12, 11, 10.1016/j.mib.2008.11.010

Hood, 2010, A type VI secretion system of Pseudomonas aeruginosa targets a toxin to bacteria, Cell Host Microbe, 7, 25, 10.1016/j.chom.2009.12.007

Bladergroen, 2003, Infection-blocking genes of a symbiotic Rhizobium leguminosarum strain that are involved in temperature-dependent protein secretion, Mol Plant–Microbe Interact, 16, 53, 10.1094/MPMI.2003.16.1.53

Wu, 2008, Secretome analysis uncovers an Hcp-family protein secreted via a type VI secretion system in Agrobacterium tumefaciens, J Bacteriol, 190, 2841, 10.1128/JB.01775-07

Mattinen, 2008, Microarray profiling of host-extract-induced genes and characterization of the type VI secretion cluster in the potato pathogen Pectobacterium atrosepticum, Microbiol, 154, 2387, 10.1099/mic.0.2008/017582-0