References
Alam M.A., Subhan N., Hossain H., Hossain M., Reza H.M., Rahman M.M. &
Ullah M.O. (2016) Hydroxycinnamic acid derivatives: a potential class of
natural compounds for the management of lipid metabolism and obesity.Nutrition & Metabolism 13 , 27.
Appelhagen I., Thiedig K., Nordholt N., Schmidt N., Huep G., Sagasser M.
& Weisshaar B. (2014) Update on transparent testa mutants from
Arabidopsis thaliana: characterisation of new alleles from an isogenic
collection. Planta 240 , 955–970.
Barriuso J., Ramos Solano B., Fray R.G., Cámara M., Hartmann A. &
Gutiérrez Mañero F.J. (2008) Transgenic tomato plants alter quorum
sensing in plant growth-promoting rhizobacteria. Plant
Biotechnology Journal 6 , 442–452.
Baxter I.R., Young J.C., Armstrong G., Foster N., Bogenschutz N.,
Cordova T., … Harper J.F. (2005) A plasma membrane H+-ATPase is
required for the formation of proanthocyanidins in the seed coat
endothelium of Arabidopsis thaliana. Proceedings of the National
Academy of Sciences 102 , 2649–2654.
Benizri E., Baudoin E. & Guckert A. (2001) Root Colonization by
Inoculated Plant Growth-Promoting Rhizobacteria. Biocontrol
Science and Technology 11 , 557–574.
Besseau S., Hoffmann L., Geoffroy P., Lapierre C., Pollet B. & Legrand
M. (2007) Flavonoid Accumulation in Arabidopsis Repressed in Lignin
Synthesis Affects Auxin Transport and Plant Growth. The Plant
Cell 19 , 148–162.
Bowerman P.A., Ramirez M.V., Price M.B., Helm R.F. & Winkel B.S. (2012)
Analysis of T-DNA alleles of flavonoid biosynthesis genes in Arabidopsis
ecotype Columbia. BMC Research Notes 5 , 485.
Brown D.E., Rashotte A.M., Murphy A.S., Normanly J., Tague B.W., Peer
W.A., … Muday G.K. (2001) Flavonoids Act as Negative Regulators
of Auxin Transport in Vivo in Arabidopsis. Plant Physiology126 , 524–535.
Buer C.S., Kordbacheh F., Truong T.T., Hocart C.H. & Djordjevic M.A.
(2013) Alteration of flavonoid accumulation patterns in transparent
testa mutants disturbs auxin transport, gravity responses, and imparts
long-term effects on root and shoot architecture. Planta238 , 171–189.
Buer C.S. & Muday G.K. (2004) The transparent testa4 Mutation Prevents
Flavonoid Synthesis and Alters Auxin Transport and the Response of
Arabidopsis Roots to Gravity and Light. The Plant Cell16 , 1191–1205.
Carrión V.J., Cordovez V., Tyc O., Etalo D.W., de Bruijn I., de Jager
V.C.L., … Raaijmakers J.M. (2018) Involvement of Burkholderiaceae
and sulfurous volatiles in disease-suppressive soils. The ISME
Journal 12 , 2307–2321.
Chamam A., Sanguin H., Bellvert F., Meiffren G., Comte G.,
Wisniewski-Dyé F., … Prigent-Combaret C. (2013) Plant secondary
metabolite profiling evidences strain-dependent effect in the
Azospirillum–Oryza sativa association. Phytochemistry87 , 65–77.
Cheng X., Etalo D.W., van de Mortel J.E., Dekkers E., Nguyen L., Medema
M.H. & Raaijmakers J.M. (2017) Genome-wide analysis of bacterial
determinants of plant growth promotion and induced systemic resistance
by Pseudomonas fluorescens. Environmental Microbiology19 , 4638–4656.
Cordovez V., Schop S., Hordijk K., Dupré de Boulois H., Coppens F.,
Hanssen I., … Carrión V.J. (2018) Priming of Plant Growth
Promotion by Volatiles of Root-Associated Microbacterium spp.Applied and Environmental Microbiology 84 , e01865-18.
De Souza J.T., De Boer M., De Waard P., Van Beek T.A. & Raaijmakers
J.M. (2003) Biochemical, genetic, and zoosporicidal properties of cyclic
lipopeptide surfactants produced by Pseudomonas fluorescens.Applied and Environmental Microbiology 69 , 7161–7172.
De Vleesschauwer D. & Höfte M. (2009) Chapter 6 Rhizobacteria-Induced
Systemic Resistance. In Advances in Botanical Research . Advances
in Botanical Research, pp. 223–281. Academic Press.
De Vos R.C., Moco S., Lommen A., Keurentjes J.J., Bino R.J. & Hall R.D.
(2007) Untargeted large-scale plant metabolomics using liquid
chromatography coupled to mass spectrometry. Nature Protocols2 , 778–791.
DeBolt S., Scheible W.-R., Schrick K., Auer M., Beisson F., Bischoff V.,
… Somerville C. (2009) Mutations in UDP-Glucose:Sterol
Glucosyltransferase in Arabidopsis Cause Transparent Testa Phenotype and
Suberization Defect in Seeds. Plant Physiology 151 ,
78–87.
Devic M., Guilleminot J., Debeaujon I., Bechtold N., Bensaude E.,
Koornneef M., … Delseny M. (1999) The BANYULS gene encodes a
DFR-like protein and is a marker of early seed coat development.The Plant Journal 19 , 387–398.
Etalo D.W., Jeon J.-S. & Raaijmakers J.M. (2018) Modulation of plant
chemistry by beneficial root microbiota. Natural Product Reports35 , 398–409.
Focks N., Sagasser M., Weisshaar B. & Benning C. (1999)
Characterization of tt15, a novel transparent testa mutant of
Arabidopsis thaliana (L.) Heynh. Planta 208 , 352–357.
Hu L., Robert C.A.M., Cadot S., Zhang X., Ye M., Li B., … Erb M.
(2018) Root exudate metabolites drive plant-soil feedbacks on growth and
defense by shaping the rhizosphere microbiota. Nature
Communications 9 , 2738.
Jeon J.-S., Carreno-Quintero N., van Eekelen H.D.L.M., De Vos R.C.H.,
Raaijmakers J.M. & Etalo D.W. (2021) Impact of root-associated strains
of three Paraburkholderia species on primary and secondary metabolism of
Brassica oleracea. Scientific Reports 11 , 2781.
Kuhn B.M., Errafi S., Bucher R., Dobrev P., Geisler M., Bigler L.,
… Ringli C. (2016) 7-Rhamnosylated Flavonols Modulate Homeostasis
of the Plant Hormone Auxin and Affect Plant Development. The
Journal of Biological Chemistry 291 , 5385–5395.
Kuhn B.M., Geisler M., Bigler L. & Ringli C. (2011) Flavonols
Accumulate Asymmetrically and Affect Auxin Transport in
Arabidopsis1[C][W][OA]. Plant Physiology156 , 585–595.
Kuhn B.M., Nodzyński T., Errafi S., Bucher R., Gupta S., Aryal B.,
… Ringli C. (2017) Flavonol-induced changes in PIN2 polarity and
auxin transport in the Arabidopsis thaliana rol1-2 mutant require
phosphatase activity. Scientific Reports 7 , 41906.
Lambers H., Mougel C., Jaillard B. & Hinsinger P. (2009)
Plant-microbe-soil interactions in the rhizosphere: an evolutionary
perspective. Plant and Soil 321 , 83–115.
Lepiniec L., Debeaujon I., Routaboul J.-M., Baudry A., Pourcel L., Nesi
N. & Caboche M. (2006) Genetics and biochemistry of seed flavonoids.Annual Review of Plant Biology 57 , 405–430.
Li X., Bonawitz N.D., Weng J.-K. & Chapple C. (2010) The Growth
Reduction Associated with Repressed Lignin Biosynthesis in Arabidopsis
thaliana Is Independent of Flavonoids[C]. The Plant Cell22 , 1620–1632.
Lommen A. (2009) MetAlign: Interface-Driven, Versatile Metabolomics Tool
for Hyphenated Full-Scan Mass Spectrometry Data Preprocessing.Analytical Chemistry 81 , 3079–3086.
van Loon L.C., Bakker P.A. & Pieterse C.M. (1998) Systemic resistance
induced by rhizosphere bacteria. Annual Review of Phytopathology36 , 453–483.
Lugtenberg B. & Kamilova F. (2009) Plant-Growth-Promoting
Rhizobacteria. Annual Review of Microbiology 63 ,
541–556.
Marinova K., Pourcel L., Weder B., Schwarz M., Barron D., Routaboul
J.-M., … Klein M. (2007) The Arabidopsis MATE Transporter TT12
Acts as a Vacuolar Flavonoid/H+-Antiporter Active in
Proanthocyanidin-Accumulating Cells of the Seed Coat. The Plant
Cell 19 , 2023–2038.
Mendes R., Kruijt M., Bruijn I. de, Dekkers E., Voort M. van der,
Schneider J.H.M., … Raaijmakers J.M. (2011) Deciphering the
Rhizosphere Microbiome for Disease-Suppressive Bacteria. Science332 , 1097–1100.
Mishra R.P.N., Singh R.K., Jaiswal H.K., Kumar V. & Maurya S. (2006)
Rhizobium-Mediated Induction of Phenolics and Plant Growth Promotion in
Rice (Oryza sativa L.). Current Microbiology 52 ,
383–389.
van de Mortel J.E., de Vos R.C.H., Dekkers E., Pineda A., Guillod L.,
Bouwmeester K., … Raaijmakers J.M. (2012) Metabolic and
Transcriptomic Changes Induced in Arabidopsis by the Rhizobacterium
Pseudomonas fluorescens SS1011[W][OA]. Plant Physiology160 , 2173–2188.
Murphy A., Peer W.A. & Taiz L. (2000) Regulation of auxin transport by
aminopeptidases and endogenous flavonoids. Planta 211 ,
315–324.
Nakabayashi R., Yonekura-Sakakibara K., Urano K., Suzuki M., Yamada Y.,
Nishizawa T., … Saito K. (2014) Enhancement of oxidative and
drought tolerance in Arabidopsis by overaccumulation of antioxidant
flavonoids. The Plant Journal 77 , 367–379.
Ostonen I., Lõhmus K., Helmisaari H.-S., Truu J. & Meel S. (2007) Fine
root morphological adaptations in Scots pine, Norway spruce and silver
birch along a latitudinal gradient in boreal forests. Tree
Physiology 27 , 1627–1634.
Peer W.A., Bandyopadhyay A., Blakeslee J.J., Makam S.N., Chen R.J.,
Masson P.H. & Murphy A.S. (2004) Variation in Expression and Protein
Localization of the PIN Family of Auxin Efflux Facilitator Proteins in
Flavonoid Mutants with Altered Auxin Transport in Arabidopsis thaliana
[W]. The Plant Cell 16 , 1898–1911.
Peer W.A., Brown D.E., Tague B.W., Muday G.K., Taiz L. & Murphy A.S.
(2001) Flavonoid Accumulation Patterns of Transparent Testa Mutants of
Arabidopsis. Plant Physiology 126 , 536–548.
Pineda A., Zheng S.-J., van Loon J.J.A., Pieterse C.M.J. & Dicke M.
(2010) Helping plants to deal with insects: the role of beneficial
soil-borne microbes. Trends in Plant Science 15 ,
507–514.
Pourcel L., Routaboul J.-M., Cheynier V., Lepiniec L. & Debeaujon I.
(2007) Flavonoid oxidation in plants: from biochemical properties to
physiological functions. Trends in Plant Science 12 ,
29–36.
Pourcel L., Routaboul J.-M., Kerhoas L., Caboche M., Lepiniec L. &
Debeaujon I. (2005) TRANSPARENT TESTA10 Encodes a Laccase-Like Enzyme
Involved in Oxidative Polymerization of Flavonoids in Arabidopsis Seed
Coat. The Plant Cell 17 , 2966–2980.
Raaijmakers J.M., Paulitz T.C., Steinberg C., Alabouvette C. &
Moënne-Loccoz Y. (2009) The rhizosphere: a playground and battlefield
for soilborne pathogens and beneficial microorganisms. Plant and
Soil 321 , 341–361.
Ridder L., van der Hooft J.J.J., Verhoeven S., de Vos R.C.H., Bino R.J.
& Vervoort J. (2013) Automatic Chemical Structure Annotation of an
LC–MSn Based Metabolic Profile from Green Tea. Analytical
Chemistry 85 , 6033–6040.
Routaboul J.-M., Dubos C., Beck G., Marquis C., Bidzinski P., Loudet O.
& Lepiniec L. (2012) Metabolite profiling and quantitative genetics of
natural variation for flavonoids in Arabidopsis. Journal of
Experimental Botany 63 , 3749–3764.
Routaboul J.-M., Kerhoas L., Debeaujon I., Pourcel L., Caboche M.,
Einhorn J. & Lepiniec L. (2006) Flavonoid diversity and biosynthesis in
seed of Arabidopsis thaliana. Planta 224 , 96–107.
Santelia D., Henrichs S., Vincenzetti V., Sauer M., Bigler L., Klein M.,
… Martinoia E. (2008) Flavonoids redirect PIN-mediated polar
auxin fluxes during root gravitropic responses. The Journal of
Biological Chemistry 283 , 31218–31226.
Sharma D., Tiwari M., Pandey A., Bhatia C., Sharma A. & Trivedi P.K.
(2016) MicroRNA858 Is a Potential Regulator of Phenylpropanoid Pathway
and Plant Development. Plant Physiology 171 , 944–959.
Stringlis I.A., Yu K., Feussner K., Jonge R. de, Bentum S.V., Verk
M.C.V., … Pieterse C.M.J. (2018a) MYB72-dependent coumarin
exudation shapes root microbiome assembly to promote plant health.Proceedings of the National Academy of Sciences 115 ,
E5213–E5222.
Stringlis I.A., Zhang H., Pieterse C.M.J., Bolton M.D. & Jonge R. de
(2018b) Microbial small molecules – weapons of plant subversion.Natural Product Reports 35 , 410–433.
Tikunov Y.M., Laptenok S., Hall R.D., Bovy A. & de Vos R.C.H. (2012)
MSClust: a tool for unsupervised mass spectra extraction of
chromatography-mass spectrometry ion-wise aligned data.Metabolomics 8 , 714–718.
Tilley L., Straimer J., Gnädig N.F., Ralph S.A. & Fidock D.A. (2016)
Artemisinin action and resistance in Plasmodium falciparum. Trends
in parasitology 32 , 682–696.
Traka M.H. (2016) Chapter Nine - Health Benefits of Glucosinolates. InAdvances in Botanical Research . Glucosinolates, (ed S. Kopriva),
pp. 247–279. Academic Press.
Tran H., Ficke A., Asiimwe T., Höfte M. & Raaijmakers J.M. (2007) Role
of the cyclic lipopeptide massetolide A in biological control of
Phytophthora infestans and in colonization of tomato plants by
Pseudomonas fluorescens. New Phytologist 175 , 731–742.
Van der Ent S., Van Wees S.C.M. & Pieterse C.M.J. (2009) Jasmonate
signaling in plant interactions with resistance-inducing beneficial
microbes. Phytochemistry 70 , 1581–1588.
Walker V., Bertrand C., Bellvert F., Moënne-Loccoz Y., Bally R. & Comte
G. (2011) Host plant secondary metabolite profiling shows a complex,
strain-dependent response of maize to plant growth-promoting
rhizobacteria of the genus Azospirillum. New Phytologist189 , 494–506.
Weston D.J., Pelletier D.A., Morrell-Falvey J.L., Tschaplinski T.J.,
Jawdy S.S., Lu T.-Y., … Tuskan G.A. (2012) Pseudomonas
fluorescens Induces Strain-Dependent and Strain-Independent Host Plant
Responses in Defense Networks, Primary Metabolism, Photosynthesis, and
Fitness. Molecular Plant-Microbe Interactions® 25 ,
765–778.
Xiao J., Capanoglu E., Jassbi A.R. & Miron A. (2016) Advance on the
Flavonoid C-glycosides and Health Benefits. Critical Reviews in
Food Science and Nutrition 56 , S29–S45.
Xie D.-Y., Sharma S.B., Paiva N.L., Ferreira D. & Dixon R.A. (2003)
Role of Anthocyanidin Reductase, Encoded by BANYULS in Plant Flavonoid
Biosynthesis. Science 299 , 396–399.
Yin R., Han K., Heller W., Albert A., Dobrev P.I., Zažímalová E. &
Schäffner A.R. (2014) Kaempferol 3-O-rhamnoside-7-O-rhamnoside is an
endogenous flavonol inhibitor of polar auxin transport in Arabidopsis
shoots. New Phytologist 201 , 466–475.