Choreographing root architecture and rhizosphere interactions through synthetic biology

Ragland, Carin J.; Shih, Kevin Y.; Dinneny, José R.

doi:10.1038/s41467-024-45272-5

Title: Choreographing root architecture and rhizosphere interactions through synthetic biology

Journal Article · 14 February 2024 · Nature Communications

DOI: https://doi.org/10.1038/s41467-024-45272-5 · OSTI ID:2305409

Ragland, Carin J.; Shih, Kevin Y.;

Abstract Climate change is driving extreme changes to the environment, posing substantial threats to global food security and bioenergy. Given the direct role of plant roots in mediating plant-environment interactions, engineering the form and function of root systems and their associated microbiota may mitigate these effects. Synthetic genetic circuits have enabled sophisticated control of gene expression in microbial systems for years and a surge of advances has heralded the extension of this approach to multicellular plant species. Targeting these tools to affect root structure, exudation, and microbe activity on root surfaces provide multiple strategies for the advancement of climate-ready crops.

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Research Organization:: Donald Danforth Plant Science Center, St. Louis, MO (United States)

Sponsoring Organization:: USDOE; USDOE Office of Science (SC)

Grant/Contract Number:: SC0023160

OSTI ID:: 2305409

Alternate ID(s):: OSTI ID: 2471864

Journal Information:: Nature Communications, Journal Name: Nature Communications Vol. 15 Journal Issue: 1; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United Kingdom

Language:: English

References (136)

Benzoxazinoids in Root Exudates of Maize Attract Pseudomonas putida to the Rhizosphere Neal, Andrew L.; Ahmad, Shakoor; Gordon-Weeks, Ruth PLoS ONE, Vol. 7, Issue 4 https://doi.org/10.1371/journal.pone.0035498	journal	April 2012
ENHANCED GRAVITROPISM 2 encodes a STERILE ALPHA MOTIF–containing protein that controls root growth angle in barley and wheat Kirschner, Gwendolyn K.; Rosignoli, Serena; Guo, Li Proceedings of the National Academy of Sciences, Vol. 118, Issue 35 https://doi.org/10.1073/pnas.2101526118	journal	August 2021
Recent Advances in the Bacterial Phytohormone Modulation of Plant Growth Orozco-Mosqueda, Ma. del Carmen; Santoyo, Gustavo; Glick, Bernard R. Plants, Vol. 12, Issue 3 https://doi.org/10.3390/plants12030606	journal	January 2023
Identification of a root-specific glycosyltransferase from Arabidopsis and characterization of its promoter Vijaybhaskar, Virupapuram; Subbiah, Veeraputhiran; Kaur, Jagreet Journal of Biosciences, Vol. 33, Issue 2 https://doi.org/10.1007/s12038-008-0036-5	journal	June 2008
The effects of allelochemicals from root exudates of Flaveria bidentis on two Bacillus species Sun, Chaofang; Li, Qiao; Han, Lingling Frontiers in Plant Science, Vol. 13 https://doi.org/10.3389/fpls.2022.1001208	journal	December 2022
DRO1 influences root system architecture in Arabidopsis and Prunus species Guseman, Jessica M.; Webb, Kevin; Srinivasan, Chinnathambi The Plant Journal, Vol. 89, Issue 6 https://doi.org/10.1111/tpj.13470	journal	March 2017
Strategy for Structural Elucidation of Polysaccharides: Elucidation of a Maize Mucilage that Harbors Diazotrophic Bacteria Amicucci, Matthew J.; Galermo, Ace G.; Guerrero, Andres Analytical Chemistry, Vol. 91, Issue 11 https://doi.org/10.1021/acs.analchem.9b00789	journal	April 2019
Root Caps and Rhizosphere Hawes, Martha C.; Bengough, Glyn; Cassab, Gladys Journal of Plant Growth Regulation, Vol. 21, Issue 4 https://doi.org/10.1007/s00344-002-0035-y	journal	December 2002
Root Mucilage from Pea and Its Utilization by Rhizosphere Bacteria as a Sole Carbon Source Knee, Emma M.; Gong, Fang-Chen; Gao, Mensheng Molecular Plant-Microbe Interactions®, Vol. 14, Issue 6 https://doi.org/10.1094/MPMI.2001.14.6.775	journal	June 2001
Auxin-Producing Bacteria from Duckweeds Have Different Colonization Patterns and Effects on Plant Morphology Gilbert, Sarah; Poulev, Alexander; Chrisler, William Plants, Vol. 11, Issue 6 https://doi.org/10.3390/plants11060721	journal	March 2022
A cell-type-specific defect in border cell formation in the Acacia mangium root cap developing an extraordinary sheath of sloughed-off cells Endo, Izuki; Tange, Takeshi; Osawa, Hiroki Annals of Botany, Vol. 108, Issue 2 https://doi.org/10.1093/aob/mcr139	journal	June 2011
Genomic mining of prokaryotic repressors for orthogonal logic gates Stanton, Brynne C.; Nielsen, Alec A. K.; Tamsir, Alvin Nature Chemical Biology, Vol. 10, Issue 2 https://doi.org/10.1038/nchembio.1411	journal	December 2013
Engineering Modular Viral Scaffolds for Targeted Bacterial Population Editing Ando, Hiroki; Lemire, Sebastien; Pires, Diana P. Cell Systems, Vol. 1, Issue 3 https://doi.org/10.1016/j.cels.2015.08.013	journal	September 2015
Microbial carbon use efficiency promotes global soil carbon storage Tao, Feng; Huang, Yuanyuan; Hungate, Bruce A. Nature, Vol. 618, Issue 7967 https://doi.org/10.1038/s41586-023-06042-3	journal	May 2023
Species- and site-specific genome editing in complex bacterial communities Rubin, Benjamin E.; Diamond, Spencer; Cress, Brady F. Nature Microbiology, Vol. 7, Issue 1 https://doi.org/10.1038/s41564-021-01014-7	journal	December 2021
Exogenous RNA interference exposes contrasting roles for sugar exudation in host-finding by plant pathogens Warnock, Neil D.; Wilson, Leonie; Canet-Perez, Juan V. International Journal for Parasitology, Vol. 46, Issue 8 https://doi.org/10.1016/j.ijpara.2016.02.005	journal	July 2016
Structure, variation, and assembly of the root-associated microbiomes of rice Edwards, Joseph; Johnson, Cameron; Santos-Medellín, Christian Proceedings of the National Academy of Sciences, Vol. 112, Issue 8 https://doi.org/10.1073/pnas.1414592112	journal	January 2015
Casparian strip diffusion barrier in Arabidopsis is made of a lignin polymer without suberin Naseer, S.; Lee, Y.; Lapierre, C. Proceedings of the National Academy of Sciences, Vol. 109, Issue 25 https://doi.org/10.1073/pnas.1205726109	journal	June 2012
Soil C Sequestration as a Biological Negative Emission Strategy Paustian, Keith; Larson, Eric; Kent, Jeffrey Frontiers in Climate, Vol. 1 https://doi.org/10.3389/fclim.2019.00008	journal	October 2019
Microbial contribution to SOM quantity and quality in density fractions of temperate arable soils Ludwig, Marie; Achtenhagen, Jan; Miltner, Anja Soil Biology and Biochemistry, Vol. 81 https://doi.org/10.1016/j.soilbio.2014.12.002	journal	February 2015
Pseudomonas putida mediates bacterial killing, biofilm invasion and biocontrol with a type IVB secretion system Purtschert-Montenegro, Gabriela; Cárcamo-Oyarce, Gerardo; Pinto-Carbó, Marta Nature Microbiology, Vol. 7, Issue 10 https://doi.org/10.1038/s41564-022-01209-6	journal	September 2022
Metagenomic engineering of the mammalian gut microbiome in situ Ronda, Carlotta; Chen, Sway P.; Cabral, Vitor Nature Methods, Vol. 16, Issue 2 https://doi.org/10.1038/s41592-018-0301-y	journal	January 2019
Intracellular carbon storage by microorganisms is an overlooked pathway of biomass growth Mason-Jones, Kyle; Breidenbach, Andreas; Dyckmans, Jens Nature Communications, Vol. 14, Issue 1 https://doi.org/10.1038/s41467-023-37713-4	journal	April 2023
Modification of rhizobacterial populations by engineering bacterium utilization of a novel plant-produced resource Savka, Michael A.; Farrand, Stephen K. Nature Biotechnology, Vol. 15, Issue 4 https://doi.org/10.1038/nbt0497-363	journal	April 1997
RGPDB: database of root-associated genes and promoters in maize, soybean, and sorghum Moisseyev, Gleb; Park, Kiyoul; Cui, Alix Database, Vol. 2020 https://doi.org/10.1093/database/baaa038	journal	January 2020
PROTEIN SPLICING ELEMENTS AND PLANTS: From Transgene Containment to Protein Purification Evans, Thomas C.; Xu, Ming-Qun; Pradhan, Sriharsa Annual Review of Plant Biology, Vol. 56, Issue 1 https://doi.org/10.1146/annurev.arplant.56.032604.144242	journal	June 2005
Homology-Dependent gene Silencing in Plants Meyer, P.; Saedler, H. Annual Review of Plant Physiology and Plant Molecular Biology, Vol. 47, Issue 1 https://doi.org/10.1146/annurev.arplant.47.1.23	journal	June 1996
Engineering transkingdom signalling in plants to control gene expression in rhizosphere bacteria Geddes, Barney A.; Paramasivan, Ponraj; Joffrin, Amelie Nature Communications, Vol. 10, Issue 1 https://doi.org/10.1038/s41467-019-10882-x	journal	July 2019
A critical role of an oxygen-responsive gene for aerobic nitrogenase activity in Azotobacter vinelandii and its application to Escherichia coli Takimoto, Ren; Tatemichi, Yuki; Aoki, Wataru Scientific Reports, Vol. 12, Issue 1 https://doi.org/10.1038/s41598-022-08007-4	journal	March 2022
Engineering Posttranslational Regulation of Glutamine Synthetase for Controllable Ammonia Production in the Plant Symbiont Azospirillum brasilense Schnabel, Tim; Sattely, Elizabeth Applied and Environmental Microbiology, Vol. 87, Issue 14 https://doi.org/10.1128/AEM.00582-21	journal	June 2021
Experimental-Evolution-Driven Identification of Arabidopsis Rhizosphere Competence Genes in Pseudomonas protegens Li, Erqin; Zhang, Hao; Jiang, Henan mBio, Vol. 12, Issue 3 https://doi.org/10.1128/mBio.00927-21	journal	June 2021
Genome-mining approaches for the evaluation of Pseudomonas protegens and related strains isolated from the rhizosphere in Japan Takeuchi, Kasumi; Someya, Nobutaka; Morohoshi, Tomohiro Physiological and Molecular Plant Pathology, Vol. 125 https://doi.org/10.1016/j.pmpp.2023.101981	journal	May 2023
A mechanical theory of competition between plant root growth and soil pressure reveals a potential mechanism of root penetration Tomobe, Haruka; Tsugawa, Satoru; Yoshida, Yuki Scientific Reports, Vol. 13, Issue 1 https://doi.org/10.1038/s41598-023-34025-x	journal	May 2023
Identification of Pseudomonas fluorescens Chemotaxis Sensory Proteins for Malate, Succinate, and Fumarate, and Their Involvement in Root Colonization Oku, Shota; Komatsu, Ayaka; Nakashimada, Yutaka Microbes and Environments, Vol. 29, Issue 4 https://doi.org/10.1264/jsme2.ME14128	journal	January 2014
Mucilage Polysaccharide Composition and Exudation in Maize From Contrasting Climatic Regions Nazari, Meisam; Riebeling, Sophie; Banfield, Callum C. Frontiers in Plant Science, Vol. 11 https://doi.org/10.3389/fpls.2020.587610	journal	December 2020
A pan-grass transcriptome reveals patterns of cellular divergence in crops Guillotin, Bruno; Rahni, Ramin; Passalacqua, Michael Nature, Vol. 617, Issue 7962 https://doi.org/10.1038/s41586-023-06053-0	journal	May 2023
A cis-regulatory atlas in maize at single-cell resolution Marand, Alexandre P.; Chen, Zongliang; Gallavotti, Andrea Cell, Vol. 184, Issue 11 https://doi.org/10.1016/j.cell.2021.04.014	journal	May 2021
ABC transporter genes ABC-C6 and ABC-G33 alter plant-microbe-parasite interactions in the rhizosphere Cox, Deborah Elizabeth; Dyer, Steven; Weir, Ryan Scientific Reports, Vol. 9, Issue 1 https://doi.org/10.1038/s41598-019-56493-w	journal	December 2019
Contextual dependencies expand the re-usability of genetic inverters Tas, Huseyin; Grozinger, Lewis; Stoof, Ruud Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-020-20656-5	journal	January 2021
Hairy Root Transformation Using Agrobacterium rhizogenes as a Tool for Exploring Cell Type-Specific Gene Expression and Function Using Tomato as a Model Ron, M.; Kajala, K.; Pauluzzi, G. PLANT PHYSIOLOGY, Vol. 166, Issue 2 https://doi.org/10.1104/pp.114.239392	journal	May 2014
Shedding the Last Layer: Mechanisms of Root Cap Cell Release Kumar, Narender; Iyer-Pascuzzi, Anjali S. Plants, Vol. 9, Issue 3 https://doi.org/10.3390/plants9030308	journal	March 2020
Engineered integrative and conjugative elements for efficient and inducible DNA transfer to undomesticated bacteria Brophy, Jennifer A. N.; Triassi, Alexander J.; Adams, Bryn L. Nature Microbiology, Vol. 3, Issue 9 https://doi.org/10.1038/s41564-018-0216-5	journal	August 2018
Engineering Bacillus velezensis with high production of acetoin primes strong induced systemic resistance in Arabidopsis thaliana Peng, Ge; Zhao, Xiuyun; Li, Yazhou Microbiological Research, Vol. 227 https://doi.org/10.1016/j.micres.2019.126297	journal	October 2019
A Mechanism for Localized Lignin Deposition in the Endodermis Lee, Yuree; Rubio, Maria C.; Alassimone, Julien Cell, Vol. 153, Issue 2 https://doi.org/10.1016/j.cell.2013.02.045	journal	April 2013
Genetic Control of Lateral Root Formation in Cereals Yu, Peng; Gutjahr, Caroline; Li, Chunjian Trends in Plant Science, Vol. 21, Issue 11 https://doi.org/10.1016/j.tplants.2016.07.011	journal	November 2016
An Engineered Device for Indoleacetic Acid Production under Quorum Sensing Signals Enables Cupriavidus pinatubonensis JMP134 To Stimulate Plant Growth Zúñiga, Ana; Fuente, Francisco de la; Federici, Fernán ACS Synthetic Biology, Vol. 7, Issue 6 https://doi.org/10.1021/acssynbio.8b00002	journal	May 2018
Building and breaking of a barrier: Suberin plasticity and function in the endodermis Shukla, Vinay; Barberon, Marie Current Opinion in Plant Biology, Vol. 64 https://doi.org/10.1016/j.pbi.2021.102153	journal	December 2021
Innovation, conservation, and repurposing of gene function in root cell type development Kajala, Kaisa; Gouran, Mona; Shaar-Moshe, Lidor Cell, Vol. 184, Issue 12 https://doi.org/10.1016/j.cell.2021.04.024	journal	June 2021
Plant growth promotion induced by phosphate solubilizing endophytic Pseudomonas isolates Oteino, Nicholas; Lally, Richard D.; Kiwanuka, Samuel Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00745	journal	July 2015
Protoplast Isolation and Transfection in Maize Coy, Monique R.; Abbitt, Shane E.; Frank, Mary J. Protoplast Technology https://doi.org/10.1007/978-1-0716-2164-6_7	book	January 2022
Induced root-secreted d-galactose functions as a chemoattractant and enhances the biofilm formation of Bacillus velezensis SQR9 in an McpA-dependent manner Liu, Yunpeng; Feng, Haichao; Fu, Ruixin Applied Microbiology and Biotechnology, Vol. 104, Issue 2 https://doi.org/10.1007/s00253-019-10265-8	journal	December 2019
An integrase toolbox to record gene-expression during plant development Guiziou, Sarah; Maranas, Cassandra J.; Chu, Jonah C. Nature Communications, Vol. 14, Issue 1 https://doi.org/10.1038/s41467-023-37607-5	journal	April 2023
A conserved superlocus regulates above- and belowground root initiation Omary, Moutasem; Gil-Yarom, Naama; Yahav, Chen Science, Vol. 375, Issue 6584 https://doi.org/10.1126/science.abf4368	journal	March 2022
CRAGE-CRISPR facilitates rapid activation of secondary metabolite biosynthetic gene clusters in bacteria Ke, Jing; Robinson, David; Wu, Zong-Yen Cell Chemical Biology https://doi.org/10.1016/j.chembiol.2021.08.009	journal	September 2021
Rhizodeposition under drought and consequences for soil communities and ecosystem resilience Preece, Catherine; Peñuelas, Josep Plant and Soil, Vol. 409, Issue 1-2 https://doi.org/10.1007/s11104-016-3090-z	journal	November 2016
ACC deaminase in plant growth-promoting bacteria (PGPB): An efficient mechanism to counter salt stress in crops Orozco-Mosqueda, Ma. del Carmen; Glick, Bernard R.; Santoyo, Gustavo Microbiological Research, Vol. 235 https://doi.org/10.1016/j.micres.2020.126439	journal	May 2020
Profiling of secondary metabolites in root exudates of Arabidopsis thaliana Strehmel, Nadine; Böttcher, Christoph; Schmidt, Stephan Phytochemistry, Vol. 108 https://doi.org/10.1016/j.phytochem.2014.10.003	journal	December 2014
Mucilage and polysaccharides in the halophyte plant species Kosteletzkya virginica: Localization and composition in relation to salt stress Edmond Ghanem, Michel; Han, Rui-Ming; Classen, Birgit Journal of Plant Physiology, Vol. 167, Issue 5 https://doi.org/10.1016/j.jplph.2009.10.012	journal	March 2010
LAZY Genes Mediate the Effects of Gravity on Auxin Gradients and Plant Architecture Yoshihara, Takeshi; Spalding, Edgar P. Plant Physiology, Vol. 175, Issue 2 https://doi.org/10.1104/pp.17.00942	journal	August 2017
Comparative analysis of various root active promoters by evaluation of GUS expression in transgenic Arabidopsis Kato, Yasuhiro; Tada, Yuichi Plant Biotechnology, Vol. 38, Issue 4 https://doi.org/10.5511/plantbiotechnology.21.1011a	journal	December 2021
Plant Growth-Promoting Rhizobacteria Eliminate the Effect of Drought Stress in Plants: A Review Ahmad, Hafiz Muhammad; Fiaz, Sajid; Hafeez, Sumaira Frontiers in Plant Science, Vol. 13 https://doi.org/10.3389/fpls.2022.875774	journal	August 2022
Control of root system architecture by DEEPER ROOTING 1 increases rice yield under drought conditions Uga, Yusaku; Sugimoto, Kazuhiko; Ogawa, Satoshi Nature Genetics, Vol. 45, Issue 9 https://doi.org/10.1038/ng.2725	journal	August 2013
How does biomass distribution change with size and differ among species? An analysis for 1200 plant species from five continents Poorter, Hendrik; Jagodzinski, Andrzej M.; Ruiz-Peinado, Ricardo New Phytologist, Vol. 208, Issue 3 https://doi.org/10.1111/nph.13571	journal	July 2015
AiiA, an enzyme that inactivates the acylhomoserine lactone quorum-sensing signal and attenuates the virulence of Erwinia carotovora Dong, Y. -H.; Xu, J. -L.; Li, X. -Z. Proceedings of the National Academy of Sciences, Vol. 97, Issue 7 https://doi.org/10.1073/pnas.97.7.3526	journal	March 2000
Steep, cheap and deep: an ideotype to optimize water and N acquisition by maize root systems Lynch, Jonathan P. Annals of Botany, Vol. 112, Issue 2 https://doi.org/10.1093/aob/mcs293	journal	January 2013
The Pseudomonas fluorescens Siderophore Pyoverdine Weakens Arabidopsis thaliana Defense in Favor of Growth in Iron-Deficient Conditions Trapet, Pauline; Avoscan, Laure; Klinguer, Agnès Plant Physiology, Vol. 171, Issue 1 https://doi.org/10.1104/pp.15.01537	journal	March 2016
The root cap: a short story of life and death Kumpf, Robert P.; Nowack, Moritz K. Journal of Experimental Botany, Vol. 66, Issue 19 https://doi.org/10.1093/jxb/erv295	journal	June 2015
Trehalose accumulation in Azospirillum brasilense improves drought tolerance and biomass in maize plants RodrÃguez-Salazar, Julieta; SuÃ¡rez, RamÃ³n; Caballero-Mellado, JesÃºs FEMS Microbiology Letters, Vol. 296, Issue 1 https://doi.org/10.1111/j.1574-6968.2009.01614.x	journal	July 2009
Mapping of Sugar and Amino Acid Availability in Soil around Roots with Bacterial Sensors of Sucrose and Tryptophan Jaeger, C. H.; Lindow, S. E.; Miller, W. Applied and Environmental Microbiology, Vol. 65, Issue 6 https://doi.org/10.1128/AEM.65.6.2685-2690.1999	journal	January 1999
Control of nitrogen fixation in bacteria that associate with cereals Ryu, Min-Hyung; Zhang, Jing; Toth, Tyler Nature Microbiology, Vol. 5, Issue 2 https://doi.org/10.1038/s41564-019-0631-2	journal	December 2019
Nicotiana benthamiana : Its History and Future as a Model for Plant–Pathogen Interactions Goodin, Michael M.; Zaitlin, David; Naidu, Rayapati A. Molecular Plant-Microbe Interactions, Vol. 21, Issue 8 https://doi.org/10.1094/MPMI-21-8-1015	journal	August 2008
Greenhouse gas emissions from global production and use of nitrogen synthetic fertilisers in agriculture Menegat, Stefano; Ledo, Alicia; Tirado, Reyes Scientific Reports, Vol. 12, Issue 1 https://doi.org/10.1038/s41598-022-18773-w	journal	August 2022
Soil microorganisms exhibit enzymatic and priming response to root mucilage under drought Ahmed, Mutez Ali; Sanaullah, Muhammad; Blagodatskaya, Evgenia Soil Biology and Biochemistry, Vol. 116 https://doi.org/10.1016/j.soilbio.2017.10.041	journal	January 2018
Mucilage exudation facilitates root water uptake in dry soils Ahmed, Mutez A.; Kroener, Eva; Holz, Maire Functional Plant Biology, Vol. 41, Issue 11 https://doi.org/10.1071/FP13330	journal	January 2014
An efficient method for the collection of root mucilage from different plant species-A case study on the effect of mucilage on soil water repellency Zickenrott, Ina-Maria; Woche, Susanne K.; Bachmann, Jörg Journal of Plant Nutrition and Soil Science, Vol. 179, Issue 2 https://doi.org/10.1002/jpln.201500511	journal	February 2016
To branch or not to branch: the role of pre-patterning in lateral root formation Van Norman, J. M.; Xuan, W.; Beeckman, T. Development, Vol. 140, Issue 21 https://doi.org/10.1242/dev.090548	journal	October 2013
Effect of transferring 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase genes intoPseudomonas fluorescensstrain CHA0 and itsgacA derivative CHA96 on their growth-promoting and disease-suppressive capacities Wang, Chunxia; Knill, Edouard; Glick, Bernard R. Canadian Journal of Microbiology, Vol. 46, Issue 10 https://doi.org/10.1139/w00-071	journal	October 2000
Isolation, Characterization, and Pericycle-Specific Transcriptome Analyses of the Novel Maize Lateral and Seminal Root Initiation Mutant rum1 Woll, Katrin; Borsuk, Lisa A.; Stransky, Harald Plant Physiology, Vol. 139, Issue 3 https://doi.org/10.1104/pp.105.067330	journal	October 2005
Introducing THOR, a Model Microbiome for Genetic Dissection of Community Behavior Lozano, Gabriel L.; Bravo, Juan I.; Garavito Diago, Manuel F. mBio, Vol. 10, Issue 2 https://doi.org/10.1128/mBio.02846-18	journal	March 2019
Synthetic gene circuits take root Alamos, Simon; Shih, Patrick M. Science, Vol. 377, Issue 6607 https://doi.org/10.1126/science.add6805	journal	August 2022
The gravitropic set-point angle (GSA): the identification of an important developmentally controlled variable governing plant architecture* Digby, J.; Firn, R. D. Plant, Cell and Environment, Vol. 18, Issue 12 https://doi.org/10.1111/j.1365-3040.1995.tb00205.x	journal	December 1995
Biofilms Positively Contribute to Bacillus amyloliquefaciens 54-induced Drought Tolerance in Tomato Plants Wang, Da-Cheng; Jiang, Chun-Hao; Zhang, Li-Na International Journal of Molecular Sciences, Vol. 20, Issue 24 https://doi.org/10.3390/ijms20246271	journal	December 2019
Identification of Periplasmic Root-Cap Mucilage in Developing Columella Cells of Arabidopsis thaliana Maeda, Kazuki; Kunieda, Tadashi; Tamura, Kentaro Plant and Cell Physiology, Vol. 60, Issue 6 https://doi.org/10.1093/pcp/pcz047	journal	March 2019
Nitric Oxide and Hydrogen Peroxide Production are Involved in Systemic Drought Tolerance Induced by 2R,3R-Butanediol in Arabidopsis thaliana Cho, Song-Mi; Kim, Yong Hwan; Anderson, Anne J. The Plant Pathology Journal, Vol. 29, Issue 4 https://doi.org/10.5423/PPJ.OA.07.2013.0069	journal	December 2013
The role of root border cells in plant defense Hawes, Martha C.; Gunawardena, Uvini; Miyasaka, Susan Trends in Plant Science, Vol. 5, Issue 3 https://doi.org/10.1016/S1360-1385(00)01556-9	journal	March 2000
Adaptation of Root Function by Nutrient-Induced Plasticity of Endodermal Differentiation Barberon, Marie; Vermeer, Joop Engelbertus Martinus; De Bellis, Damien Cell, Vol. 164, Issue 3 https://doi.org/10.1016/j.cell.2015.12.021	journal	January 2016
Expression of the fluorescence markers DsRed and GFP fused to a nuclear localization signal in the arbuscular mycorrhizal fungus Glomus intraradices Helber, Nicole; Requena, Natalia New Phytologist, Vol. 177, Issue 2 https://doi.org/10.1111/j.1469-8137.2007.02257.x	journal	November 2007
Root Suberin Forms an Extracellular Barrier That Affects Water Relations and Mineral Nutrition in Arabidopsis Baxter, Ivan; Hosmani, Prashant S.; Rus, Ana PLoS Genetics, Vol. 5, Issue 5 https://doi.org/10.1371/journal.pgen.1000492	journal	May 2009
Contribution of Root Cap Mucilage and Presence of an Intact Root Cap in Maize (Zea mays) to the Reduction of Soil Mechanical Impedance Iijima, M. Annals of Botany, Vol. 94, Issue 3 https://doi.org/10.1093/aob/mch166	journal	August 2004
Profiling of Metabolites of Bacillus spp. and Their Application in Sustainable Plant Growth Promotion and Biocontrol Shahid, Izzah; Han, Jun; Hanooq, Sharoon Frontiers in Sustainable Food Systems, Vol. 5 https://doi.org/10.3389/fsufs.2021.605195	journal	February 2021
Functional optimization of gene clusters by combinatorial design and assembly Smanski, Michael J.; Bhatia, Swapnil; Zhao, Dehua Nature Biotechnology, Vol. 32, Issue 12, p. 1241-1249 https://doi.org/10.1038/nbt.3063	journal	November 2014
Surface display of ACC deaminase on endophytic Enterobacteriaceae strains to increase saline resistance of host rice sprouts by regulating plant ethylene synthesis Liu, Yupei; Cao, Lixiang; Tan, Hongming Microbial Cell Factories, Vol. 16, Issue 1 https://doi.org/10.1186/s12934-017-0831-5	journal	November 2017
Effects of Engineered Sinorhizobium meliloti on Cytokinin Synthesis and Tolerance of Alfalfa to Extreme Drought Stress Xu, Ji; Li, Xiao-Lin; Luo, Li Applied and Environmental Microbiology, Vol. 78, Issue 22 https://doi.org/10.1128/AEM.01276-12	journal	November 2012
Deciphering the molecular basis of tissue-specific gene expression in plants: Can synthetic biology help? Yaschenko, Anna E.; Fenech, Mario; Mazzoni-Putman, Serina Current Opinion in Plant Biology, Vol. 68 https://doi.org/10.1016/j.pbi.2022.102241	journal	August 2022
Toward synthetic plant development Brophy, Jennifer A. N. Plant Physiology, Vol. 188, Issue 2 https://doi.org/10.1093/plphys/kiab568	journal	December 2021
Engineering Root Exudation of Lotus toward the Production of Two Novel Carbon Compounds Leads to the Selection of Distinct Microbial Populations in the Rhizosphere Oger, P. M.; Mansouri, H.; Nesme, X. Microbial Ecology, Vol. 47, Issue 1 https://doi.org/10.1007/s00248-003-2012-9	journal	January 2004
Understanding and engineering plant form Brophy, Jennifer A. N.; LaRue, Therese; Dinneny, José R. Seminars in Cell & Developmental Biology, Vol. 79 https://doi.org/10.1016/j.semcdb.2017.08.051	journal	July 2018
GDSL-domain proteins have key roles in suberin polymerization and degradation Ursache, Robertas; De Jesus Vieira Teixeira, Cristovāo; Dénervaud Tendon, Valérie Nature Plants, Vol. 7, Issue 3 https://doi.org/10.1038/s41477-021-00862-9	journal	March 2021
Plant Drought Tolerance Enhancement by Trehalose Production of Desiccation-Tolerant Microorganisms Vílchez, Juan I.; García-Fontana, Cristina; Román-Naranjo, Desireé Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.01577	journal	September 2016
Controlling the Implementation of Transgenic Microbes: Are We Ready for What Synthetic Biology Has to Offer? Stirling, Finn; Silver, Pamela A. Molecular Cell, Vol. 78, Issue 4 https://doi.org/10.1016/j.molcel.2020.03.034	journal	May 2020
Analysis of Gravitropic Setpoint Angle Control in Arabidopsis Roychoudhry, Suruchi; Kepinski, Stefan Plant Gravitropism https://doi.org/10.1007/978-1-4939-2697-8_4	book	January 2015
Dose-Response Relationships in Biological Control of Fusarium Wilt of Radish by Pseudomonas spp. Raaijmakers, Jos M. Phytopathology, Vol. 85, Issue 10 https://doi.org/10.1094/Phyto-85-1075	journal	January 1995
Deconstructing the root system of grasses through an exploration of development, anatomy and function G. Viana, Willian; Scharwies, Johannes D.; Dinneny, José R. Plant, Cell & Environment, Vol. 45, Issue 3 https://doi.org/10.1111/pce.14270	journal	February 2022
Chemotaxis of Beneficial Rhizobacteria to Root Exudates: The First Step towards Root–Microbe Rhizosphere Interactions Feng, Haichao; Fu, Ruixin; Hou, Xueqin International Journal of Molecular Sciences, Vol. 22, Issue 13 https://doi.org/10.3390/ijms22136655	journal	June 2021
Plant Water Uptake in Drying Soils Lobet, Guillaume; Couvreur, Valentin; Meunier, Félicien Plant Physiology, Vol. 164, Issue 4 https://doi.org/10.1104/pp.113.233486	journal	February 2014
Soil organic matter is stabilized by organo-mineral associations through two key processes: The role of the carbon to nitrogen ratio Kopittke, Peter M.; Dalal, Ram C.; Hoeschen, Carmen Geoderma, Vol. 357 https://doi.org/10.1016/j.geoderma.2019.113974	journal	January 2020
Root-Specific Reduction of Cytokinin Causes Enhanced Root Growth, Drought Tolerance, and Leaf Mineral Enrichment in Arabidopsis and Tobacco Werner, Tomáš; Nehnevajova, Erika; Köllmer, Ireen The Plant Cell, Vol. 22, Issue 12 https://doi.org/10.1105/tpc.109.072694	journal	December 2010
Redox-active antibiotics enhance phosphorus bioavailability McRose, Darcy L.; Newman, Dianne K. Science, Vol. 371, Issue 6533 https://doi.org/10.1126/science.abd1515	journal	March 2021
Effects of mucilage concentration at different water contents on mechanical stability and elasticity in a loamy and a sandy soil Rosskopf, Ulla; Uteau, Daniel; Peth, Stephan European Journal of Soil Science, Vol. 73, Issue 1 https://doi.org/10.1111/ejss.13189	journal	November 2021
Synthetic memory circuits for stable cell reprogramming in plants Lloyd, James P. B.; Ly, Florence; Gong, Patrick Nature Biotechnology, Vol. 40, Issue 12 https://doi.org/10.1038/s41587-022-01383-2	journal	July 2022
Going with the Flow: Multiscale Insights into the Composite Nature of Water Transport in Roots Couvreur, Valentin; Faget, Marc; Lobet, Guillaume Plant Physiology, Vol. 178, Issue 4 https://doi.org/10.1104/pp.18.01006	journal	October 2018
Lateral root formation is blocked by a gain-of-function mutation in the SOLITARY-ROOT/IAA14 gene of Arabidopsis Fukaki, Hidehiro; Tameda, Satoshi; Masuda, Haruka The Plant Journal, Vol. 29, Issue 2 https://doi.org/10.1046/j.0960-7412.2001.01201.x	journal	January 2002
Transcriptional and post-transcriptional controls for tuning gene expression in plants Zhong, Vivian; Archibald, Bella N.; Brophy, Jennifer A. N. Current Opinion in Plant Biology, Vol. 71 https://doi.org/10.1016/j.pbi.2022.102315	journal	February 2023
Transcriptional and posttranscriptional regulation of transcription factor expression in Arabidopsis roots Lee, J. -Y.; Colinas, J.; Wang, J. Y. Proceedings of the National Academy of Sciences, Vol. 103, Issue 15 https://doi.org/10.1073/pnas.0510607103	journal	March 2006
Characterization of root mucilage from Melastoma malabathricum, with emphasis on its roles in aluminum accumulation Watanabe, Toshihiro; Misawa, Seiji; Hiradate, Syuntaro New Phytologist, Vol. 178, Issue 3 https://doi.org/10.1111/j.1469-8137.2008.02397.x	journal	March 2008
The Optimal Lateral Root Branching Density for Maize Depends on Nitrogen and Phosphorus Availability Postma, J. A.; Dathe, A.; Lynch, J. P. PLANT PHYSIOLOGY, Vol. 166, Issue 2 https://doi.org/10.1104/pp.113.233916	journal	May 2014
Characteristics of biological control and mechanisms of Pseudomonas chlororaphis zm-1 against peanut stem rot Liu, Fengying; Yang, Shan; Xu, Fenghua BMC Microbiology, Vol. 22, Issue 1 https://doi.org/10.1186/s12866-021-02420-x	journal	January 2022
Functional overlap of the Arabidopsis leaf and root microbiota Bai, Yang; Müller, Daniel B.; Srinivas, Girish Nature, Vol. 528, Issue 7582 https://doi.org/10.1038/nature16192	journal	December 2015
Epsc Involved in the Encoding of Exopolysaccharides Produced by Bacillus amyloliquefaciens FZB42 Act to Boost the Drought Tolerance of Arabidopsis thaliana Lu, Xiang; Liu, Shao-Fang; Yue, Liang International Journal of Molecular Sciences, Vol. 19, Issue 12 https://doi.org/10.3390/ijms19123795	journal	November 2018
Cadaverine production by Azospirillum brasilense and its possible role in plant growth promotion and osmotic stress mitigation Cassán, Fabricio; Maiale, Santiago; Masciarelli, Oscar European Journal of Soil Biology, Vol. 45, Issue 1 https://doi.org/10.1016/j.ejsobi.2008.08.003	journal	January 2009
Maize endophytic microbial-communities revealed by removing PCR and 16S rRNA sequencing and their synthetic applications to suppress maize banded leaf and sheath blight Ali, Mohsin; Ahmad, Zahoor; Ashraf, Muhammad Furqan Microbiological Research, Vol. 242 https://doi.org/10.1016/j.micres.2020.126639	journal	January 2021
The core metabolome and root exudation dynamics of three phylogenetically distinct plant species McLaughlin, Sarah; Zhalnina, Kateryna; Kosina, Suzanne Nature Communications, Vol. 14, Issue 1 https://doi.org/10.1038/s41467-023-37164-x	journal	March 2023
Synthetic genetic circuits as a means of reprogramming plant roots Brophy, Jennifer A. N.; Magallon, Katie J.; Duan, Lina Science, Vol. 377, Issue 6607 https://doi.org/10.1126/science.abo4326	journal	August 2022
Genome-wide identification of bacterial plant colonization genes Cole, Benjamin J.; Feltcher, Meghan E.; Waters, Robert J. PLOS Biology, Vol. 15, Issue 9 https://doi.org/10.1371/journal.pbio.2002860	journal	September 2017
Ethylene Response Factor (ERF) genes modulate plant root exudate composition and the attraction of plant parasitic nematodes Dyer, Steven; Weir, Ryan; Cox, Deborah International Journal for Parasitology, Vol. 49, Issue 13-14 https://doi.org/10.1016/j.ijpara.2019.09.001	journal	December 2019
Root zone–specific localization of AMTs determines ammonium transport pathways and nitrogen allocation to shoots Duan, Fengying; Giehl, Ricardo F. H.; Geldner, Niko PLOS Biology, Vol. 16, Issue 10 https://doi.org/10.1371/journal.pbio.2006024	journal	October 2018
Inoculation of genetically modified endophytic Herbaspirillum seropedicae Z67 endowed with gluconic and 2-ketogluconic acid secretion, confers beneficial effects on rice (Oriza sativa) plants Wagh, Jitendra; Chanchal, Kumar; Sonal, Shah Plant and Soil, Vol. 409, Issue 1-2 https://doi.org/10.1007/s11104-016-2937-7	journal	June 2016
The “Biased Rhizosphere” Concept and Advances in the Omics Era to Study Bacterial Competitiveness and Persistence in the Phytosphere Savka, Michael A.; Dessaux, Yves; McSpadden, Brian B. Molecular Microbial Ecology of the Rhizosphere, 1 & 2 https://doi.org/10.1002/9781118297674.ch110	book	March 2013
The Production of ACC Deaminase and Trehalose by the Plant Growth Promoting Bacterium Pseudomonas sp. UW4 Synergistically Protect Tomato Plants Against Salt Stress Orozco-Mosqueda, Ma. del Carmen; Duan, Jin; DiBernardo, Mercedes Frontiers in Microbiology, Vol. 10 https://doi.org/10.3389/fmicb.2019.01392	journal	June 2019
Environmental Control of Root System Biology Rellán-Álvarez, Rubén; Lobet, Guillaume; Dinneny, José R. Annual Review of Plant Biology, Vol. 67, Issue 1 https://doi.org/10.1146/annurev-arplant-043015-111848	journal	April 2016
Maintenance and Impacts of an Inoculated mer/luc-Tagged Pseudomonas fluorescens on Microbial Communities in Birch Rhizospheres Developed on Humus and Peat J�rgensen, K. S.; Bj�rkl�f, K.; Sen, R. Microbial Ecology, Vol. 45, Issue 1 https://doi.org/10.1007/s00248-002-2018-8	journal	January 2003
A versatile Multisite Gateway-compatible promoter and transgenic line collection for cell type-specific functional genomics in Arabidopsis Marquès-Bueno, Maria Mar; Morao, Ana K.; Cayrel, Anne The Plant Journal, Vol. 85, Issue 2 https://doi.org/10.1111/tpj.13099	journal	January 2016
Experimental evolution of Bacillus subtilis on Arabidopsis thaliana roots reveals fast adaptation and improved root colonization Nordgaard, Mathilde; Blake, Christopher; Maróti, Gergely iScience, Vol. 25, Issue 6 https://doi.org/10.1016/j.isci.2022.104406	journal	June 2022
Nitrogen fixation and mucilage production on maize aerial roots is controlled by aerial root development and border cell functions Pankievicz, Vânia Carla Silva; Delaux, Pierre-Marc; Infante, Valentina Frontiers in Plant Science, Vol. 13 https://doi.org/10.3389/fpls.2022.977056	journal	October 2022
Root anatomical phenes associated with water acquisition from drying soil: targets for crop improvement Lynch, Jonathan P.; Chimungu, Joseph G.; Brown, Kathleen M. Journal of Experimental Botany, Vol. 65, Issue 21 https://doi.org/10.1093/jxb/eru162	journal	April 2014
Rhizosphere-associated Pseudomonas induce systemic resistance to herbivores at the cost of susceptibility to bacterial pathogens Haney, Cara H.; Wiesmann, Christina L.; Shapiro, Lori R. Molecular Ecology, Vol. 27, Issue 8 https://doi.org/10.1111/mec.14400	journal	November 2017

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