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iPlantMicro Lab

 

 

Juan Ignacio Vílchez                                              
Principal Investigator
nacho.vilchez@itqb.unl.pt

Plant-Microbiome-Interaction

   

 

Current members

João Barnabé PhD student
Inês Rebelo Romão MSc 
Ana Sofia Rodrigues dos Santos MSc 
Tatiana Gil MSc
André Sousa MSc student

Collaborators

Maximino Manzanera Universidad de Granada (Spain)                 
Jesús Juan González López Universidad de Granada (Spain)
Alfonso Navas Museo Nacional de Ciencias Naturales-CSIC (Spain)
Huiming Zhang Shanghai Center for Plant Stress Biology (PSC) (China)
Alberto Macho Shanghai Center for Plant Stress Biology (PSC) (China)
Roza Durán Shanghai Center for Plant Stress Biology (PSC) (China)
David Dowling Institute of Technology Carlow (Ireland)
Richard Lally Institute of Technology Carlow (Ireland)
Karsten Niehaus Center for Biotechnology - CeBiTec, Universität Beielefeld (Germany)
Vivek Dogra CSIR - Institute of Himalayan Bioresource Technology (India)

Current Projects

2023 – 2027 | PRR - Vertical Algas: SubProject 6: Agricultura: Biofertilizantes e biopesticidas baseados em algas para uma agricultura sustentável (C644915664-00000026) Coordinator: INOVAMAR, LDA

2023 - 2025  | PRR - AgriPlastl: Organization of production and innovation to reduce agricultural plastics; PRR-C05-i03- I-000167

2022 – 2025 | SoilSynbiotics - Development of Synbiotics for enhancing the soil microbiome (ID169). Coordinator: Dr. Ruben R. Rosencrantz

Past Projects

LegumBiome - Using of stress-adapted wild legume microbiomes to improve response in commercial species
SolaNFlower - Characterization of conditioning traits of microbiomes in plants of the Solanaceae family
AlgaeStimulant - Use of algae extracts as biostimulant and beneficial microbiome enhancer in plants
Rice EpiBiome - Characterization of epigenetic markers influenced by microbiomes in rice

2017 - 2018 | Understanding how histone H3K9 demethylase (IBM1) is involved in bacteria-induced plant growth promotion in soil trials regular and stressing conditions in Arabidopsis ( Ref. 2017PB0012) Chinese academy of sciences (CAS). PI: Juan Ignacio Vílchez

2019 - 2020 | Discerning role of DDF1 in plant growth-promotion mediated by Bacillus strains as a molecular tool to increase crop yield (Ref. 31850410465) Chinese academy of sciences (CAS). PI: Juan Ignacio Vílchez

2020 - 2020 | Active DNA demethylation involvement in plant-bacteria symbiosis success by conditioning recruitment signaling in rhizosphere (Ref. 2017PB0012). Chinese academy of sciences (CAS). PI: Juan Ignacio Vílchez

Main selected publications

2024
GIL T, Rebelo Romão I, do Carmo Gomes J, Vergara-Diaz O, Amoroso Lopes de Carvalho L, Sousa A, Kasa F, Teixeira R, Mateus S, Katamadze A, Pinheiro D, Vicente R, Vílchez JI (2024). Specificity and Yield Impact of Native vs. Non-Native Seed-Isolated Strains for Drought Resilience Enhancing in Maize (Zea Mays L.). Preprint: dx.doi.org/10.2139/ssrn.4688926
2023
GIL T, Teixeira R, Sousa A, d’Oliveira Palmeiro MA, Cruz Coimbra de Matos A, Niza Costa M, Ferrer MV, Rodrígues dos Santos AS, Sequero López C, Rebelo Romão I, Vílchez JI (2023). Isolation and Characterization of Culturable Osmotolerant Microbiota in Hypersaline and Hypergypsic Soils as New Treatment for Osmotic Stress in Plants. Soil Systems, 7, 86. doi.org/10.3390/soilsystems7040086
Niza Costa M, Gil T, Teixeira R, Rodrígues dos Santos AS, Rebelo Romão I, Sequero López C, Vílchez JI (2023). Combined Use of a Bacterial Consortium and Early-Colonizing Plants as a Treatment for Soil Recovery after Fire: A Model Based on Los Guájares (Granada, Spain) Wildfire. Biology, 12, 1093. doi.org/10.3390/biology12081093
2022
HE D, Singh SK, Peng L, Kaushal R, Vílchez JI, Shao C, Wu X, Zheng S, Morcillo RJL, Paré PW, Zhang H (2022) Flavonoid-attracted Aeromonas sp. from the Arabidopsis root microbiome enhances plant dehydration resistance. ISME Journal,16(11) 2622-2632. doi: 10.1038/s41396-022-01288-7
LV S, Yang Y, Yu G, Peng L, Zheng S, Singh SK, Vílchez JI, Kaushal R, Zi H, Yi D, Wang Y, Luo S, Wu X, Zuo Z, Huang W, Liu R, Du J, Macho AP, Tang K, Zhang H (2022) Dysfunction of histone demethylase IBM1 in Arabidopsis causes autoimmunity and reshapes the root microbiome. ISME Journal,16(11) 2513-2524. doi: 10.1038/s41396-022-01297-6
NIZA-COSTA M, Rodríguez-dos Santos AS, Rebelo-Romão I, Ferrer MV, Sequero López C, Vílchez JI (2022) Geographically disperse, culturable seed-associated microbiota in forage plants of alfalfa (Medicago sativa L.) and pitch clover (Bituminaria bituminosa L.): Characterization of beneficial inherited strains as plant stress-tolerance enhancers. Biology, 11, 1838. doi.org/10.3390/biology11121838
REBELO ROMÃO I, Rodrigues Dos Santos AS, Velasco L, Martínez-Ferri E, Vilchez JI, Manzanera M (2022) Seed-Encapsulation of Desiccation-Tolerant Microorganisms for the Protection of Maize from Drought: Phenotyping Effects of a New Dry Bioformulation. Plants,11(8). doi: 10.3390/plants11081024
RODRIGUES-DOS SANTOS AS, Rebelo-Romão I, Zhang H, Vílchez JI (2022) Discerning transcriptomic and biochemical responses of Arabidopsis thaliana treated with the biofertilizer strain Priestia megaterium YC4-R4: Boosting plant central and secondary metabolism. Plants, 11, 3039. doi.org/10.3390/plants11223039
YANG Y, Chen S, Wu X, Peng L, Vílchez JI, Kaushal R, Liu X, Singh SK, He D, Yuan F, Lv S, Morcillo RJL, Wang W, Huang W, Lei M, Zhu JK, Paré PW, Zhang H (2022) Plant latent defense response to microbial non-pathogenic factors antagonizes compatibility. National science review, 9(8), nwac109. doi.org/10.1093/nsr/nwac109
2021
KAUSHAL R, Peng L, Singh SK, Zhang M, Zhang X, Vílchez JI, Wang Z, He D, et al. (2021) Dicer-like proteins influence Arabidopsis root microbiota independent of RNA-directed DNA methylation. Microbiome 9, 57. DOI: 10.1186/s40168-020-00966-y
MORCILLO RJ, Vílchez JI, Zhang S, Kaushal R, He D, Zi H, Liu R, Niehaus K, Handa AK, Zhang H (2021) Plant Transcriptome Reprograming and Bacterial Extracellular Metabolites Underlying Tomato Drought Resistance Triggered by a Beneficial Soil Bacteria. Metabolites, 11(6), p.369. DOI: 10.3390/metabo11060369
Other Selected Publications
VÍLCHEZ JI, Yang Y, He D, Zi H, Peng L, Lv S, Kaushal R, Wang W, Huang W, Liu R, Lang Z, Miki D, Tang K, Paré PW, Song CP, Zhu JK, Zhang H (2020) DNA demethylases are required for myo-inositol-mediated mutualism between plants and beneficial rhizobacteria. Nat Plants, 2020. 6(8): p. 983-995. DOI: 10.1038/s41477-020-0707-2
VÍLCHEZ JI, García-Fontana C, Manzanera M (2020) Proteome comparison between natural desiccation-tolerant plants and drought-protected Capsicum annuum plants by Microbacterium sp. 3J1. Frontiers in Microbiology. 11, 1537. DOI: 10.3389/fmicb.2020.01537
MORCILLO RJL, Singh SK, He D, An G, Vílchez JI (2020) Rhizobacterium‐derived diacetyl modulates plant immunity in a phosphate‐dependent manner. The EMBO Journal. 39: e102602. DOI: 10.15252/embj.2019102602
KESWANI C, Prakash O, Bharti N, Vílchez JI, Sansinenea E, Lally RD (2019) Re-addressing the biosafety issues of plant growth promoting rhizobacteria. Science of The Total Environment. 690,841-852. DOI: 10.1016/j.scitotenv.2019.07.046
GARCÍA-FONTANA C, Vílchez JI, González-Requena M (2019) The involvement of McpB chemoreceptor from Pseudomonas aeruginosa PAO1 in virulence. Scientific reports. 9:1,111. DOI: 10.1038/s41598-019-49697-7
VÍLCHEZ JI, Niehaus K, Dowling DN, González-López J, Manzanera M (2018) Protection of pepper plants from drought by Microbacterium sp. 3J1 by modulation of the plant's glutamine and α-ketoglutarate content: a comparative metabolomics approach. Frontiers in Microbiology. 9,284. DOI: 10.3389/fmicb.2018.00284
VÍLCHE JI, Tang Q, Kaushal R, Wang W (2018) Genome sequence of bacillus megaterium strain YC4-R4, a plant growth-promoting rhizobacterium isolated from a high salinity environment. Genome Announcements. 6,25, e00527-18. DOI: 10.1128/genomeA.00527-18
VÍLCHEZ JI, Navas A, González-López J, Arcos SC, Manzanera M (2016) Biosafety test for plant growth-promoting bacteria: proposed Environmental and Human Safety Index (EHSI) protocol. Frontiers in Microbiology. 6, 1514. DOI: 10.3389/fmicb.2015.01514 
VÍLCHEZ JI, García-Fontana C, Román-Naranjo D, González-López J, Manzanera M (2016) Plant drought tolerance enhancement by trehalose production of desiccation tolerant microorganisms. Frontiers in Microbiology. 7,1577. DOI: 10.3389/fmicb.2016.01577