1- Lv, S., Yang, Y., Yu, G., Peng, L., Zheng, S., Singh, S. K., Vílchez, J.I., Kaushal, R., Zi, H., Yi, D., Wang, Y., Luo, S., Wu, X., Zuo, Z., Huang, W., Liu, R., Du, J., Macho, A.P., Tang, K., & Zhang, H. (2022). Dysfunction of histone demethylase IBM1 in Arabidopsis causes autoimmunity and reshapes the root microbiome. The ISME journal, 10.1038/s41396-022-01297-6. Advance online publication. https://doi.org/10.1038/s41396-022-01297-6
2.- He, D., Singh, S.K., Peng, L. Kaushal, R., Vilchez, J.I., Shao, C., Wu, X., Zheng, S., Morcillo, R.J.L., Paré, P.W. and Zhang, H (2022). Flavonoid-attracted Aeromonas sp. from the Arabidopsis root microbiome enhances plant dehydration resistance. The ISME Journal. https://doi.org/10.1038/s41396-022-01288-7
3.- Yang, Y., Chen, S., Wu, X., Peng, L., Vílchez, J.I., Kaushal, R., Liu, X., Singh, S., He, D., Yuan, F., Lv, S., Morcillo, R.J.L., Wang, W., Huang, W., Lei, M.G., Zhu, J.K., Paré, P.W. and Zhang, H. (2022) Plant latent defense response to microbial non-pathogenic factors antagonizes compatibility. National Science Review, nwac109, https://doi.org/10.1093/nsr/nwac109
4.- Rebelo Romão, I., Rodrigues Dos Santos, A. S., Velasco, L., Martínez-Ferri, E., Vilchez, J.I., & 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), 1024. https://doi.org/10.3390/plants11081024
5.- Morcillo, R.J.L., Vílchez, J.I., Zhang, S. Kaushal, R. He, D. Zi, H. Liu, R. Niehaus, K., Handa, A. K.; Zhang, H. (2021). Plant transcriptome reprograming and bacterial extracellular metabolites underlying tomato drought resistance triggered by a beneficial soil bacteria. Metabolites 11(6): 369. https://doi.org/10.3390/metabo11060369
6.- Vílchez, J.I., Yang, Y., Yi, D. and Zhang, H. (2021). Measurements of Root Colonized Bacteria Species. Bio-protocol 11(7): e3976. DOI: 10.21769/BioProtoc.3976/
7.- Kaushal, R., Peng, L., Singh, S.K., Zhang, M., Zhang, X., Vílchez, J.I., Wang, Z., He, D., et al. (2021) Dicer-like proteins influence Arabidopsis root microbiota independent of RNA-directed DNA methylation. Microbiome 9, 57. https://doi.org/10.1186/s40168-020-00966-y/
8.- Vílchez, J.I., 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, P.W, Song, C.P., Zhu, J.K. and Zhang, H. (2020) DNA demethylases are required for myo-inositol-mediated mutualism between plants and beneficial rhizobacteria. Nature Plants, 6, 983–995. doi.org/10.1038/s41477-020-0707-2
9.- Vílchez, J.I., 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.org/10.3389/fmicb.2020.01537
10.- Morcillo, R.J.L., Singh, S.K., He, D., Vílchez, J.I., Kaushal, R., Wang, W. * (2020) Bacteria-derived diacetyl enhances Arabidopsis phosphate starvation responses partially through the DELLA-dependent gibberellin signaling pathway. Plant Signaling & Behavior. 15,4,1740872. doi: 10.1080/15592324.2020.1740872
11.- Morcillo, R.J.L., Singh, S.K., He, D., An, G., Vílchez, J.I., * (2020) Rhizobacterium‐derived diacetyl modulates plant immunity in a phosphate‐dependent manner. The EMBO Journal. 39: e102602. doi.org/10.15252/embj.2019102602
12.- Keswani, C., Prakash, O., Bharti, N., Vílchez, J.I., Sansinenea, E., Lally, R.D., * (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
13.- García-Fontana, C., Vílchez, J.I., 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
14.- Vílchez, J.I., Tang, Q., Kaushal, R., Chen, S., Liu, R., Zhang, H. (2018) Genome sequence of Bacillus cereus strain TG1-6, a plant- beneficial rhizobacterium that is highly salt tolerant. Genome Announcements. 6,19, e00351-18. 10.1128/genomeA.00351-18
15.- Vílchez, J.I., Niehaus, K., Dowling, D.N., 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
16.- Vílchez, J.I., 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
17.- Vílchez, J.I., Tang, Q., Kaushal, R., Wang, W. * (2018) Complete genome sequence of Bacillus megaterium strain TG1-E1, a plant drought tolerance-enhancing bacterium. Microbiol Resour Announc. 7,12, e00842-18. doi: 10.1128/MRA.00842-18
18.- Vílchez, J.I., Navas, A., González-López, J., Arcos, S.C., Manzanera, M. (2016) Biosafety test for plant growth-promoting bacteria: proposed Environmental and Human Safety Index (EHSI) protocol. Frontiers in Microbiology. 6, 1514. doi.org/10.3389/fmicb.2015.01514
19.- Lopez-Goñi, I., Martinez-Vinas, M. J., Anton, J., Cid, V.J., Gonzalez, A.M., Brown-Jaque, M., Garcia-Lobo, J.M., Sanchez, M., Vílchez, J.I., Robledo-Mahon, T. * (2016) Twitter as a tool for teaching and communicating microbiology: The #microMOOCSEM initiative. Journal of Microbiology & Biology Education 17:492. doi: 10.1128/jmbe.v17i3.1200
20.- Vílchez, J.I., 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
21.- Manzanera, M., García-Fontana, C., Vílchez, J.I., González-López, J. (2015) Genome sequence of Rhodococcus sp. 4J2A2, a desiccation-tolerant bacterium involved in biodegradation of aromatic hydrocarbons. Genome Announcements. 3,3, e00592-15. doi: 10.1128/genomeA.00592-15
22.- Manzanera, M., Vílchez, J.I., García-Fontana, C., Calvo, C., González-López, J. (2015) Genome sequence of Leucobacter sp. 4J7B1, a plant-osmoprotectant soil microorganism. Genome Announcements 3 (3): e00398-15. doi: 10.1128/genomeA.00398-15
23.- Manzanera, M., García-Fontana, C., Vílchez, J.I., Narváez-Reinaldo, J.J., González-López, J. (2015) Genome sequence of Microbacterium sp. strain 3J1, a highly desiccation-tolerant bacterium that promotes plant growth. Genome Announcements. 3,4, e00713-15,2015. doi: 10.1128/genomeA.00713-15
24.- Manzanera, M., Narváez-Reinaldo, J.J., García-Fontana, C., Vílchez, J.I., González-López, J. (2015) Genome sequence of Arthrobacter koreensis 5J12A, a plant growth-promoting and desiccation-tolerant strain. Genome Announcements. 3,3, e00648-15. doi: 10.1128/genomeA.00648-15
25.- Uad, I., Gonzalez-Lopez, J., Silva-Castro, G.A., Vílchez, J.I., Gonzalez-Martinez, A., MartinRamos, D., Rivadeneyra, A., Rivadeneyra, M.A. (2014) Precipitation of carbonates crystals by bacteria isolated from a submerged fixed-film bioreactor used for the treatment of urban wastewater. International Journal of Environmental Research (IJER). 8,2,435-446. doi:10.22059/IJER.2014.735
26.- Manzanera, M., Santa-Cruz-Calvo, L., Vílchez, J.I., García-Fontana., C; Silva-Castro, GA., Calvo, C., González-López, J. (2014) Genome sequence of Arthrobacter siccitolerans 4J27, a xeroprotectant-producing desiccation-tolerant microorganism. Genome Announcements. 2,3, e00526-14. doi: 10.1128/genomeA.00526-14
27.- Silva-Castro, G.A., Uad, I., Rivadeneyra, A., Vílchez, J.I., Martin-Ramos, D. * (2013) Carbonate precipitation of bacterial strains isolated from sediments and seawater: formation mechanisms. Geomicrobiology Journal. 30,9,840-850. doi.org/10.1080/01490451.2013.777492
28.- Vílchez, J.I., Narvaez-Reinaldo, J.J., SantaCruz-Calvo, L., Picazo-Espinosa, R., Gonzalez-Lopez, J., Manzanera, M. (2010) Use of desiccation tolerant Actinobacteria isolates for stabilization of biological material of biotechnological interest. Journal of Biotechnology. 150,355. doi: 10.1016/j.jbiotec.2010.09.403
29.- SantaCruz-Calvo, L., Vílchez, J.I., Narvaez-Reinaldo, J.J., Picazo-Espinosa, R., Gonzalez-Lopez, J., Manzanera, M. (2010) Biotechnological uses of desiccation tolerant microorganisms for the rhizoremediation of soils subjected to seasonal drought. Journal of Biotechnology. 150,220. doi 10.1007/s00253-011-3461-6