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Recent Publications


  • Pantigoso, H. A., Newberger, D., & Vivanco, J. M. (2022). The rhizosphere microbiome: Plant–microbial interactions for resource acquisition. Journal of Applied Microbiology.


  • Pantigoso, H. A., He, Y., DiLegge, M. J., & Vivanco, J. M. (2021). Methods for Root Exudate Collection and Analysis. The Plant Microbiome, 291-303.
  • Zhao, M., Zhao, J., Yuan, J., Hale, L., Wen, T., Huang, Q., … & Shen, Q. (2021). Root exudates drive soil‐microbe‐nutrient feedbacks in response to plant growth. Plant, Cell & Environment, 44(2), 613-628.


  • Pantigoso HA, Yuan J, He Y, Guo Q, Vollmer C, Vivanco JM (2020) Role of root exudates on assimilation of phosphorus in young and old Arabidopsis thaliana plants. PLoS ONE 15 (6): e0234216.
  • Pantigoso H.A., Manter D.K., Vivanco J.M. (2020) Differential Effects of Phosphorus Fertilization on Plant Uptake and Rhizosphere Microbiome of Cultivated and Non-cultivated Potatoes. Microbial Ecology. PMID 32016609 DOI: 10.1007/s00248-020-01486-w


  • Li*, K., DiLegge*, M. J., Minas, I. S., Hamm, A., Manter, D., & Vivanco, J. (2019) Soil sterilization leads to re-colonization of a healthier rhizosphere microbiome. Rhizosphere (*both authors contributed equally)
  • He, Y., Qin, Q., DiLegge, M.J., Vivanco, J.M. (2019) Isolation of Klebsiella pneumoniae and Pseudomonas aeruginosa from entomopathogenic nematode-insect host relationship to examine bacterial pathogenicity on Trichoplusia ni
  • DiLegge, M.J., Manter, D.K., Vivanco, J.M. (2019). A novel approach to determine generalist nematophagous microbes reveals Mortierella globalpina as a new biocontrol agent against Meloidogyne spp. nematodes. Scientific Reports, 9.
  • He, Y., Pantigoso, H. A., Wu, Z., Vivanco, J.M. (2019). Co-inoculation of Bacillus sp. and Pseudomonas putida at different development stages acts as a biostimulant to promote growth, yield and nutrient uptake of tomato. J Appl Microbiol/10.1111/jam.14273


  • Yuan, J., Zhao, J., Wen, T. et al. Root exudates drive the soil-borne legacy of aboveground pathogen infection. Microbiome 6, 156 (2018).
  • Pantigoso, H. A., Manter, D. K., & Vivanco, J. M. (2018). Phosphorus addition shifts the microbial community in the rhizosphere of blueberry (Vaccinium corymbosum L.). Rhizosphere, 7, 1-7.
  • Zhou, Dongmei; Huang, Xing-Feng; Guo, Jianhua; Dos-Santos, Marcia L.; Vivanco, Jorge M. . . affected herbivore feeding behaviour on by modifying the leaf metabolome and phytohormones. Microbial Biotechnology (Online), v. 11, p. 3, 2018.


  • Franco FP, Moura DS, Vivanco JM, Silva-Filho MC (2017) Plant-insect interactions: a naturally complex mĂ©nage a trois. Current Opinion in Microbiology 37:54-60
  • Zhang R, Vivanco JM, Shen Q (2017) The unseen rhizosphere root-soil-microbe interactions for crop production. Current Opinion in Microbiology 37:8-14
  • Silva-Filho MC, Vivanco JM (2017) Guest Editorial: Plants and their surrounding microorganisms: a dynamic world of interactions. Current Opinion in Microbiology 37:v-vi
  • Huang XF, Zhou D, Lapsansky ER, Reardon KF, Guo J, Andales MJ, Vivanco JM, Manter DK (2017) Mitsuaria sp. and Burkholderia sp. from Arabidopsis rhizosphere enhance drought tolerance in Arabidopsis thaliana and maize (Zea mays L.). Plant and Soil DOI 10.1007/s11104-017-3360-4
  • Castillo JD, Vivanco JM,Manter DK (2017) Bacterial microbiome and nematode occurrence in different potato agricultural soils. Microbial Ecology DOI 10.1007/s00248-017-0990-2


  • Huang XF, Chaparro JM, Reardon KF, Judd TM, Vivanco JM (2016) Supplementing blends of sugars, amino acids, and secondary metabolites to the diet of termites (Reticulitermes flavipes) drive distinct gut bacterial communities. Microbial Ecology DOI 10.1007/s00248-016-0792-y
  • Zhu S, Vivanco JM, Manter DK (2016) Nitrogen fertilizer rate affects root exudation, the rhizosphere microbiome and nitrogen-use-efficiency of maize. Applied Soil Ecology 107: 324-333
  • Zhou D, Huang X-F, Chaparro JM, Badri DV, Manter DK, Vivanco JM, Guo J (2016) Root and bacterial secretions regulate the interaction between plants and PGPR leading to distinct plant growth promotion effects. Plant and Soil 401:259-272
  • Lapsansky E, Milroy AM, Andales MJ, Vivanco JM (2016) Soil memory as a potential mechanism for encouraging sustainable plant health and productivity. Current Opinion in Biotechnology 38:137-142



  • Alivisatos AP and Unified Microbiome Initiative Consortium (Vivanco is a co-author and pat of the initiative) (2015). A unified initiative to harness Earth’s microbiomes. Science 350:507-508
  • Carvalhais LC, Dennis PG, Badri DV, Kidd BN, Vivanco JM, Schenk PM (2015) Linking jasmonic acid signaling, root exudates and rhizosphere microbiomes. Molecular Plant Microbe Interactions 28:1049-1058
  • Yuan J, Zhang N, Huang Q, Raza W, Li R, Vivanco JM, Shen Q (2015) Organic acids from root exudates of banana help root colonization of PGPR starin Bacillus amyloliquefasciens NJN-6. Scientific Reports 5:13438 | DOI: 10.1038/srep13438
  • Yuan J, Chaparro JM, Manter DK, Zhang R, Vivanco JM, Shen Q (2015). Roots from distinct plant developmental stages are capable of rapidly selecting their own microbiome without the influence of environmental and soil edaphic factors. Soil Biology and Biochemistry 89:206-209
  • Bakker MG, Chaparro JM, Manter DK, Vivanco JM (2015) Impacts of bulk soil microbial community structure on rhizosphere microbiomes of Zea mays. Plant Soil 392:115-126
  • Huang X-F, Zhou D, Guo J, Manter DK, Reardon KF, Vivanco JM (2015) Bacillus spp. from rainforest soil promote plant growth under limited nitrogen conditions. J Appl Microbiol 118:672-684


  • Yang M, Zhang Y, Qi L, Mei X, Liao J, Ding X, Deng W, Fan L, He X, Vivanco JM, Li, C, Zhu Y, Zhu S (2014) Plant-plant-microbe mechanisms involved in soil-borne disease suppression on a maize and pepper intercropping system. PLoS ONE 9(12): e115052. doi:10.1371/journal.pone.0115052
  • Liu Y, Zhang N, Qiu M, Feng H, Vivanco JM, Shen Q, Zhang R (2014) Enhanced rhizosphere colonization of beneficial Bacillus amyloliquefaciens SQR9 by pathogen infection. FEMS Microbiology Letters 353:49-56
  • Chaparro JM, Badri DV, Vivanco JM (2014) Rhizosphere microbiome assemblage is affected by plant development. ISME Journal (Nature journal) 8:790-803
  • Qui M, Li S, Zhou X, Cui X, Vivanco JM, Zhan N, Shen Q, Zhang R (2014) Decoupling of root-microbiome associations followed byantagonist inoculations improves rhizosphere soil suppressiveness. Biology and Fertility of Soils. 50:217-224.

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