· Gryndler M., Šmilauer P., Puschel D., Bukovská P., Hršelová H., Hujslová M., Gryndlerová H., Beskid O., Konvalinková T., Jansa J. (2018): Appropriate nonmycorrhizal controls in arbuscular mycorrhiza research: a microbiome perspective. Mycorrhiza, doi: 10.1007/s00572-018-0844-x

· Kotilínek M., Hiiesalu I., Košnar J., Šmilauerová M., Šmilauer P. et al. (2017): Fungal root symbionts of high-altitude vascular plants in the Himalayas. Scientific Reports, 7: 6562.

· Řezáčová V., Gryndler M., Bukovská P., Šmilauer P., Jansa J. (2016): Molecular community analysis of arbuscular mycorrhizal fungi - contributions of PCR primer and host plant selectivity to the detected community profiles. Pedobiologia, 59: 179-187.

· Jansa J., Řezáčová V., Šmilauer P., Oberholzer H.R., Egli S. (2016): Root colonization of bait plants by indigenous arbuscular mycorrhizal fungal communities is not a suitable indicator of agricultural land-use legacy. Agriculture, Ecosystems and Environment, 231: 310-319.

· Šmilauerová M., Šmilauer P. (2016): Functional groups affect seedling survival both through a negative soil feedback and changes in abiotic conditions. Preslia, 88: 347-368.

· Thonar C., Frossard E., Šmilauer P., Jansa J. (2014): Competition and facilitation in synthetic communities of arbuscular mycorrhizal fungi. Molecular Ecology, 23: 733-746.

· Jansa J., Erb A., Oberholzer H.R., Šmilauer P., Egli S. (2014): Soil and geography are more important determinants of indigenous arbuscular mycorrhizal communities than management practices in Swiss agricultural soils. Molecular Ecology, 23: 2118-2135.

· Šmilauer P., Šmilauerová M. (2013): Asymmetric relationship between grasses and forbs: results from a field experiment under nutrient limitation. Grass and Forage Science, 68: 186-198.

· Šmilauerová M., Lokvencová M., Šmilauer P. (2012): Fertilization and forb:graminoid ratio affect arbuscular mycorrhiza in seedlings but not adult plants of Plantago lanceolata. Plant and Soil, 351: 309-324.

· Šmilauerová M. et Šmilauer P. (2010): First come, first served: grasses have a head start on forbs with prompt nutrient patch occupation. Plant Soil, 328: 327-336.

· Bezemer M., Fountain M.T., Barea J.M., Christensen S., Dekker S.C., Duyts H., van Hal R., Harvey J.A., Hedlund K., Maraun M., Mikola J., Mladenov A.G., Robin C., de Ruiter P.C., Scheu S., Setala H., Šmilauer P., Van der Putten, W.H. (2010): Divergent composition but similar function of soil food webs of individual plants: plant species and community effects. Ecology, 91: 3027-3036.

· Štajerová K., Šmilauerová M., Šmilauer P. (2009): Arbuscular mycorrhizal symbiosis of herbaceous invasive neophyte species in the Czech Republic. Preslia, 81: 341-355.

· Cremieux L., Bischoff A., Šmilauerová M., Lawson C.S., Mortimer S.R., Doležal J., Lanta V., Edwards A.R., Brook A.J., Tscheulin T., Macel M., Lepš J., Steinger T., Muller-Scharer H. (2008): Potential contribution of natural enemies to patterns of local adaptation in plants. New Phytologist, 180: 524-533.

· Šmilauerová M. et Šmilauer P. (2007):What youngsters say about adults: seedling roots reflect clonal traits of adult plants. Journal of Ecology, 95: 406-413.

· Macel M., Lawson C.S., Mortimer S.R., Šmilauerová M., Bishoff A., Cremieux L., Doležal J., Edwards A.R., Lanta V., Bezemer M., van der Putten W., Igual J. M., Rodriquez-Barrueco C., Muller-Scharer H., Steinger T. (2007): Climate vs. soil factors in local adaptation of two common plant species. Ecology, 88: 424-433.

· Bishoff A., Cremieux L., Šmilauerová M., Lawson C.S., Mortimer S.R., Doležal J., Lanta V., Edwards A.R., Brook A.J., Macel M., Lepš J., Steinger T., Muller-Scharer H. (2006): Detecting local adaptation in widespread grassland species - the importance of scale and local plant community. Journal of Ecology, 94: 1130-1142.

· Šmilauerová M. et Šmilauer P. (2006): Co-occurring graminoid and forb species do not differ in their root morphological response to soil heterogeneity. Folia Geobotanica, 41: 121-135.

· Gormsen D., Hedlund D., Korthals G.W., Mortimer S.R., Pižl V., Šmilauerová M., Sugg E. (2004): Management of plant communities on set-aside land and its effects on earthworm communities. European Journal of Soil Biology, 40: 123-128.

· Hedlund K., Regina I.S., Van der Putten, W.H., Lepš J., Diaz T., Korthals G.W., Lavorel S., Brown V.K., Gormsen D., Mortimer S.R., Barrueco C.D., Roy J., Šmilauer P., Šmilauerová M., Van Dijk C. (2003): Plant species diversity, plant biomass and response of the soil community in abandoned land across Europe: idiosyncracy or above-belowground time lags. Oikos, 103: 45-58.

· Šmilauerová M. et Šmilauer P. (2002): Morphological response of plant roots to heterogeneity of soil resources. New Phytologist, 154: 703-715.

· Korthals G.W., Šmilauer P., Van Dijk, C. et Van der Putten W.H. (2001): Linking above- and below-ground biodiversity: abundance and trophic complexity in soil as a response to experimental plant communities on abandoned arable land. Functional Ecology, 15: 506-514.

· Šmilauer P. (2001): Communities of arbuscular mycorrhizal fungi in grassland: seasonal variability and effects of environment and host plants. Folia Geobotanica, 36: 243-263.

· Šmilauerová M. (2001): Plant root response to heterogeneity of soil resources: effects of nutrient patches, AM symbiosis, and species composition. Folia Geobotanica, 36: 337-351.

· Šmilauer P. et Šmilauerová M. (2000): Effect of AM symbiosis exclusion on grassland community composition. Folia Geobotanica, 35: 13-25.