Repeated biodisinfection controls the incidence of Phytophthora root and crown rot of pepper while improving soil quality

  • M. Nuñez-Zofío Department of Plant Production and Protection, NEIKER-Tecnalia, Basque Institute of Agricultural Research and Development, Berreaga 1, 48160 Derio
  • S. Larregla del Palacio Department of Plant Production and Protection, NEIKER-Tecnalia, Basque Institute of Agricultural Research and Development, Berreaga 1, 48160 Derio
  • C. Garbisu Soil Microbial Ecology Group, NEIKER-Tecnalia, Derio
Keywords: biofumigation, organic amendment, soil microbial properties, soilborne plant pathogens, solarization, suppressiveness


Phytophthora root and crown rot is a plant disease responsible for important economic losses in protected pepper crops. A greenhouse experiment was carried out in a temperate climate region (northern Spain) to assess the effects of repeated biodisinfection after three consecutive crop seasons with different organic amendments (a non-composted mixture of sheep manure and chicken litter, a semicomposted mixture of horse manure and chicken litter, Brassica carinata dehydrated pellets plus Sinapis alba fresh green manure) on disease incidence, crop yield and soil quality. Biodisinfection treatments were found to improve soil water properties through reduction in soil bulk density and increased water infiltration. Biodisinfested soils showed higher values of physicochemical and microbial properties than control (untreated) and plastic-mulched soils. In plots treated with the non-composted or semicomposted mixture, the observed higher levels of microbial activity were strongly related with an increase in soil microbial biomass. Brassica-Sinapis treatment had a weaker effect on soil properties than animal manure-based treatments. However, highest counts of total bacteria, actinomycetes and Pseudomonas spp. were found in Brassica-Sinapis-treated soils. It was concluded that repeated biodisinfection for the control of Phytophthora root and crown rot in protected pepper crops located in temperate climate regions can improve soil quality and suppressiveness, as well as allow for a reduction in the dose of organic amendment needed for biodisinfection. Among the studied organic amendments, the semicomposted amendment was the best option in terms of reduction in disease incidence.


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Author Biographies

M. Nuñez-Zofío, Department of Plant Production and Protection, NEIKER-Tecnalia, Basque Institute of Agricultural Research and Development, Berreaga 1, 48160 Derio

Departamento de Producción y Protección Vegetal

Becario predoctoral INIA


S. Larregla del Palacio, Department of Plant Production and Protection, NEIKER-Tecnalia, Basque Institute of Agricultural Research and Development, Berreaga 1, 48160 Derio

Departamento de Producción y Protección Vegetal

Investigador Asociado


C. Garbisu, Soil Microbial Ecology Group, NEIKER-Tecnalia, Derio

Soil Microbial Ecology Group

Departamento de Ecología y Recursos Naturales

Director Científico de la Unidad de Medio Ambiente y Recursos Naturales



Arriaga H, Nez-Zofo M, Larregla S, Merino P, 2011. Gaseous emissions from soil biodisinfestation by animal manure on a greenhouse pepper crop. Crop Prot 30: 412-419.

Aryantha IP, Cross R, Guest DI, 2000. Suppression of Phytophthora cinnamomi in potting mixes amended with uncomposted and composted animal manures. Phytopathology 90: 775-782.

Beyer L, Wachendorf C, Elsner C, Knabe R, 1993. Suitability of dehydrogenase activity assay as an index of soil biological activity. Biol Fert Soils 16: 52-56.

Boehm MJ, Wu T, Stone AG, Kraakman B, Iannotti DA, Wilson GE, Madden LV, Hoitink HAJ, 1997. Cross-polarized magic-angle spinning 13C nuclear magnetic resonance spectroscopic characterization of soil organic matter relative to culturable bacterial species composition and sustained biological control of Pythium root rot. Appl Environ Microbiol 63: 162-168.
PMid:16535481 PMCid:1389096

Bonanomi G, Antignani V, Pane C, Scala F, 2007. Suppression of soilborne fungal diseases with organic amendments. J Plant Pathol 89: 311-324.

Bonanomi G, Antignani V, Capodilupo M, Scala F, 2010. Identifying the characteristics of organic soil amendments that suppress soil-borne plant diseases. Soil Biol Biochem 42: 136-144.

Coelho L, Chellemi DO, Mitchell DJ, 1999. Efficacy of soil solarization and cabbage amendment for the control of Phytophthora spp. in North Florida. Plant Dis 83: 293-299.

Correa OS, Montecchia MS, Berti MF, Fernndez-Ferrari MC, Pucheu NL, Kerber NL, Garca AF, 2009. Bacillus amyloliquefaciens BNM122, a potential biocontrol agent applied on soybean seeds, causes a minor impact on rhizosphere and soil microbial communities. Appl Soil Ecol 41: 185-194.

De Leij FAAM, Whipps JM, Lynch JM, 1993. The use of colony development for the characterization of communities in soil and roots. Microb Ecol 27: 81-97.

Du Fretay G, Dasque J, Auger J, Coosemans J, Colla P, Pauwells F, Fritsch J, 2010. ALTERBROMIDE: dissemination of sustainable alternatives to methyl bromide in soil disinfestation and in post harvest in Europe. Acta Hortic 883: 113-120.

Epelde L, Becerril JM, Hernndez-Allica J, Barrutia O, Garbisu C, 2008. Functional diversity as indicator of the recovery of soil health derived from Thlaspi caerulescens growth and metal phytoextraction. Appl Soil Ecol 39: 299-310.

Epelde L, Becerril JM, Kowalchuk GA, Deng Y, Zhou JZ, Garbisu C, 2010. Impact of metal pollution and Thlaspi caerulescens growth on soil microbial communities. Appl Environ Microbiol 76: 7843-7853.
PMid:20935131 PMCid:2988604

Etxeberria A, Mendarte S, Larregla S, 2011a. Determination of viability of Phytophthora capsici oospores with the tetrazolium bromide staining test versus a plasmolysis method. Rev Iberoam Micol 28(1): 43-49.

Etxeberria A, Mendarte S, Larregla S, 2011b. Thermal inactivation of Phytophthora capsici oospores. Rev Iberoam Micol 28(2): 83-90.

Gamliel A, Austerweil M, Kritzman G, 2000. Non-chemical approach to soilborne pest management-organic amendments. Crop Prot 19: 847-853.

Grossman RB, Reinsch TG, 2002. Bulk density and linear extensibility. In: Methods of soil analysis, Part 4. Physical methods (Dane JH, Topp GC, eds.). Soil Sci Soc Am, Madison, pp: 2012-2028.

Grnwald NJ, Workneh F, Hu S, Van Bruggen AHC, 1997. Comparison of an in vitro and damping-off assay to test soils for suppressiveness to Pythium aphanidermatum. Eur J Plant Pathol 103: 55-63.

Hoitink HAJ, Boehm MJ, Hadar Y, 1993. Mechanisms of suppression of soil-borne plant pathogens in compost-amended substrates. In: Science and engineering of composting: design, environmental, microbiological and utilization aspects (Hoitink HAJ, Keener HM eds.). Renaissance Publ, Worthington, OH, USA, pp: 601-621.

Janvier C, Villeneuve F, Alabouvette C, Edel-Hermann V, Mateille T, Steinberg C, 2007. Soil health through soil disease suppression: which strategy from descriptors to indicators? Soil Biol Biochem 39: 1-23.

Kandeler E, Gerber H, 1988. Short-term assay of soil urease activity using colorimetric determination of ammonium. Biol Fertil Soils 6: 68-72.

Kostiakov AN, 1932. On the dynamics of the coefficient of water percolation in soils and on the necessity of studying it from a dynamic point of view for purposes of amelioration. Russian Part A [Translation of the 6th Cong of the Int Soc Soil Sci], pp: 17-21.

Kozdrj J, Trevors JT, Van Elsas JD, 2004. Influence of introduced potential biocontrol agents on maize seedling growth and bacterial community structure in the rhizosphere. Soil Biol Biochem 36: 1775-1784.

Litterick AM, Harrier L, Wallace P, Watson CA, Wood M, 2004. The role of uncomposted materials, composts, manures, and compost extracts in reducing pest and disease incidence and severity in sustainable temperate agricultural and horticultural crop production-A review. Crit Rev Plant Sci 23: 453-479.

Liu B, Gumpertz ML, Hu SJ, Ristaino JB, 2008. Effect of prior tillage and soil fertility amendments on dispersal of Phytophthora capsici and infection of pepper. Eur J Plant Pathol 120: 273-287.

Mandal A, Patra AK, Singh D, Swarup A, Masto RE, 2007. Effect of long-term application of manure and fertilizer on biological and biochemical activities in soil during crop development stages. Bioresour Technol 98: 3585-3592.

MAPA, 1994. Mtodos oficiales de anlisis de suelos y aguas para riego. In: Mtodos Oficiales de Anlisis, Vol. III. Ministerio de Agricultura, Pesca y Alimentacin, Madrid. [In Spanish].

Martens DA, Frankenberger WT, 1992. Modification of infiltration rates in an organic-amended irrigated soil. Agron J 84: 707-717.

Mijangos I, Prez R, Albizu I, Garbisu C, 2006. Effects of fertilization and tillage on soil biological parameters. Enzym Microb Technol 40: 100-106.

Mijangos I, Becerril JM, Albizu I, Epelde L, Garbisu C, 2009. Effects of glyphosate on rhizosphere soil microbial communities under two different plant compositions by cultivation-dependent and -independent methodologies. Soil Biol Biochem 41: 505-513.

Mijangos I, Albizu I, Garbisu C, 2010. Beneficial effects of organic fertilization and no-tillage on fine-textured soil properties under two different forage crop rotations. Soil Sci 175: 173-185.

Moral R, Paredes C, Bustamante MA, Marhuenda-Egea F, Bernal MP, 2009. Utilisation of manure composts by high-value crops: Safety and environmental challenges. Bioresour Technol 100: 5454-5460.

Nez-Zofo M, Larregla S, Garbisu C, 2011. Application of organic amendments followed by soil plastic mulching reduces the incidence of Phytophthora capsici in pepper crops under temperate climate. Crop Prot 30: 1563-1572.

OJ, 1991. Directive 91/676/EEC of the Council of the European Communities of December 12 concerning the protection of waters against pollution caused by nitrates from agricultural sources. Official Journal of the European Union L 375, 31/12/1991. p. 1-8.

Oka Y, 2010. Mechanisms of nematode suppression by organic soil amendments: a review. Appl Soil Ecol 44: 101-115.

Powers RF, 1980. Mineralizable soil nitrogen as an index of nitrogen availability to forest trees. Soil Sci Soc Am J 44: 1314-1320.

Ricci P, 1972. Moyens d'tude de l'inoculum du Phytophthora nicotianae f. sp. parasitica (Dastur) Waterh parasite de I'oeillet dans le sole. Annuale Phytopathologie 4, 257-276. [In French].

Rietz DN, Haynes RJ, 2003. Effects of irrigation-induced salinity and sodicity on soil microbial activity. Soil Biol Biochem 35: 845-854.

Rodrguez-Loinaz G, Onaindia M, Amezaga I, Mijangos I, Garbisu C, 2008. Relationship between vegetation diversity and soil functional diversity in native mixed-oak forests. Soil Biol Biochem 40: 49-60.

Ros M, Garca C, Hernndez MT, Lacasa A, Fernndez P, Pascual JA, 2008. Effects of biosolarization as methyl bromide alternative for Meloidogyne incognita control on quality of soil under pepper. Biol Fert Soils 45: 37-44.

Schnrer J, Rosswall T, 1982. Fluorescein diacetate hydrolysis as a measure of total microbial activity in soil and litter. Appl Environ Microbiol 43: 1256-1261.
PMid:16346026 PMCid:244223

Taylor JP, Wilson B, Mills MS, Burns RG, 2002. Comparison of microbial numbers and enzymatic activities in surface soils and subsoils using various techniques. Soil Biol Biochem 34: 387-401.

Tenuta M, Lazarovits G, 2002. Ammonia and nitrous acid from nitrogenous amendments kill the microsclerotia of Verticillium dahliae. Phytopathology 92: 255-264.

Tenuta M, Conn KL, Lazarovits G, 2002. Volatile fatty acids in liquid swine manure can kill microsclerotia of Verticillium dahliae. Phytopathology 92: 548-552.

Van Bruggen AHC, Semenov AM, 2000. In search of biological indicators for soil health and disease suppression. Appl Soil Ecol 15: 13-24.

Vance ED, Brookes PC, Jenkinson DS, 1987. An extraction method for measuring soil microbial biomass C. Soil Biol Biochem 19: 703-707.

How to Cite
Nuñez-ZofíoM., Larregla del PalacioS., & GarbisuC. (2012). Repeated biodisinfection controls the incidence of Phytophthora root and crown rot of pepper while improving soil quality. Spanish Journal of Agricultural Research, 10(3), 794-805.
Plant protection