The main objective of this investigation was to identify a collection of actinomycetes isolates and to study the influence of amendment [municipal solid waste compost (MSWC) and farmyard manure (FM)] on their distribution in agricultural soil. For this purpose, a phenotypic and molecular characterization of 226 isolates collected from soil (with and without amendment) and 55 isolates from MSWC and FM was developed. The phenotypic study showed that the majority of strains isolated belong to the genus Streptomyces. By using the 16S rDNA polymerase chain reaction—restriction fragment length polymorphism method (restriction digest using six enzymes AluI, HhaI, MspI, TaqI , RsaI and HaeIII), two clusters were found: Streptomyces, dominant genus and Amycolatopsis, followed by Nocardioides. This result agreed with phylogeny revealed by 16S rDNA sequencing. The number of these actinomycetes in soil increased with FM or MSWC application. The studied soil is a potential source for isolation of actinomycetes, especially Streptomyces, and the application of organic amendment to the soil appeared to have an impact on the diversity of actinomycetes. Amendment of the soil with MSWC and FM significantly increased the number of actinomycetes due to the contribution of bacteria originally contained in biowastes and/or by stimulation of the endogenous soil micro-organisms.
Benzarti, S., Hamdi, H., Aoyama, I., Jedidi, N., Hassen, A. & Dahmane, A. (2007) Assessment of the effect of repetitive municipal solid waste compost application on soil using physico-chemical analyses, solid-phase bioassays and microbial activity characterisation. Japanese Journal of Environnmental Toxicology, 10, 19-30.
2.
Bouzaiane, O., Cherif, H., Saidi, N., Jedidi, N. & Hassen, A. (2007) Effects of municipal solid waste compost application on the microbial biomass of cultivated and non-cultivated soil in a semi-arid zone. Waste Management & Research, 25, 334-342.
3.
Brosius, J., Palmer, M.L., Kennedy, P.J. & Noller, H.F. (1978): Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proceedings of the National Academy Sciences of USA, 75, 4801-4805.
4.
Castellazzi, M.S., Brookes, P.C. & Jenkinson, D.S. (2004) Distribution of microbial biomass down soil profiles under regenerating wood-land. Soil Biology & Biochemistry, 36, 1485-1489.
5.
Cherif, H., Ouzari, H., Marzorati, M., Brusetti, L., Jedidi, N., Hassen, A. & Daffonchio, D. (2007) Bacterial community diversity assessment in municipal solid waste compost amended soil using DGGE and ARISA fingerprinting methods. World Journal of Microbiology & Biotechnology, doi: 10. 1007/s11274-007-9588-z.
6.
Chowdhury, M.A.H., Kounou, K., Ando, T. & Nagaoka,T. ( 2000) Microbial biomass, S mineralisation and S uptake by African millet from soil amended with various composts. Soil Biology and Biochemistry, 32, 845-852.
7.
Crawford, D.L. (1988) Biodegradation of agricultural and urban wastes . In: Goodfellow, M., Williams, S.T. & Mordarski, M. (eds): Actinomycetes in Biotechnology, pp. 445-459. Academic Press, London, UK.
8.
Crecchio, C., Curci, M., Pizzigallo, M.D.R., Ricciuti, P. & Ruggiero, P. (2004) Effects of municipal solid waste compost amendments on soil enzyme activities and bacterial genetic diversity. Soil Biology & Biochemistry, 36, 1595-1605.
9.
El Fantroussi, S., Belkacemi, M., Top, E.M., Mahillon, J., Naveau, H. & Agathos, S.N. (1999) Bioaugmentation of a soil bioreactor designed for pilot-scale anaerobic bioremediation studies. Environnmental Science & Technology, 33, 2992-3001.
10.
Embley, M. & Stackebrandt, E. (1994) The molecular phylogeny and systematic of the actinomycetes. Annual Review of Microbiology , 48, 257-289.
11.
Epstein, E. (1997) The Science of Composting pp. 487. Technomic Publishing Company , Lancaster, PA, USA.
12.
Frostegard, A., Courtous, S., Ramisse, V., Clerc, S., Bernillon, D., Le Gall, F., Jeannin, P., Nesme, X. & Simonet, P. (1999): Quantification of bias related to the extraction of DNA directly from soils. Applied Environmental Microbiology , 65, 5409-5420.
13.
Gallardo-Lara, F. & Nogales, R. (1987) Effect of the application of town refuse compost on the soil plant system. review. Biological Wastes, 19, 35-62.
14.
Garcia, C., Hernandez, T., Albadalejo, J., Castillo, V. & Roldan, A. (1998) Revegetation in semiarid zones: influence of terracing and organic reuse on microbial activity. Soil Science Society of America Journal, 62, 670-676.
15.
Garcia, J.C., Plaza, C. & Soler-Rovira, P. (2000) Long-term effects of municipal solid waste compost application on soil enzyme activities and microbial biomass . Soil Biology & Biochemistry, 32, 1173-1181.
16.
Gesheva, V. (2002) Rizosphere microflora of some citrus as a source of antagonistic actinomycetes. European Journal of Soil Biology , 38, 85-88.
17.
Giusquiani, P.L., Pagliari, M., Gigliotti, G., Businetti, D. & Benetti, A. (1995): Urban waste compost: effects on physical, chemical, and biochemical soil properties. Journal of Environnmental Quality, 24, 175-182.
18.
Goodfellow, M. & Williams, S.T. (1983) Ecology of actinomycetes . Annual Review Microbiology, 37, 189-216.
19.
Hamdi, H., Jedidi, N., Ayari, F., M'hiri, A., Hassen, A. & Ghrabi, A. (2002) The effect of Tunis urban compost on soil properties, chemical composition of plant and yield. Proceedings of international symposium on environmental pollution control and waste management , January 2002, Tunis (EPCOWM'2002), pp. 383-384.
20.
Heuer, H., Krsek, M., Baker, P., Smalla, K. & Wellington, E.M.H. (1997) Analysis of actinomycetes communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients. Applied & Environmental Microbiology, 63, 3233-3241.
21.
Jedidi, N., Van Cleemput, O. & M'hiri, A. (1993) Mineralization of organic amendments in a Tunisian soil. In: Muongoy, K. & Merckx, R. (eds): soil organic matter dynamics and sustainability of tropical agriculture, pp. 163-169.
22.
Jedidi, N., Van Cleemput, O. & M'hiri, A., (1995) Quantification des processus de minéralisation et d'organisation de l'azote dans un so 1 en présence d'amendements organiques . Canadien Journal of Soil Science, 75, 85-91.
23.
Jedidi, N., Hassen, A., Van Cleemput, O. & M'hiri, A. (2004) Microbial biomass in a soil amended in different types of organic wastes. Waste Management & Research, 22, 93-99.
24.
Jiang, C.L. & Xu, L.H. (1996): Diversity of aquatic actinomycetes in lakes of the Middle Plateau, Yunnan, China. Applied & Environmental Microbiology, 62, 249-253.
25.
Lechevalier, H.A., Williams, S.T., Sharpe, M.E. & Holt, J.G. (1989) The actinomycetes: a practical guide to generic identification of actinomycetes. In: Stanley, T. & Williams, A. (eds): Bergey's Manual of Systematic Bacteriology, pp. 2344-3330. Williams & Wilkins, Baltimore, MD.
26.
Liebeg, E.W. & Cutright, T.J. (1999) The investigation of enhanced bioremediation through the addition of macro and micro nutrients in a PAH-contaminated soil. International Biodeterioration and Biodegradation, 44, 55-64.
McCarthy, A.J. & Williams, S.T. (1992) Actinomycetes as agents of biodegradation in the environment. Gene, 115, 189-192.
29.
Odokuma, L.O. & Dickson, A.A. (2003) Bioremediation of a crude oil polluted tropical rain forest soil. Global Journal of Environmental Science , 2, 29-40.
30.
Pitcher, D.D., Saunders, N.A. & Owen. R.J. (1989) Rapid extraction of bacterial genomic DNA with guanidinium thiocyanate. Letters in Applied Microbiology, 8, 151-156.
31.
Porter, J.N., Wilhen, J.J. & Tresner, H.D. (1960) Method for preferential isolation of actinomycetes from soil. Applied Microbiology, 8, 174-178.
32.
Saadoun, I. & Al-Momani, F. (1998) Frequency and dominance of grey series Streptomycetes in Jordan soils. Actinomycetes9, 61-65.
33.
Shirling, E.B. & Gottlieb, D. (1966): Methods for characterization of Streptomyces species . International Journal of Systematic Bacteriology, 16, 313-340.
34.
Tiquia, S.M., Wan, J.H.C. & Tam, N.F.Y. (2002) Microbial population dynamics and enzyme activities during composting. Compost Science & Utilisation, 10, 150-161.
35.
Van Soolingen, D., Hermans, P.W.M., Haas, P.E.W., Soll, D.R. & Van Embden, J.D. A. (1991) Occurrence and stability of insertion sequences in Mycobacterium tuberculosis complex strains: evaluation of an insertion sequence-dependent DNA polymorphism as a tool in the epidemiology of tuberculosis. Journal of Clinical Microbiology, 29, 2578-2586.
36.
Stanley, T. & Williams, A. (eds) (1989) Bergey's Manual of Systematic Bacteriology, Vol. 4. Williams & Wilkins Co., Baltimore, MD.
37.
Williams, S.T., Lanning, S. & Wellington, E.M.H. (1984) Ecology of actinomycetes . In: Goodfellow, M., Mordarski, M. & Williams, S.T. (eds): The Biology of the Actinomycetes, pp. 481-528. Academic Press, London, UK.
38.
Xu, L.H., Li, Q.R. & Jiang, C.L. (1996) Diversity of soil actinomycetes in Yunnan, China . Applied & Environmental Microbiology, 62, 244-248.
39.
Yoshida, M., Jedidi, N., Hamdi, H., Ayari, F. & Hassen, A. (2003) Magnetic susceptibility variation of MSW compost amended soils: in situ method for monitoring heavy metal contamination. Waste Management & Research, 21, 155-160.
40.
Zaitlin, B., Turkington, K., Parkinson, D. & Clayton, G. (2004) Effects of tillage and inorganic fertilizers on culturable soil actinomycetes communities and inhibition of fungi by specific actinomycetes. Applied Soil Ecology, 26, 53-62.
