Original Paper

World Journal of Microbiology and Biotechnology

, Volume 24, Issue 7, pp 1159-1167

First online:

Bacterial community diversity assessment in municipal solid waste compost amended soil using DGGE and ARISA fingerprinting methods

  • Hanene CherifAffiliated withLaboratoire Eau et Environnent, Institut National Recherche Scientifique & Technique Email author 
  • , Hadda OuzariAffiliated withLaboratoire Eau et Environnent, Institut National Recherche Scientifique & Technique
  • , Massimo MarzoratiAffiliated withDipartimento di Scienze e Tecnologie Alimentari e Microbiologiche, Università degli Studi di Milano
  • , Lorenzo BrusettiAffiliated withDipartimento di Scienze e Tecnologie Alimentari e Microbiologiche, Università degli Studi di Milano
  • , Naceur JedidiAffiliated withLaboratoire Eau et Environnent, Institut National Recherche Scientifique & Technique
  • , Abdennaceur HassenAffiliated withLaboratoire Eau et Environnent, Institut National Recherche Scientifique & Technique
  • , Daniele DaffonchioAffiliated withDipartimento di Scienze e Tecnologie Alimentari e Microbiologiche, Università degli Studi di Milano

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Abstract

Bacterial community structure and diversity of Tunisian agricultural soil treated with different amounts of municipal solid waste compost (MSWC) and other fertilizers were studied using DGGE and ARISA fingerprinting methods. Sequence analysis of dominant DGGE bands revealed the presence of three major clusters, Cytophaga/Flexibacter/Bacteroides (CFB) group, Proteobacteria and Acidobacteria group. Using ARISA profiles, dominant populations were assigned to low and high GC Gram positive bacteria, Cyanobacteria, Spirochetes and Cytophagales. The two methods revealed the absence of significant bacterial community shifts related to the different MSWC applications. Moreover, indigenous bacterial population of the used loam-clayey soil was observed to limit proliferation and survival of Proteobacteria, initially dominant in MSWC and farmyard manure. Effectiveness of the two methods for soil bacterial community studying was shown. While DGGE was more accurate for bacterial identification, ARISA was more practical for handling and rapid estimation of dominant bacteria.

Keywords

ARISA Bacterial community structure Compost DGGE