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

Hanene Cherif; Hadda Ouzari; Massimo Marzorati; Lorenzo Brusetti; Naceur Jedidi; Abdennaceur Hassen; Daniele Daffonchio

doi:10.1007/s11274-007-9588-z

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

Hanene Cherif^*, Hadda Ouzari, Massimo Marzorati, Lorenzo Brusetti, Naceur Jedidi, Abdennaceur Hassen, Daniele Daffonchio

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

22 Scopus citations

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.

Original language	English (US)
Pages (from-to)	1159-1167
Number of pages	9
Journal	World Journal of Microbiology and Biotechnology
Volume	24
Issue number	7
DOIs	https://doi.org/10.1007/s11274-007-9588-z
State	Published - Jul 2008
Externally published	Yes

Bibliographical note

Funding Information:
Acknowledgements The authors would like to thank Ameur Cherif for his scientific advices. The present study is a part of the 1999–2006 research program ‘‘Municipal solid waste treatment and compost agricultural re-use’’ which is supported by the Tunisian State Secretariat of Scientific Research and Technology.

Keywords

ARISA
Bacterial community structure
Compost
DGGE

ASJC Scopus subject areas

Biotechnology
Physiology
Applied Microbiology and Biotechnology

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1007/s11274-007-9588-z

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

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.",

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doi = "10.1007/s11274-007-9588-z",

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AU - Ouzari, Hadda

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AU - Brusetti, Lorenzo

AU - Jedidi, Naceur

AU - Hassen, Abdennaceur

AU - Daffonchio, Daniele

N1 - Funding Information: Acknowledgements The authors would like to thank Ameur Cherif for his scientific advices. The present study is a part of the 1999–2006 research program ‘‘Municipal solid waste treatment and compost agricultural re-use’’ which is supported by the Tunisian State Secretariat of Scientific Research and Technology.

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N2 - 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.

AB - 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.

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

Abstract

Bibliographical note

Keywords

ASJC Scopus subject areas

UN SDGs

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