NDLI: Extraction of the metagenomic DNA and assessment of the bacterial diversity from the petroleum-polluted sites

Content Provider	Springer Nature Link
Author	Akbari, Viral G. Pandya, Rupal D. Singh, Satya P.
Copyright Year	2014
Abstract	The assessment of the microbial diversity of the entire community of a given habitat requires the extraction of the total environmental DNA. Metagenomic investigations of a petroleum-polluted habitat have its unique challenges. The specific methods were developed for the extraction of high-quality metagenome in good quantity from the petroleum-polluted saline and non-saline sites in Gujarat (India). The soil samples were washed to remove the toxic, hazardous organic pollutants which might interfere with the recovery of the metagenomic DNA. The metagenomic DNA extraction results were encouraging with the mechanical bead beating, soft lysis, and combination of both. The extracted DNA was assessed for its purity and yield followed by its application in the amplification of the 16S rRNA region. The amplicons were used for judging the molecular diversity by the denaturing gradient gel electrophoresis (DGGE). The microbial diversity was also analyzed statistically by calculating various diversity indices and principal component analysis (PCA). The results on the metagenomic diversity of the bacterial population among the three cohorts based on the culture-independent technique exhibited significant difference among the PAH sites and Okha–Madhi and Porbandar Madhavpur habitats.
Starting Page	6351
Ending Page	6362
Page Count	12
File Format	PDF
ISSN	01676369
Journal	Environmental Monitoring and Assessment
Volume Number	186
Issue Number	10
e-ISSN	15732959
Language	English
Publisher	Springer International Publishing
Publisher Date	2014-05-29
Publisher Place	Cham
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	DGGE Environmental DNA Metagenomics Microbial diversity Polluted saline habitats Environmental Monitoring/Analysis Environmental Management Ecotoxicology Atmospheric Protection/Air Quality Control/Air Pollution Ecology
Content Type	Text
Resource Type	Article
Subject	Pollution Medicine Management, Monitoring, Policy and Law

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