Metagenomics of petroleum muck: revealing microbial diversity and depicting microbial syntrophy.
Present study attempts in revealing taxonomic and functional diversity of microorganism from petroleum muck using metagenomics approach. Using Ion Torrent Personal Genome Machine, total of 249 Mb raw data were obtained which was analysed using MG-RAST platform. The taxonomic analysis revealed predominance of Proteobacteria with Gammaproteobacteria as major class and Pseudomonas stutzeri as most abundant organism. Several enzymes involved in aliphatic and aromatic hydrocarbon degradation through both aerobic and anaerobic routes and proteins related to stress response were also present. Comparison of our metagenome with the existing metagenomes from oil-contaminated sites and wastewater treatment plant indicated uniqueness of this metagenome taxonomically and functionally. Based on these results a hypothetical community model showing survival and syntrophy of microorganisms in hydrocarbon-rich environment is proposed. Validation of the metagenome data was done in three tiers by validating major OTUs by isolating oil-degrading microbes, confirmation of key genes responsible for hydrocarbon degradation by Sanger sequencing and studying functional dynamics for degradation of the hydrocarbons by the muck meta-community using GC-MS.
Gujarat State Biotechnology Mission, Department of Science and Technology, Government of Gujarat, 11th Block, 9th Floor, Udyog Bhavan, Gandhinagar, 382 011, Gujarat, India.
Madhvi N
MN
Joshi
Shivangi V
SV
Dhebar
Shivani V
SV
Dhebar
Poonam
P
Bhargava
Aanal
A
Pandit
Riddhi P
RP
Patel
Akshay
A
Saxena
Snehal B
SB
Bagatharia
D044822:Biodiversity; D020563:Gammaproteobacteria / Q000235:genetics* / Q000302:isolation & purification; D005798:Genes, Bacterial; D006838:Hydrocarbons / Q000378:metabolism; D053858:Metabolic Networks and Pathways / Q000235:genetics; D054892:Metagenome; D056186:Metagenomics; D056265:Microbial Interactions; D050296:Microbial Viability; D010578:Petroleum / Q000382:microbiology*; D044223:Pseudomonas stutzeri / Q000235:genetics* / Q000302:isolation & purification; D017422:Sequence Analysis, DNA
D006838:Hydrocarbons; D010578:Petroleum