Metabolic capability and in situ activity of microorganisms in an oil reservoir

Microbiome
Yi-Fan LiuKarsten Zengler

Abstract

Microorganisms have long been associated with oxic and anoxic degradation of hydrocarbons in oil reservoirs and oil production facilities. While we can readily determine the abundance of microorganisms in the reservoir and study their activity in the laboratory, it has been challenging to resolve what microbes are actively participating in crude oil degradation in situ and to gain insight into what metabolic pathways they deploy. Here, we describe the metabolic potential and in situ activity of microbial communities obtained from the Jiangsu Oil Reservoir (China) by an integrated metagenomics and metatranscriptomics approach. Almost complete genome sequences obtained by differential binning highlight the distinct capability of different community members to degrade hydrocarbons under oxic or anoxic condition. Transcriptomic data delineate active members of the community and give insights that Acinetobacter species completely oxidize alkanes into carbon dioxide with the involvement of oxygen, and Archaeoglobus species mainly ferment alkanes to generate acetate which could be consumed by Methanosaeta species. Furthermore, nutritional requirements based on amino acid and vitamin auxotrophies suggest a complex network of interactio...Continue Reading

References

Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Dec 10, 1998·Nucleic Acids Research·H OgataM Kanehisa
Jan 27, 1999·Bioinformatics·S R Eddy
Aug 5, 2004·Journal of Bacteriology·Aina Maria CladeraElena García-Valdés
Sep 17, 2004·Nature·Carolyn M AitkenS R Larter
Dec 7, 2007·Biochemical and Biophysical Research Communications·Amy V CallaghanGerben J Zylstra
Dec 15, 2007·The ISME Journal·Jan DolfingIan M Head
Feb 12, 2008·BMC Genomics·Ramy K AzizOlga Zagnitko
Aug 8, 2008·Journal of Molecular Microbiology and Biotechnology·Julia Foght
Apr 7, 2009·Bioinformatics·Ying HuangWeizhong Li
Apr 9, 2009·Applied Microbiology and Biotechnology·Farrakh MehboobAlfons J M Stams
Nov 20, 2009·Environmental Science & Technology·Kathleen E DuncanJoseph M Suflita
Mar 10, 2010·BMC Bioinformatics·Doug HyattLoren J Hauser
Feb 1, 2011·Bioinformatics·Robert Schmieder, Robert Edwards
Nov 22, 2011·Applied and Environmental Microbiology·Erik S WrightDaniel R Noguera
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
Jun 13, 2012·Nature Methods·Nicola SegataCurtis Huttenhower
Oct 13, 2012·Bioinformatics·Limin FuWeizhong Li
Nov 20, 2012·Nature Methods·Adam Roberts, Lior Pachter
Jul 31, 2013·Environmental Science & Technology·Dongshan AnGerrit Voordouw
Aug 15, 2013·Nature Communications·Nicola SegataCurtis Huttenhower
Oct 15, 2013·Bioinformatics·Luis M Rodriguez-R, Konstantinos T Konstantinidis
Nov 30, 2013·Nucleic Acids Research·James R ColeJames M Tiedje
Mar 4, 2015·Molecular Ecology Resources·Johan Bengtsson-PalmeRolf Henrik Nilsson
Dec 2, 2015·Proceedings of the National Academy of Sciences of the United States of America·Mallory EmbreeKarsten Zengler

❮ Previous
Next ❯

Citations

Aug 21, 2018·Environmental Microbiology·Catalina A P Hidalgo-AhumadaDiana Z Sousa
Mar 31, 2018·Nature Reviews. Microbiology·Karsten Zengler, Livia S Zaramela
Apr 25, 2018·FEMS Microbiology Ecology·Christina M Ridley, Gerrit Voordouw
Dec 7, 2018·New Biotechnology·Mark PannekensRainer U Meckenstock
Aug 14, 2020·Environmental Science & Technology·Yi-Fan LiuBo-Zhong Mu
Feb 15, 2019·The Science of the Total Environment·Xiaotong WangYanming Zhang
Oct 15, 2021·Scientific Reports·Samyra Raquel Gonçalves TiburcioAlane Beatriz Vermelho

❮ Previous
Next ❯

Methods Mentioned

BETA
assA
Chip
Assay

Software Mentioned

NanoSIMS
HIT
eXpress
Prinseq
GroopM
Bowtie2
Prodigal
BLASTP
SIP
DECIPHER

Related Concepts

Related Feeds

Archaeogenetics

Recent advances in genomic sequencing has led to the discovery of new strains of Archaea and shed light on their evolutionary history. Discover the latest research on Archaeogenetics here.