Comparative Genomics Unravels the Functional Roles of Co-occurring Acidophilic Bacteria in Bioleaching Heaps

Frontiers in Microbiology
Xian ZhangHuaqun Yin

Abstract

The spatial-temporal distribution of populations in various econiches is thought to be potentially related to individual differences in the utilization of nutrients or other resources, but their functional roles in the microbial communities remain elusive. We compared differentiation in gene repertoire and metabolic profiles, with a focus on the potential functional traits of three commonly recognized members (Acidithiobacillus caldus, Leptospirillum ferriphilum, and Sulfobacillus thermosulfidooxidans) in bioleaching heaps. Comparative genomics revealed that intra-species divergence might be driven by horizontal gene transfer. These co-occurring bacteria shared a few homologous genes, which significantly suggested the genomic differences between these organisms. Notably, relatively more genes assigned to the Clusters of Orthologous Groups category [G] (carbohydrate transport and metabolism) were identified in Sulfobacillus thermosulfidooxidans compared to the two other species, which probably indicated their mixotrophic capabilities that assimilate both organic and inorganic forms of carbon. Further inspection revealed distinctive metabolic capabilities involving carbon assimilation, nitrogen uptake, and iron-sulfur cycling, pr...Continue Reading

References

Nov 5, 1997·Advances in Microbial Physiology·J T Lin, V Stewart
Jan 5, 2002·Advances in Applied Microbiology·K B Hallberg, D B Johnson
Aug 21, 2002·Journal of Molecular Evolution·Hugo NayaHéctor Musto
Nov 26, 2002·Molecular Biology and Evolution·J Peter GogartenJeffrey G Lawrence
Sep 23, 2003·Research in Microbiology·D Barrie Johnson, Kevin B Hallberg
Aug 13, 2004·Environmental Microbiology·Hanno TeelingFrank Oliver Glöckner
Aug 26, 2004·FEBS Letters·Héctor MustoGiorgio Bernardi
Dec 1, 2004·Annual Review of Genetics·Stephen D Bentley, Julian Parkhill
Sep 16, 2005·Nature·Kevin R Arrigo
Oct 4, 2005·EMBO Reports·Konrad U FoerstnerPeer Bork
Dec 31, 2005·Nucleic Acids Research·P SiguierM Chandler
Apr 22, 2006·International Journal of Systematic and Evolutionary Microbiology·Tat'yana I BogdanovaGrigorii I Karavaiko
Jul 4, 2006·Biochemical and Biophysical Research Communications·Héctor MustoGiorgio Bernardi
Aug 2, 2006·Proceedings of the National Academy of Sciences of the United States of America·Mitchell L SoginGerhard J Herndl
Jan 16, 2007·International Journal of Systematic and Evolutionary Microbiology·Johan GorisJames M Tiedje
Jan 16, 2007·Environmental Microbiology·Víctor ParroElena González-Toril
Apr 17, 2007·Nature Reviews. Microbiology·James I ProsserJ Peter W Young
Apr 25, 2007·Nucleic Acids Research·Karin LagesenDavid W Ussery
May 29, 2007·Nucleic Acids Research·Yuki MoriyaMinoru Kanehisa
Mar 20, 2008·Genome Research·Daniel R Zerbino, Ewan Birney
Jul 1, 2008·Applied and Environmental Microbiology·Dagmar Kock, Axel Schippers
Aug 23, 2008·Extremophiles : Life Under Extreme Conditions·D Barrie JohnsonKevin B Hallberg
Oct 22, 2008·Advances in Microbial Physiology·D Barrie Johnson, Kevin B Hallberg
Jan 31, 2009·FEMS Microbiology Reviews·Mario JuhasDerrick W Crook
Jun 23, 2009·Genome Research·Martin KrzywinskiMarco A Marra
Aug 25, 2009·Genome Biology·Gregory J DickJillian F Banfield
May 1, 2003·FEMS Microbiology Ecology·Brett J Baker, Jillian F Banfield
Oct 27, 2009·Proceedings of the National Academy of Sciences of the United States of America·Michael Richter, Ramon Rosselló-Móra
May 11, 2010·Nature Reviews. Microbiology·Ivan A BergGeorg Fuchs
Sep 9, 2010·Molecular Systems Biology·Edwin H Wintermute, Pamela A Silver
Sep 15, 2010·PLoS Genetics·Falk HildebrandAdam Eyre-Walker
Jun 21, 2011·Frontiers in Microbiology·Stefanie MangoldMark Dopson
Jun 28, 2011·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Xiao-Yan YouShuang-Jiang Liu

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BETA
MPOJ00000000
MPOK00000000
CP007243

Software Mentioned

Velvet
Pan
MEGA
CheckM
NGS QC Toolkit
SE
PanOCT
RNAmmer
tRNAscan
TETRA

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