Journal article
Complete Genome Sequence of Nitrosospira multiformis, an Ammonia-Oxidizing Bacterium from the Soil Environment
Applied and environmental microbiology, Vol.74(11), pp.3559-3572
06/2008
Handle:
https://hdl.handle.net/2376/106442
PMCID: PMC2423025
PMID: 18390676
Abstract
The complete genome of the ammonia-oxidizing bacterium
Nitrosospira multiformis
(ATCC 25196
T
) consists of a circular chromosome and three small plasmids totaling 3,234,309 bp and encoding 2,827 putative proteins. Of the 2,827 putative proteins, 2,026 proteins have predicted functions and 801 are without conserved functional domains, yet 747 of these have similarity to other predicted proteins in databases. Gene homologs from
Nitrosomonas europaea
and
Nitrosomonas eutropha
were the best match for 42% of the predicted genes in
N. multiformis
. The
N. multiformis
genome contains three nearly identical copies of
amo
and
hao
gene clusters as large repeats. The features of
N. multiformis
that distinguish it from
N. europaea
include the presence of gene clusters encoding urease and hydrogenase, a ribulose-bisphosphate carboxylase/oxygenase-encoding operon of distinctive structure and phylogeny, and a relatively small complement of genes related to Fe acquisition. Systems for synthesis of a pyoverdine-like siderophore and for acyl-homoserine lactone were unique to
N. multiformis
among the sequenced genomes of ammonia-oxidizing bacteria. Gene clusters encoding proteins associated with outer membrane and cell envelope functions, including transporters, porins, exopolysaccharide synthesis, capsule formation, and protein sorting/export, were abundant. Numerous sensory transduction and response regulator gene systems directed toward sensing of the extracellular environment are described. Gene clusters for glycogen, polyphosphate, and cyanophycin storage and utilization were identified, providing mechanisms for meeting energy requirements under substrate-limited conditions. The genome of
N. multiformis
encodes the core pathways for chemolithoautotrophy along with adaptations for surface growth and survival in soil environments.
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Details
- Title
- Complete Genome Sequence of Nitrosospira multiformis, an Ammonia-Oxidizing Bacterium from the Soil Environment
- Creators
- Jeanette M Norton - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Martin G Klotz - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Lisa Y Stein - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Daniel J Arp - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Peter J Bottomley - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Patrick S. G Chain - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Loren J Hauser - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Miriam L Land - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Frank W Larimer - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Maria W Shin - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322Shawn R Starkenburg - Department of Plants, Soils, and Climate, Utah State University, Logan, Utah 84322
- Publication Details
- Applied and environmental microbiology, Vol.74(11), pp.3559-3572
- Academic Unit
- Molecular Biosciences, School of
- Publisher
- American Society for Microbiology (ASM)
- Identifiers
- 99900547181501842
- Language
- English
- Resource Type
- Journal article