PMID- 17472632
OWN - NLM
STAT- MEDLINE
DCOM- 20070524
LR  - 20240109
IS  - 1462-2912 (Print)
IS  - 1462-2912 (Linking)
VI  - 9
IP  - 5
DP  - 2007 May
TI  - Quantitative distribution of presumptive archaeal and bacterial nitrifiers in 
      Monterey Bay and the North Pacific Subtropical Gyre.
PG  - 1162-75
AB  - The recent isolation of the ammonia-oxidizing crenarchaeon Nitrosopumilus 
      maritimus has expanded the known phylogenetic distribution of nitrifying 
      phenotypes beyond the domain Bacteria. To further characterize nitrification in 
      the marine environment and explore the potential crenarchaeal contribution to 
      this process, we quantified putative nitrifying genes and phylotypes in 
      picoplankton genomic libraries and environmental DNA samples from coastal and 
      open ocean habitats. Betaproteobacteria ammonia monooxygenase subunit A (amoA) 
      gene copy numbers were low or undetectable, in stark contrast to crenarchaeal 
      amoA-like genes that were broadly distributed and reached up to 6 x 10(4) copies 
      ml(-1). Unexpectedly, in the North Pacific Subtropical Gyre, a deeply branching 
      crenarchaeal group related to a hot spring clade (pSL12) was at times abundant 
      below the euphotic zone. Quantitative data suggested that the pSL12 relatives 
      also contain archaeal amoA-like genes. In both coastal and open ocean habitats, 
      close relatives of known nitrite-oxidizing Nitrospina species were well 
      represented in genomic DNA libraries and quantitative PCR profiles. Planktonic 
      Nitrospina depth distributions correlated with those of Crenarchaea. Overall, the 
      data suggest that amoA-containing Crenarchaea are more phylogenetically diverse 
      than previously reported. Additionally, distributional patterns of planktonic 
      Crenarchaea and Nitrospina species suggest potential metabolic interactions 
      between these groups in the ocean's water column.
FAU - Mincer, Tracy J
AU  - Mincer TJ
AD  - Department of Civil and Environmental Engineering, Massachusetts Institute of 
      Technology, MA 02139, USA.
FAU - Church, Matthew J
AU  - Church MJ
FAU - Taylor, Lance Trent
AU  - Taylor LT
FAU - Preston, Christina
AU  - Preston C
FAU - Karl, David M
AU  - Karl DM
FAU - DeLong, Edward F
AU  - DeLong EF
LA  - eng
SI  - GENBANK/DQ989186
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SI  - GENBANK/EI011008
SI  - GENBANK/EI011009
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
PL  - England
TA  - Environ Microbiol
JT  - Environmental microbiology
JID - 100883692
RN  - 0 (Nitrites)
RN  - 0 (RNA, Ribosomal)
RN  - EC 1.- (Oxidoreductases)
RN  - EC 1.7.3.- (ammonia monooxygenase)
SB  - IM
MH  - California
MH  - Crenarchaeota/classification/genetics/*metabolism
MH  - Deltaproteobacteria/classification/genetics/*metabolism
MH  - *Genes, rRNA
MH  - Hawaii
MH  - Molecular Sequence Data
MH  - Nitrites/*metabolism
MH  - Oxidoreductases/classification/*genetics
MH  - Pacific Ocean
MH  - Phylogeny
MH  - RNA, Ribosomal/*classification
MH  - Seawater/*microbiology
EDAT- 2007/05/03 09:00
MHDA- 2007/05/26 09:00
CRDT- 2007/05/03 09:00
PHST- 2007/05/03 09:00 [pubmed]
PHST- 2007/05/26 09:00 [medline]
PHST- 2007/05/03 09:00 [entrez]
AID - EMI1239 [pii]
AID - 10.1111/j.1462-2920.2007.01239.x [doi]
PST - ppublish
SO  - Environ Microbiol. 2007 May;9(5):1162-75. doi: 10.1111/j.1462-2920.2007.01239.x.