PMID- 20817796
OWN - NLM
STAT- MEDLINE
DCOM- 20110203
LR  - 20240319
IS  - 1098-5336 (Electronic)
IS  - 0099-2240 (Print)
IS  - 0099-2240 (Linking)
VI  - 76
IP  - 21
DP  - 2010 Nov
TI  - Development of amplified fragment length polymorphism-derived functional 
      strain-specific markers to assess the persistence of 10 bacterial strains in soil 
      microcosms.
PG  - 7126-35
LID - 10.1128/AEM.00574-10 [doi]
AB  - To augment the information on commercial microbial products, we investigated the 
      persistence patterns of high-priority bacterial strains from the Canadian 
      Domestic Substance List (DSL). Specific DNA markers for each of the 10 DSL 
      bacterial strains were developed using the amplified fragment length polymorphism 
      (AFLP) technique, and the fates of DSL strains introduced in soil were assessed 
      by real-time quantitative PCR (qPCR). The results indicated that all DNA markers 
      had high specificity at the functional strain level and that detection of the 
      target microorganisms was sensitive at a detection limitation range from 1.3 x 
      10(2) to 3.25 x 10(5) CFU/g of dry soil. The results indicated that all introduced 
      strains showed a trend toward a declining persistence in soil and could be 
      categorized into three pattern types. The first type was long-term persistence 
      exemplified by Pseudomonas stutzeri (ATCC 17587) and Pseudomonas denitrificans 
      (ATCC 13867) strains. In the second pattern, represented by Bacillus subtilis 
      (ATCC 6051) and Escherichia hermannii (ATCC 700368), the inoculated strain 
      populations dropped dramatically below the detection threshold after 10 to 21 
      days, while in the third pattern there was a gradual decrease, with the 
      population falling below the detectable level within the 180-day incubation 
      period. These patterns indicate a selection effect of a microbial community 
      related to the ecological function of microbial strains introduced in soil. As a 
      key finding, the DSL strains can be quantitatively tracked in soil with high 
      sensitivity and specificity at the functional strain level. This provides the 
      basic evidence for further risk assessment of the priority DSL strains.
FAU - Xiang, S-R
AU  - Xiang SR
AD  - Biological Assessment and Standardization Section, Science and Technology Branch, 
      Environment Canada, Ottawa, Ontario K1A 0H3, Canada.
FAU - Cook, M
AU  - Cook M
FAU - Saucier, S
AU  - Saucier S
FAU - Gillespie, P
AU  - Gillespie P
FAU - Socha, R
AU  - Socha R
FAU - Scroggins, R
AU  - Scroggins R
FAU - Beaudette, L A
AU  - Beaudette LA
LA  - eng
SI  - GENBANK/GQ473167
SI  - GENBANK/GQ473168
SI  - GENBANK/GQ473169
SI  - GENBANK/GQ473170
SI  - GENBANK/GQ473171
SI  - GENBANK/GQ473172
SI  - GENBANK/GQ473173
SI  - GENBANK/GQ473174
SI  - GENBANK/GQ473175
SI  - GENBANK/GQ473176
SI  - GENBANK/GQ473177
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20100903
PL  - United States
TA  - Appl Environ Microbiol
JT  - Applied and environmental microbiology
JID - 7605801
RN  - 0 (DNA, Bacterial)
RN  - 0 (Genetic Markers)
RN  - 0 (Soil)
SB  - IM
MH  - Amplified Fragment Length Polymorphism Analysis/*methods
MH  - Bacillus subtilis/genetics
MH  - *Bacteria/genetics
MH  - DNA, Bacterial/analysis/genetics
MH  - Escherichia/genetics
MH  - Genetic Markers/*genetics
MH  - Molecular Sequence Data
MH  - Polymerase Chain Reaction/methods
MH  - Pseudomonas/genetics
MH  - Pseudomonas stutzeri/genetics
MH  - Sensitivity and Specificity
MH  - Soil/analysis
MH  - *Soil Microbiology
PMC - PMC2976230
EDAT- 2010/09/08 06:00
MHDA- 2011/02/04 06:00
PMCR- 2011/05/01
CRDT- 2010/09/07 06:00
PHST- 2010/09/07 06:00 [entrez]
PHST- 2010/09/08 06:00 [pubmed]
PHST- 2011/02/04 06:00 [medline]
PHST- 2011/05/01 00:00 [pmc-release]
AID - AEM.00574-10 [pii]
AID - 0574-10 [pii]
AID - 10.1128/AEM.00574-10 [doi]
PST - ppublish
SO  - Appl Environ Microbiol. 2010 Nov;76(21):7126-35. doi: 10.1128/AEM.00574-10. Epub 
      2010 Sep 3.