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An update and optimisation of oligonucleotide probes targeting methanogenic Archaea for use in fluorescence in situ hybridisation (FISH)

Crocetti, Greg LU ; Murto, Marika LU and Björnsson, Lovisa LU (2006) In Journal of Microbiological Methods 65(1). p.194-201
Abstract
Fluorescence in situ hybridisation (FISH) is a common and popular method used to investigate microbial populations in natural and engineered environments. DNA oligonucleoticle probes require accurate determination of the optimal experimental conditions for their use in FISH Oligonucleotides targeting the rRNA of methanogenic Archaea at various taxonomic levels have previously been published, although when applied in FISH, no optimisation data has been presented In this study, 3000 Euryarchaeota 16S rRNA gene sequences were phylogenetically analysed and previously published oligonucleoticles were evaluated for target group accuracy. Where necessary, modifications were introduced or new probes were designed. The updated set of probes was... (More)
Fluorescence in situ hybridisation (FISH) is a common and popular method used to investigate microbial populations in natural and engineered environments. DNA oligonucleoticle probes require accurate determination of the optimal experimental conditions for their use in FISH Oligonucleotides targeting the rRNA of methanogenic Archaea at various taxonomic levels have previously been published, although when applied in FISH, no optimisation data has been presented In this study, 3000 Euryarchaeota 16S rRNA gene sequences were phylogenetically analysed and previously published oligonucleoticles were evaluated for target group accuracy. Where necessary, modifications were introduced or new probes were designed. The updated set of probes was optimised for use in FISH for a more accurate detection of methanogenic Archaea. (c) 2005 Elsevier B.V. All rights reserved. (Less)
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Euryarchaeota, oligonucleotide, 16S rDNA, mnethanogen, FISH
in
Journal of Microbiological Methods
volume
65
issue
1
pages
194 - 201
publisher
Elsevier
external identifiers
  • wos:000236814700021
  • pmid:16126291
  • scopus:33644959684
ISSN
1872-8359
DOI
10.1016/j.mimet.2005.07.007
language
English
LU publication?
yes
id
6ad89a1a-2157-420c-af10-d4773b111e7b (old id 414024)
date added to LUP
2007-10-02 09:53:39
date last changed
2019-01-13 04:14:55
@article{6ad89a1a-2157-420c-af10-d4773b111e7b,
  abstract     = {Fluorescence in situ hybridisation (FISH) is a common and popular method used to investigate microbial populations in natural and engineered environments. DNA oligonucleoticle probes require accurate determination of the optimal experimental conditions for their use in FISH Oligonucleotides targeting the rRNA of methanogenic Archaea at various taxonomic levels have previously been published, although when applied in FISH, no optimisation data has been presented In this study, 3000 Euryarchaeota 16S rRNA gene sequences were phylogenetically analysed and previously published oligonucleoticles were evaluated for target group accuracy. Where necessary, modifications were introduced or new probes were designed. The updated set of probes was optimised for use in FISH for a more accurate detection of methanogenic Archaea. (c) 2005 Elsevier B.V. All rights reserved.},
  author       = {Crocetti, Greg and Murto, Marika and Björnsson, Lovisa},
  issn         = {1872-8359},
  keyword      = {Euryarchaeota,oligonucleotide,16S rDNA,mnethanogen,FISH},
  language     = {eng},
  number       = {1},
  pages        = {194--201},
  publisher    = {Elsevier},
  series       = {Journal of Microbiological Methods},
  title        = {An update and optimisation of oligonucleotide probes targeting methanogenic Archaea for use in fluorescence in situ hybridisation (FISH)},
  url          = {http://dx.doi.org/10.1016/j.mimet.2005.07.007},
  volume       = {65},
  year         = {2006},
}