Comparison of pmoA PCR primer sets as tools for investigating methanotroph diversity in three Danish soils.


:Three particulate methane monooxygenase PCR primer sets (A189-A682, A189-A650, and A189-mb661) were investigated for their ability to assess methanotroph diversity in soils from three sites, i.e., heath, oak, and sitka, each of which was capable of oxidizing atmospheric concentrations of methane. Each PCR primer set was used to construct a library containing 50 clones from each soil type. The clones from each library were grouped by restriction fragment length polymorphism, and representatives from each group were sequenced and analyzed. Libraries constructed with the A189-A682 PCR primer set were dominated by amoA-related sequences or nonspecific PCR products with nonsense open reading frames. The primer set could not be used to assess methanotroph diversity in these soils. A new pmoA-specific primer, A650, was designed in this study. The A189-A650 primer set demonstrated distinct biases both in clone library analysis and when incorporated into denaturing gradient gel electrophoresis analysis. The A189-mb661 PCR primer set demonstrated the largest retrieval of methanotroph diversity of all of the primer sets. However, this primer set did not retrieve sequences linked with novel high-affinity methane oxidizers from the soil libraries, which were detected using the A189-A650 primer set. A combination of all three primer sets appears to be required to examine both methanotroph diversity and the presence of novel methane monooxygenase sequences.


Appl Environ Microbiol


Bourne DG,McDonald IR,Murrell JC





Has Abstract


2001-09-01 00:00:00












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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Lenke H,Knackmuss H

    更新日期:1996-03-01 00:00:00

  • Physiological adaptations involved in alkane assimilation at a low temperature by Rhodococcus sp. strain Q15.

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Whyte LG,Slagman SJ,Pietrantonio F,Bourbonnière L,Koval SF,Lawrence JR,Inniss WE,Greer CW

    更新日期:1999-07-01 00:00:00

  • Clinical isolate of Pseudomonas aeruginosa that degrades salicylate by the ortho pathway.

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Ohta S,Matsumoto H,Terawaki Y

    更新日期:1981-01-01 00:00:00

  • Response of Sesbania grandiflora to Inoculation of Soil with Vesicular-Arbuscular Mycorrhizal Fungi.

    abstract::A greenhouse experiment was conducted to determine the influence of two tropical isolates of Glomus fasciculatum and Glomus mosseae on the nutrient uptake and growth of Sesbania grandiflora. Inoculation of sterile soil with the fungi significantly improved growth and nutrient uptake by S. grandiflora, but the response...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Habte M,Aziz T

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  • Hydrosol of Thymbra capitata Is a Highly Efficient Biocide against Salmonella enterica Serovar Typhimurium Biofilms.

    abstract:UNLABELLED:Salmonella is recognized as one of the most significant enteric foodborne bacterial pathogens. In recent years, the resistance of pathogens to biocides and other environmental stresses, especially when they are embedded in biofilm structures, has led to the search for and development of novel antimicrobial s...

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    authors: Karampoula F,Giaouris E,Deschamps J,Doulgeraki AI,Nychas GJ,Dubois-Brissonnet F

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Roach DR,Sjaarda DR,Castle AJ,Svircev AM

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    abstract:UNLABELLED:Mechanistic studies of many processes in Agrobacterium tumefaciens have been hampered by a lack of genetic tools for characterization of essential genes. In this study, we used a Tn7-based method for inducible control of transcription from an engineered site on the chromosome. We demonstrate that this method...

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    authors: Figueroa-Cuilan W,Daniel JJ,Howell M,Sulaiman A,Brown PJ

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Meckes MC

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    pub_type: 杂志文章


    authors: Sutherland JB

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  • In Situ Hydrogen Dynamics in a Hot Spring Microbial Mat during a Diel Cycle.

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    authors: Revsbech NP,Trampe E,Lichtenberg M,Ward DM,Kühl M

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    pub_type: 杂志文章


    authors: Firestone MK,Killham K,McColl JG

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  • Controlled autolysis and enzyme release in a recombinant lactococcal strain expressing the metalloendopeptidase enterolysin A.

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    journal_title:Applied and environmental microbiology

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    authors: Hickey RM,Ross RP,Hill C

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    pub_type: 杂志文章


    authors: Yaradou DF,Hallier-Soulier S,Moreau S,Poty F,Hillion Y,Reyrolle M,André J,Festoc G,Delabre K,Vandenesch F,Etienne J,Jarraud S

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Furukawa K,Chakrabarty AM

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    pub_type: 杂志文章


    authors: Simon L,Fremaux C,Cenatiempo Y,Berjeaud JM

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    pub_type: 杂志文章


    authors: Teraguchi S,Shin K,Ogata T,Kingaku M,Kaino A,Miyauchi H,Fukuwatari Y,Shimamura S

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    authors: Kitphati W,Ngok-Ngam P,Suwanmaneerat S,Sukchawalit R,Mongkolsuk S

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    authors: Vieira A,Ramesh A,Seddon AM,Karlyshev AV

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    authors: Kaucner C,Stinear T

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    authors: Riedel T,Tomasch J,Buchholz I,Jacobs J,Kollenberg M,Gerdts G,Wichels A,Brinkhoff T,Cypionka H,Wagner-Döbler I

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    authors: Fein JE,Zawadzki BC,Lawford HG,Lawford GR

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  • Characterization of an 8.7-kilobase thiostrepton resistance-encoding plasmid (pGIF3) of Streptomyces incarnatus.

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


    authors: Malina H,Robert-Gero M

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  • Detection of airborne Stachybotrys chartarum macrocyclic trichothecene mycotoxins in the indoor environment.

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    authors: Brasel TL,Martin JM,Carriker CG,Wilson SC,Straus DC

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    journal_title:Applied and environmental microbiology

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    authors: Robleto EA,Borneman J,Triplett EW

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    pub_type: 杂志文章


    authors: Asakura Y,Kimura E,Usuda Y,Kawahara Y,Matsui K,Osumi T,Nakamatsu T

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    pub_type: 杂志文章


    authors: Anwar MA,Kralj S,van der Maarel MJ,Dijkhuizen L

    更新日期:2008-06-01 00:00:00

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    pub_type: 杂志文章


    authors: Tunlid A,Hoitink HA,Low C,White DC

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    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章


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    pub_type: 杂志文章


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