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Volumn 49, Issue 3, 2013, Pages 351-361

Cattle impact on composition of archaeal, bacterial, and fungal communities by comparative fingerprinting of total and extracellular DNA

Author keywords

Cattle impact; Excrement; Soil microbial community; SSU rRNA gene DGGE; Total and extracellular DNA

Indexed keywords

BACTERIUM; BIOMASS; CATTLE; COMPARATIVE STUDY; DNA FINGERPRINTING; ELECTROKINESIS; FUNGUS; GRASSLAND; MICROBIAL ACTIVITY; MICROBIAL COMMUNITY; OVERWINTERING; PROKARYOTE; SOIL MICROORGANISM;

EID: 84875228837     PISSN: 01782762     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00374-012-0726-x     Document Type: Article
Times cited : (18)

References (52)
  • 1
    • 1842812502 scopus 로고    scopus 로고
    • Distribution of microbial communities in a forest soil profile investigated by microbial biomass, soil respiration and DGGE of total and extracellular DNA
    • Agnelli A, Ascher J, Corti G, Ceccherini MT, Nannipieri P, Pietramellara G (2004) Distribution of microbial communities in a forest soil profile investigated by microbial biomass, soil respiration and DGGE of total and extracellular DNA. Soil Biol Biochem 36: 859-868.
    • (2004) Soil Biol Biochem , vol.36 , pp. 859-868
    • Agnelli, A.1    Ascher, J.2    Corti, G.3    Ceccherini, M.T.4    Nannipieri, P.5    Pietramellara, G.6
  • 4
    • 60549116477 scopus 로고    scopus 로고
    • Composition, biomass and activity of micro-flora, and leaf yields and foliar elemental concentrations of lettuce, after in situ stabilization of an arsenic-contaminated soil
    • Ascher J, Ceccherini MT, Landi L, Mench M, Pietramellara G, Nannipieri P, Renella G (2009b) Composition, biomass and activity of micro-flora, and leaf yields and foliar elemental concentrations of lettuce, after in situ stabilization of an arsenic-contaminated soil. Appl Soil Ecol 41: 351-359.
    • (2009) Appl Soil Ecol , vol.41 , pp. 351-359
    • Ascher, J.1    Ceccherini, M.T.2    Landi, L.3    Mench, M.4    Pietramellara, G.5    Nannipieri, P.6    Renella, G.7
  • 5
    • 76349125984 scopus 로고    scopus 로고
    • Global ecological patterns in uncultured Archaea
    • Auguet JC, Barberan A, Casamayor EO (2010) Global ecological patterns in uncultured Archaea. ISME J 4: 182-190.
    • (2010) ISME J , vol.4 , pp. 182-190
    • Auguet, J.C.1    Barberan, A.2    Casamayor, E.O.3
  • 6
    • 51649088022 scopus 로고    scopus 로고
    • Piggery manure used for soil fertilization is a reservoir for transferable antibiotic resistance plasmids
    • Bihn CTT, Heuer H, Kaupenjohann M, Smalla K (2008) Piggery manure used for soil fertilization is a reservoir for transferable antibiotic resistance plasmids. FEMS Microbiol Ecol 66: 25-37.
    • (2008) FEMS Microbiol Ecol , vol.66 , pp. 25-37
    • Bihn, C.T.T.1    Heuer, H.2    Kaupenjohann, M.3    Smalla, K.4
  • 13
    • 4444222910 scopus 로고    scopus 로고
    • Evolution of the methane cycle in Ace Lake (Antarctica) during the Holocene: response of methanogens and methanotrophs to environmental change
    • Coolen MJL, Hopmans EC, Rijpstra WIC, Muyzer G, Schoulen S, Volkman JK, Damsté JSS (2004) Evolution of the methane cycle in Ace Lake (Antarctica) during the Holocene: response of methanogens and methanotrophs to environmental change. Org Geochem 35: 1151-1167.
    • (2004) Org Geochem , vol.35 , pp. 1151-1167
    • Coolen, M.J.L.1    Hopmans, E.C.2    Rijpstra, W.I.C.3    Muyzer, G.4    Schoulen, S.5    Volkman, J.K.6    Damsté, J.S.S.7
  • 14
    • 50049114397 scopus 로고    scopus 로고
    • Damage and degradation rates of extracellular DNA in marine sediemnts: implications for the preservation of gene sequeces
    • Corinaldesi C, Beolchini F, Dell'Anno A (2008) Damage and degradation rates of extracellular DNA in marine sediemnts: implications for the preservation of gene sequeces. Mol Ecol 17: 3939-3951.
    • (2008) Mol Ecol , vol.17 , pp. 3939-3951
    • Corinaldesi, C.1    Beolchini, F.2    Dell'Anno, A.3
  • 15
    • 14644403101 scopus 로고    scopus 로고
    • Microbial horizontal gene transfer and the DNA release from transgenic crop plants
    • de Vries J, Wackernagel W (2004) Microbial horizontal gene transfer and the DNA release from transgenic crop plants. Plant Soil 266: 91-104.
    • (2004) Plant Soil , vol.266 , pp. 91-104
    • de Vries, J.1    Wackernagel, W.2
  • 17
    • 67649118279 scopus 로고    scopus 로고
    • The α-Proteobacteria: the Darwin finches of the bacterial world
    • Ettema TJG, Andersson SGE (2009) The α-Proteobacteria: the Darwin finches of the bacterial world. Biol Lett 5: 429-432.
    • (2009) Biol Lett , vol.5 , pp. 429-432
    • Ettema, T.J.G.1    Andersson, S.G.E.2
  • 18
    • 0016716231 scopus 로고
    • DNA release as a direct measure of microbial killing I. Serum bactericidal activity
    • Friedlander AM (1975) DNA release as a direct measure of microbial killing I. Serum bactericidal activity. J Immunol 115: 1404-1408.
    • (1975) J Immunol , vol.115 , pp. 1404-1408
    • Friedlander, A.M.1
  • 19
    • 0037338334 scopus 로고    scopus 로고
    • Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils
    • Girvan MS, Bullimore J, Pretty JN, Osborn AM, Ball AS (2003) Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils. Appl Environ Microbiol 69: 1800-1809.
    • (2003) Appl Environ Microbiol , vol.69 , pp. 1800-1809
    • Girvan, M.S.1    Bullimore, J.2    Pretty, J.N.3    Osborn, A.M.4    Ball, A.S.5
  • 20
    • 80051702824 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis (DGGE) for microbial community analysis
    • K. N. Timmis (Ed.), Heidelberg: Springer
    • Green SJ, Leigh MB, Neufeld JD (2009) Denaturing gradient gel electrophoresis (DGGE) for microbial community analysis. In: Timmis KN (ed) Handbook of hydrocarbon and lipid microbiology. Springer, Heidelberg, pp 4137-4158.
    • (2009) Handbook of Hydrocarbon and Lipid Microbiology , pp. 4137-4158
    • Green, S.J.1    Leigh, M.B.2    Neufeld, J.D.3
  • 21
    • 0842309183 scopus 로고    scopus 로고
    • Persistence of DNA of Gaeumannomyces graminis var. tritici in soil as measured by a DNA-based assay
    • Herdina NS, Jabaji-Hare S, Ophel-Keller K (2004) Persistence of DNA of Gaeumannomyces graminis var. tritici in soil as measured by a DNA-based assay. FEMS Microbiol Ecol 47: 143-152.
    • (2004) FEMS Microbiol Ecol , vol.47 , pp. 143-152
    • Herdina, N.S.1    Jabaji-Hare, S.2    Ophel-Keller, K.3
  • 22
    • 33846864714 scopus 로고    scopus 로고
    • High fluxes but different patterns of nitrous oxide and carbon dioxide emissions from soil in a cattle overwintering area
    • Hynšt J, Šimek M, Brůček P, Petersen SO (2007) High fluxes but different patterns of nitrous oxide and carbon dioxide emissions from soil in a cattle overwintering area. Agr Ecosys Environ 120: 269-279.
    • (2007) Agr Ecosys Environ , vol.120 , pp. 269-279
    • Hynšt, J.1    Šimek, M.2    Brůček, P.3    Petersen, S.O.4
  • 23
    • 45749140542 scopus 로고    scopus 로고
    • Structure of archaeal community of the rumen
    • Janssen HP, Kirs M (2008) Structure of archaeal community of the rumen. Appl Environ Microbiol 74: 3619-3625.
    • (2008) Appl Environ Microbiol , vol.74 , pp. 3619-3625
    • Janssen, H.P.1    Kirs, M.2
  • 24
    • 78751578873 scopus 로고    scopus 로고
    • Inputs of nitrogen and organic matter govern the composition of fungal communities in soil disturbed by overwintering cattle
    • Jirout J, Šimek M, Elhottová D (2011) Inputs of nitrogen and organic matter govern the composition of fungal communities in soil disturbed by overwintering cattle. Soil Biol Biochem 43: 647-656.
    • (2011) Soil Biol Biochem , vol.43 , pp. 647-656
    • Jirout, J.1    Šimek, M.2    Elhottová, D.3
  • 25
    • 36849090593 scopus 로고    scopus 로고
    • Natural genetic transformation: prevalence, mechanisms and function
    • Johnsborg O, Eldholm V, Håvarstein S (2007) Natural genetic transformation: prevalence, mechanisms and function. Res Microbiol 158: 767-778.
    • (2007) Res Microbiol , vol.158 , pp. 767-778
    • Johnsborg, O.1    Eldholm, V.2    Håvarstein, S.3
  • 26
    • 79952337786 scopus 로고    scopus 로고
    • Status of the phylogenetic diversity census of ruminal microbiomes
    • Kim M, Morrison M, Yu Z (2011) Status of the phylogenetic diversity census of ruminal microbiomes. FEMS Microbiol Ecol 76: 49-63.
    • (2011) FEMS Microbiol Ecol , vol.76 , pp. 49-63
    • Kim, M.1    Morrison, M.2    Yu, Z.3
  • 27
    • 57149085868 scopus 로고    scopus 로고
    • Genomics of bacteria and Archaea: the emerging dynamic view of the prokaryotic world
    • Koonin EV, Wolf YI (2008) Genomics of bacteria and Archaea: the emerging dynamic view of the prokaryotic world. Nucleic Acids Res 36: 6688-6719.
    • (2008) Nucleic Acids Res , vol.36 , pp. 6688-6719
    • Koonin, E.V.1    Wolf, Y.I.2
  • 29
    • 0033928875 scopus 로고    scopus 로고
    • Application of polymerase chain reaction denaturing gradient gel electrophoresis for comparison of direct and indirect extraction methods of soil DNA used for microbial community fingerprinting
    • Kozdrój J, van Elsas DJ (2000) Application of polymerase chain reaction denaturing gradient gel electrophoresis for comparison of direct and indirect extraction methods of soil DNA used for microbial community fingerprinting. Biol Fert Soil 31: 372-378.
    • (2000) Biol Fert Soil , vol.31 , pp. 372-378
    • Kozdrój, J.1    van Elsas, D.J.2
  • 30
    • 70449090074 scopus 로고    scopus 로고
    • Soil pH regulates the abundance and diversity of group 1.1c Crenarchaeota
    • Lehtovirta LE, Prosser JI, Nicol GW (2009) Soil pH regulates the abundance and diversity of group 1. 1c Crenarchaeota. FEMS Microb Ecol 70: 367-376.
    • (2009) FEMS Microb Ecol , vol.70 , pp. 367-376
    • Lehtovirta, L.E.1    Prosser, J.I.2    Nicol, G.W.3
  • 33
    • 0032783338 scopus 로고    scopus 로고
    • Extractable dsDNA and product formation as measures of microbial growth in soil upon substrate addition
    • Marstorp H, Witter E (1999) Extractable dsDNA and product formation as measures of microbial growth in soil upon substrate addition. Soil Biol Biochem 31: 1443-1453.
    • (1999) Soil Biol Biochem , vol.31 , pp. 1443-1453
    • Marstorp, H.1    Witter, E.2
  • 34
    • 0032948541 scopus 로고    scopus 로고
    • Changes in DNA content and cellular death during a starvation-survival process of Escherichia coli in river water
    • Muella A, Arana I, Justo JI, Seco C, Barcina I (1999) Changes in DNA content and cellular death during a starvation-survival process of Escherichia coli in river water. Microb Ecol 37: 62-69.
    • (1999) Microb Ecol , vol.37 , pp. 62-69
    • Muella, A.1    Arana, I.2    Justo, J.I.3    Seco, C.4    Barcina, I.5
  • 35
    • 79951926011 scopus 로고    scopus 로고
    • Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils
    • Nacke H, Thürmer A, Wollherr A, Will C, Hodac L, Herold N, Schöning I, Schrupf M, Daniel R (2011) Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils. PLoS One 6: e17000.
    • (2011) PLoS One , vol.6
    • Nacke, H.1    Thürmer, A.2    Wollherr, A.3    Will, C.4    Hodac, L.5    Herold, N.6    Schöning, I.7    Schrupf, M.8    Daniel, R.9
  • 36
    • 0037008836 scopus 로고    scopus 로고
    • Aerobiosis increases the genomic guanine plus cytosine content (GC%) in prokaryotes
    • Naya H, Romero H, Zavala A, Alvarez B, Musto H (2002) Aerobiosis increases the genomic guanine plus cytosine content (GC%) in prokaryotes. J Mol Evol 55: 260-264.
    • (2002) J Mol Evol , vol.55 , pp. 260-264
    • Naya, H.1    Romero, H.2    Zavala, A.3    Alvarez, B.4    Musto, H.5
  • 37
    • 0037345250 scopus 로고    scopus 로고
    • The impact of grassland management on archaeal community structure in upland pasture rhizosphere soil
    • Nicol GW, Glover LA, Prosser JI (2003) The impact of grassland management on archaeal community structure in upland pasture rhizosphere soil. Environ Microbiol 5: 152-162.
    • (2003) Environ Microbiol , vol.5 , pp. 152-162
    • Nicol, G.W.1    Glover, L.A.2    Prosser, J.I.3
  • 39
    • 0029796310 scopus 로고    scopus 로고
    • Sequence heterogeneities of genes encoding 16 S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis
    • Nübel U, Engelen B, Felske A, Snaidr J, Wieshuber A, Amann RI, Ludwig W, Backhaus H (1996) Sequence heterogeneities of genes encoding 16 S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis. J Bacteriol 178: 5636-5643.
    • (1996) J Bacteriol , vol.178 , pp. 5636-5643
    • Nübel, U.1    Engelen, B.2    Felske, A.3    Snaidr, J.4    Wieshuber, A.5    Amann, R.I.6    Ludwig, W.7    Backhaus, H.8
  • 40
    • 0002848450 scopus 로고    scopus 로고
    • The rumen anaerobic fungi
    • P. N. Hobson and C. S. Steward (Eds.), London: Chapman & Hall
    • Orpin CG, Joblin KN (1997) The rumen anaerobic fungi. In: Hobson PN, Steward CS (eds) The rumen microbial ecosystem. Chapman & Hall, London, pp 140-195.
    • (1997) The Rumen Microbial Ecosystem , pp. 140-195
    • Orpin, C.G.1    Joblin, K.N.2
  • 41
    • 0028072252 scopus 로고
    • On the track of natural transformation in soil
    • Paget E, Simonet P (1994) On the track of natural transformation in soil. FEMS Microbiol Ecol 15: 109-118.
    • (1994) FEMS Microbiol Ecol , vol.15 , pp. 109-118
    • Paget, E.1    Simonet, P.2
  • 42
    • 79959289950 scopus 로고    scopus 로고
    • The Thaumarchaeota: an emerging view of their phylogeny and ecophysiology
    • Pester M, Schleper C, Wagner M (2011) The Thaumarchaeota: an emerging view of their phylogeny and ecophysiology. Curr Opin Microbiol 14: 300-306.
    • (2011) Curr Opin Microbiol , vol.14 , pp. 300-306
    • Pester, M.1    Schleper, C.2    Wagner, M.3
  • 43
    • 71249135203 scopus 로고    scopus 로고
    • Spatial patterns of bacterial taxa in nature reflect ecological traits of deep branches of the 16 S rRNA bacterial tree
    • Philippot L, Bru D, Saby NPA, Čuhel J, Arrouyas D, Šimek M, Hallin S (2009) Spatial patterns of bacterial taxa in nature reflect ecological traits of deep branches of the 16 S rRNA bacterial tree. Environ Microbiol 11: 3096-3104.
    • (2009) Environ Microbiol , vol.11 , pp. 3096-3104
    • Philippot, L.1    Bru, D.2    Saby, N.P.A.3    Čuhel, J.4    Arrouyas, D.5    Šimek, M.6    Hallin, S.7
  • 44
    • 33745787719 scopus 로고    scopus 로고
    • Persistence of transgenic and not transgenic extracellular DNA in soil and bacterial transformation
    • Pietramellara G, Ceccherini MT, Ascher J, Nannipieri P (2006) Persistence of transgenic and not transgenic extracellular DNA in soil and bacterial transformation. Riv Biol 99: 37-68.
    • (2006) Riv Biol , vol.99 , pp. 37-68
    • Pietramellara, G.1    Ceccherini, M.T.2    Ascher, J.3    Nannipieri, P.4
  • 47
    • 53149111487 scopus 로고    scopus 로고
    • Strategies for accessing soil metagenome for desired applications
    • Rajendhran J, Gunasekaran P (2008) Strategies for accessing soil metagenome for desired applications. Biotechnol Adv 26: 576-590.
    • (2008) Biotechnol Adv , vol.26 , pp. 576-590
    • Rajendhran, J.1    Gunasekaran, P.2
  • 48
    • 0027427692 scopus 로고
    • Kinetics of persistence of chromosomal DNA from genetically engineered Escherichia coli introduced into soil
    • Recorbet G, Picard C, Normand P, Simonet P (1993) Kinetics of persistence of chromosomal DNA from genetically engineered Escherichia coli introduced into soil. Appl Environ Microbiol 59: 4289-4294.
    • (1993) Appl Environ Microbiol , vol.59 , pp. 4289-4294
    • Recorbet, G.1    Picard, C.2    Normand, P.3    Simonet, P.4
  • 49
    • 0033824163 scopus 로고    scopus 로고
    • Direct analysis of wood-inhabiting fungi using denaturing gradient gel electrophoresis of amplified ribosomal DNA
    • Vainio EJ, Hantula J (2000) Direct analysis of wood-inhabiting fungi using denaturing gradient gel electrophoresis of amplified ribosomal DNA. Mycol Res 104: 927-936.
    • (2000) Mycol Res , vol.104 , pp. 927-936
    • Vainio, E.J.1    Hantula, J.2
  • 50
    • 0023488186 scopus 로고
    • An extraction method for measuring soil microbial biomass C
    • Vance ED, Brookes PC, Jenkinson DS (1987) An extraction method for measuring soil microbial biomass C. Soil Biol Biochem 19: 703-707.
    • (1987) Soil Biol Biochem , vol.19 , pp. 703-707
    • Vance, E.D.1    Brookes, P.C.2    Jenkinson, D.S.3
  • 51
    • 33745788375 scopus 로고    scopus 로고
    • The various sources and the fate of nucleic acids in soil
    • P. Nannipieri and K. Smalla (Eds.), Berlin: Springer
    • Wackernagel W (2006) The various sources and the fate of nucleic acids in soil. In: Nannipieri P, Smalla K (eds) Nucleic acids and proteins in soil. Springer, Berlin, pp 117-139.
    • (2006) Nucleic Acids and Proteins in Soil , pp. 117-139
    • Wackernagel, W.1
  • 52
    • 0028995599 scopus 로고
    • 2) as a bioindicator of disturbance and ecosystem development
    • 2) as a bioindicator of disturbance and ecosystem development. Soil Biol Biochem 27: 1601-1610.
    • (1995) Soil Biol Biochem , vol.27 , pp. 1601-1610
    • Wardle, D.A.1    Ghani, A.2


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