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Volumn 33, Issue 2, 2017, Pages

Nitrogen fixing bacterial diversity in a tropical estuarine sediments

Author keywords

Clone library; N2 fixing bacteria; NifH; PCR RFLP analysis; Tropical estuary

Indexed keywords

BIOGEOCHEMISTRY; CLONING; ECOLOGY; ESTUARIES; GENES; NITROGEN FIXATION; PLANTS (BOTANY); POLYMERASE CHAIN REACTION; SULFUR COMPOUNDS; TROPICS;

EID: 85010661883     PISSN: 09593993     EISSN: 15730972     Source Type: Journal    
DOI: 10.1007/s11274-017-2205-x     Document Type: Article
Times cited : (33)

References (53)
  • 1
    • 84916233355 scopus 로고    scopus 로고
    • Marinobacterium mangrovicola sp. nov., a marine nitrogen-fixing bacterium isolated from mangrove roots of Rhizophora mangle
    • Alfaro-Espinoza G, Ullrich MS (2014) Marinobacterium mangrovicola sp. nov., a marine nitrogen-fixing bacterium isolated from mangrove roots of Rhizophora mangle. Int J Syst Evol Microbiol 64:3988–3993
    • (2014) Int J Syst Evol Microbiol , vol.64 , pp. 3988-3993
    • Alfaro-Espinoza, G.1    Ullrich, M.S.2
  • 2
    • 84906337670 scopus 로고    scopus 로고
    • Diversity of nitrogen-fixing bacteria associated with switchgrass in the native tallgrass prairie of northern Oklahoma
    • Bahulikar RA, Torres-Jerez I, Worley E, Craven K, Udvardi MK (2014) Diversity of nitrogen-fixing bacteria associated with switchgrass in the native tallgrass prairie of northern Oklahoma. Appl Environ Microbiol 80:5636–5643
    • (2014) Appl Environ Microbiol , vol.80 , pp. 5636-5643
    • Bahulikar, R.A.1    Torres-Jerez, I.2    Worley, E.3    Craven, K.4    Udvardi, M.K.5
  • 3
    • 84940853212 scopus 로고    scopus 로고
    • Genomics and ecophysiology of heterotrophic nitrogen-fixing bacteria isolated from estuarine surface water
    • Bentzon-Tilia M, Severin I, Hansen LH, Riemann L (2015a) Genomics and ecophysiology of heterotrophic nitrogen-fixing bacteria isolated from estuarine surface water. Mbio 6:00919–00929
    • (2015) Mbio , vol.6 , pp. 00919-00929
    • Bentzon-Tilia, M.1    Severin, I.2    Hansen, L.H.3    Riemann, L.4
  • 5
    • 84874603424 scopus 로고    scopus 로고
    • Occurrence of benthic microbial nitrogen fixation coupled to sulfate reduction in the seasonally hypoxic Eckernforde Bay, Baltic Sea
    • COI: 1:CAS:528:DC%2BC2cXltlCmtLY%3
    • Bertics VJ, Loscher C, Salonen I, Dale AW, Gier J, Schmitz R, Treude T (2013) Occurrence of benthic microbial nitrogen fixation coupled to sulfate reduction in the seasonally hypoxic Eckernforde Bay, Baltic Sea. Biogeosciences 10:1243–1258
    • (2013) Biogeosciences , vol.10 , pp. 1243-1258
    • Bertics, V.J.1    Loscher, C.2    Salonen, I.3    Dale, A.W.4    Gier, J.5    Schmitz, R.6    Treude, T.7
  • 6
    • 84952979173 scopus 로고    scopus 로고
    • Nitrogen uptake dynamics in a tropical eutrophic estuary (Cochin, India) and adjacent coastal waters
    • Bhavya PS, Kumar S, Gupta GVM, Sudheesh V, Sudharma KV (2016) Nitrogen uptake dynamics in a tropical eutrophic estuary (Cochin, India) and adjacent coastal waters. Estuar Coast 39:54–67
    • (2016) Estuar Coast , vol.39 , pp. 54-67
    • Bhavya, P.S.1    Kumar, S.2    Gupta, G.V.M.3    Sudheesh, V.4    Sudharma, K.V.5
  • 7
    • 17444431237 scopus 로고    scopus 로고
    • Spatial distribution and transcriptional activity of an uncultured clade of planktonic diazotrophic γ-Proteobacteria in the Arabian Sea
    • COI: 1:CAS:528:DC%2BD2MXjsVOqu7g%3
    • Bird C, Martinez JM, O’Donnell AG, Wyman M (2005) Spatial distribution and transcriptional activity of an uncultured clade of planktonic diazotrophic γ-Proteobacteria in the Arabian Sea. Appl Environ Microb 71:2079–2085
    • (2005) Appl Environ Microb , vol.71 , pp. 2079-2085
    • Bird, C.1    Martinez, J.M.2    O’Donnell, A.G.3    Wyman, M.4
  • 8
    • 85010646918 scopus 로고    scopus 로고
    • CANOCO reference manual and user’s guide to Canoco for Windows: Software for Canonical Community Ordination (version 4) Centre for Biometry
    • Braak CT, Smilauer P (1998) CANOCO reference manual and user’s guide to Canoco for Windows: Software for Canonical Community Ordination (version 4) Centre for Biometry, Wageningen
    • (1998) Wageningen
    • Braak, C.T.1    Smilauer, P.2
  • 9
    • 84907865448 scopus 로고    scopus 로고
    • Profiling gene expression to distinguish the likely active diazotrophs from a sea of genetic potential in marine sediments
    • COI: 1:CAS:528:DC%2BC2cXhslCqtLr
    • Brown SM, Jenkins BD (2014) Profiling gene expression to distinguish the likely active diazotrophs from a sea of genetic potential in marine sediments. Environ Microbiol 16:3128–3142
    • (2014) Environ Microbiol , vol.16 , pp. 3128-3142
    • Brown, S.M.1    Jenkins, B.D.2
  • 11
    • 0036835633 scopus 로고    scopus 로고
    • Nitrogen-fixing phylotypes of Chesapeake Bay and Neuse River estuary sediments
    • COI: 1:CAS:528:DC%2BD38XpsV2iur0%3
    • Burns JA, Zehr JP, Capone DG (2002) Nitrogen-fixing phylotypes of Chesapeake Bay and Neuse River estuary sediments. Microb Ecol 44:336–343
    • (2002) Microb Ecol , vol.44 , pp. 336-343
    • Burns, J.A.1    Zehr, J.P.2    Capone, D.G.3
  • 12
    • 84898868297 scopus 로고    scopus 로고
    • Bacterial communities and species-specific associations with the mucus of Brazilian coral species
    • Carlos C, Torres TT, Ottoboni LM (2013) Bacterial communities and species-specific associations with the mucus of Brazilian coral species. Sci Rep 3:1–7
    • (2013) Sci Rep , vol.3 , pp. 1-7
    • Carlos, C.1    Torres, T.T.2    Ottoboni, L.M.3
  • 14
    • 34248147508 scopus 로고    scopus 로고
    • – 1 vs the concept of homeostasis in the fixed-nitrogen inventory
    • COI: 1:CAS:528:DC%2BD2sXnvVeqsbg%3
    • – 1 vs the concept of homeostasis in the fixed-nitrogen inventory. Biogeosciences 4:233–253
    • (2007) Biogeosciences , vol.4 , pp. 233-253
    • Codispoti, L.A.1
  • 15
    • 27444435083 scopus 로고    scopus 로고
    • Isolation and identification of nitrogen-fixing bacilli from plant rhizospheres in Beijing region
    • COI: 1:CAS:528:DC%2BD2MXht1elu7%2F
    • Ding Y, Wang J, Liu Y, Chen S (2005) Isolation and identification of nitrogen-fixing bacilli from plant rhizospheres in Beijing region. J Appl Microbiol 99:1271–1281
    • (2005) J Appl Microbiol , vol.99 , pp. 1271-1281
    • Ding, Y.1    Wang, J.2    Liu, Y.3    Chen, S.4
  • 16
    • 84860375761 scopus 로고    scopus 로고
    • Distribution of nitrogen fixation and nitrogenase-like sequences amongst microbial genomes
    • COI: 1:CAS:528:DC%2BC38XhsFOrs7z
    • Dos Santos PC, Fang Z, Mason SW, Setubal JC, Dixon R (2012) Distribution of nitrogen fixation and nitrogenase-like sequences amongst microbial genomes. BMC Genomics 13:162
    • (2012) BMC Genomics , vol.13 , pp. 162
    • Dos Santos, P.C.1    Fang, Z.2    Mason, S.W.3    Setubal, J.C.4    Dixon, R.5
  • 17
    • 58149093894 scopus 로고    scopus 로고
    • High diversity of diazotrophs in the forefield of a receding alpine glacier
    • Duc L, Noll M, Meier BE, Burgmann H, Zeyer J (2009) High diversity of diazotrophs in the forefield of a receding alpine glacier. Microb Ecol 57:179–190
    • (2009) Microb Ecol , vol.57 , pp. 179-190
    • Duc, L.1    Noll, M.2    Meier, B.E.3    Burgmann, H.4    Zeyer, J.5
  • 18
    • 84963107710 scopus 로고
    • The determination of organic carbon in marine muds
    • COI: 1:CAS:528:DyaG1MXht1yks70%3
    • El Wakeel SK, Riley JP (1957) The determination of organic carbon in marine muds. J Cons Int Explor Mer 22:180–183
    • (1957) J Cons Int Explor Mer , vol.22 , pp. 180-183
    • El Wakeel, S.K.1    Riley, J.P.2
  • 20
    • 31444447130 scopus 로고    scopus 로고
    • The diversity and biogeography of soil bacterial communities
    • COI: 1:CAS:528:DC%2BD28XhtVOiurY%3
    • Fierer N, Jackson RB (2006) The diversity and biogeography of soil bacterial communities. P Natl Acad Sci USA 103:626–631
    • (2006) P Natl Acad Sci USA , vol.103 , pp. 626-631
    • Fierer, N.1    Jackson, R.B.2
  • 22
    • 0000803388 scopus 로고
    • The population frequencies of species and the estimation of population parameters
    • Good IJ (1953) The population frequencies of species and the estimation of population parameters. Biometrika 40:237–264
    • (1953) Biometrika , vol.40 , pp. 237-264
    • Good, I.J.1
  • 23
    • 78650946023 scopus 로고    scopus 로고
    • Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities
    • He Z, Van Nostrand JD, Deng Y, Zhou J (2011) Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities. Front Environ Sci Eng China 5:1–20
    • (2011) Front Environ Sci Eng China , vol.5 , pp. 1-20
    • He, Z.1    Van Nostrand, J.D.2    Deng, Y.3    Zhou, J.4
  • 24
    • 33745491299 scopus 로고    scopus 로고
    • Distribution of extensive nifH gene diversity across physical soil microenvironments
    • Izquierdo JA, Nusslein K (2006) Distribution of extensive nifH gene diversity across physical soil microenvironments. Microb Ecolo 51:441–452
    • (2006) Microb Ecolo , vol.51 , pp. 441-452
    • Izquierdo, J.A.1    Nusslein, K.2
  • 25
    • 77954244393 scopus 로고    scopus 로고
    • NifH gene diversity and expression in a microbial mat community on the McMurdo Ice Shelf, Antarctica
    • Jungblut AD, Neilan BA (2010) NifH gene diversity and expression in a microbial mat community on the McMurdo Ice Shelf, Antarctica. Antarct Sci 22:117–122
    • (2010) Antarct Sci , vol.22 , pp. 117-122
    • Jungblut, A.D.1    Neilan, B.A.2
  • 26
    • 84871619847 scopus 로고    scopus 로고
    • Diversity of nifH gene in rhizosphere and non-rhizosphere soil of tobacco in Panzhihua, China
    • Li X, Penttinen P, Gu Y, Zhang X (2012) Diversity of nifH gene in rhizosphere and non-rhizosphere soil of tobacco in Panzhihua, China. Ann Microbiol 62:995–1001
    • (2012) Ann Microbiol , vol.62 , pp. 995-1001
    • Li, X.1    Penttinen, P.2    Gu, Y.3    Zhang, X.4
  • 29
    • 0033817125 scopus 로고    scopus 로고
    • Hydrobiology of the Cochin backwater system–a review
    • COI: 1:CAS:528:DC%2BD3cXmvVaktbw%3
    • Menon NN, Balchand AN, Menon NR (2000) Hydrobiology of the Cochin backwater system–a review. Hydrobiologia 430:149–183
    • (2000) Hydrobiologia , vol.430 , pp. 149-183
    • Menon, N.N.1    Balchand, A.N.2    Menon, N.R.3
  • 30
    • 35348845093 scopus 로고    scopus 로고
    • Phosphorus limitation and diel control of nitrogen-fixing cyanobacteria in the Baltic Sea
    • COI: 1:CAS:528:DC%2BD2sXht1yhtrf
    • Moisander PH, Paerl HW, Dyble J, Sivonen K (2007) Phosphorus limitation and diel control of nitrogen-fixing cyanobacteria in the Baltic Sea. Mar Ecol Prog Ser 345:41–50
    • (2007) Mar Ecol Prog Ser , vol.345 , pp. 41-50
    • Moisander, P.H.1    Paerl, H.W.2    Dyble, J.3    Sivonen, K.4
  • 32
    • 84957598945 scopus 로고    scopus 로고
    • Molecular evidence for sediment nitrogen fixation in a temperate New England estuary
    • Newell SE, Pritchard KR, Foster SQ, Fulweiler RW (2016) Molecular evidence for sediment nitrogen fixation in a temperate New England estuary. PeerJ 4:e1615
    • (2016) PeerJ , vol.4
    • Newell, S.E.1    Pritchard, K.R.2    Foster, S.Q.3    Fulweiler, R.W.4
  • 33
    • 0000159756 scopus 로고
    • Use of “specific” inhibitors in biogeochemistry and microbial ecology
    • COI: 1:CAS:528:DyaL1MXhs12rt7s%3
    • Oremland RS, Capone DG (1988) Use of “specific” inhibitors in biogeochemistry and microbial ecology. Adv Microb Ecol 10:285–383
    • (1988) Adv Microb Ecol , vol.10 , pp. 285-383
    • Oremland, R.S.1    Capone, D.G.2
  • 34
    • 85010691763 scopus 로고    scopus 로고
    • Indian estuaries (Allied publication Pvt. Ltd
    • Ballard estate, Mumba
    • Qasim S (2003) Indian estuaries (Allied publication Pvt. Ltd. Heriedia Marg, Ballard estate, Mumbai)
    • (2003) Heriedia Marg
    • Qasim, S.1
  • 35
    • 85164264978 scopus 로고
    • Nomenclature based on sand-silt-clay ratios
    • Shepard FP (1954) Nomenclature based on sand-silt-clay ratios. J Sediment Res 24:151–158
    • (1954) J Sediment Res , vol.24 , pp. 151-158
    • Shepard, F.P.1
  • 36
    • 84910139119 scopus 로고    scopus 로고
    • Heterotrophic bacteria as major nitrogen fixers in the euphotic zone of the Indian Ocean
    • COI: 1:CAS:528:DC%2BC2cXhvFWnsLj
    • Shiozaki T, Ijichi M, Kodama T, Takeda S, Furuya K (2014) Heterotrophic bacteria as major nitrogen fixers in the euphotic zone of the Indian Ocean. Global Biogeochem Cycles 28:1096–1110
    • (2014) Global Biogeochem Cycles , vol.28 , pp. 1096-1110
    • Shiozaki, T.1    Ijichi, M.2    Kodama, T.3    Takeda, S.4    Furuya, K.5
  • 39
    • 84870516688 scopus 로고    scopus 로고
    • ‘Candidatus Ancillula trichonymphae’, a novel lineage of endosymbiotic Actinobacteria in termite gut flagellates of the genus Trichonympha
    • COI: 1:CAS:528:DC%2BC38Xhsl2lsrj
    • Strassert JF, Kohler T, Wienemann TH, Ikeda-Ohtsubo W, Faivre N, Franckenberg S, Plarre R, Radek R, Brune A (2012) ‘Candidatus Ancillula trichonymphae’, a novel lineage of endosymbiotic Actinobacteria in termite gut flagellates of the genus Trichonympha. Environ Microbiol 14:3259–3270
    • (2012) Environ Microbiol , vol.14 , pp. 3259-3270
    • Strassert, J.F.1    Kohler, T.2    Wienemann, T.H.3    Ikeda-Ohtsubo, W.4    Faivre, N.5    Franckenberg, S.6    Plarre, R.7    Radek, R.8    Brune, A.9
  • 40
    • 84897948567 scopus 로고    scopus 로고
    • Rheinheimera hassiensis sp. nov. and Rheinheimera muenzenbergensis sp. nov., two species from the rhizosphere of Hordeum secalinum
    • COI: 1:CAS:528:DC%2BC2cXhtlClsrn
    • Suarez C, Ratering S, Geissler-Plaum R, Schnell S (2014) Rheinheimera hassiensis sp. nov. and Rheinheimera muenzenbergensis sp. nov., two species from the rhizosphere of Hordeum secalinum. Int J Syst Evol Microbiol 64:1202–1209
    • (2014) Int J Syst Evol Microbiol , vol.64 , pp. 1202-1209
    • Suarez, C.1    Ratering, S.2    Geissler-Plaum, R.3    Schnell, S.4
  • 42
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0
    • COI: 1:CAS:528:DC%2BD2sXpsVGrsL8%3
    • Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599
    • (2007) Mol Biol Evol , vol.24 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 43
    • 84890330527 scopus 로고    scopus 로고
    • MEGA6: molecular evolutionary genetics analysis version 6.0
    • COI: 1:CAS:528:DC%2BC3sXhvVKhurz
    • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729
    • (2013) Mol Biol Evol , vol.30 , pp. 2725-2729
    • Tamura, K.1    Stecher, G.2    Peterson, D.3    Filipski, A.4    Kumar, S.5
  • 44
    • 0031574072 scopus 로고    scopus 로고
    • The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools
    • COI: 1:CAS:528:DyaK1cXntFyntQ%3D%3
    • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882
    • (1997) Nucleic Acids Res , vol.25 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 46
    • 0029982110 scopus 로고    scopus 로고
    • Seasonal variation in rates of heterotrophic nitrogen fixation (acetylene reduction) in Zostera noltii meadows and uncolonised sediments of the Bassin d’Arcachon, south-west France
    • Caumette P, (ed), Kluwer Academic Publishers, Londo
    • Welsh DT, Bourguès S, de Wit R, Herbert RA (1996) Seasonal variation in rates of heterotrophic nitrogen fixation (acetylene reduction) in Zostera noltii meadows and uncolonised sediments of the Bassin d’Arcachon, south-west France. In: Caumette P et al (eds) Coastal lagoon eutrophication and anaerobic processes (CLE AN). Kluwer Academic Publishers, London, pp 161–174
    • (1996) Coastal lagoon eutrophication and anaerobic processes (CLE AN) , pp. 161-174
    • Welsh, D.T.1    Bourguès, S.2    de Wit, R.3    Herbert, R.A.4
  • 47
    • 0001439525 scopus 로고
    • New types of acetate-oxidizing, sulfate-reducing Desulfobacter species, D. hydrogenophilus sp. nov., D. latus sp. nov., and D. curvatus sp. nov
    • COI: 1:CAS:528:DyaL2sXmtFCmtL4%3
    • Widdel F (1987) New types of acetate-oxidizing, sulfate-reducing Desulfobacter species, D. hydrogenophilus sp. nov., D. latus sp. nov., and D. curvatus sp. nov. Arch Microbiol 148:286–291
    • (1987) Arch Microbiol , vol.148 , pp. 286-291
    • Widdel, F.1
  • 48
    • 0033916012 scopus 로고    scopus 로고
    • Expression of nifH genes in natural microbial assemblages in Lake George, New York, detected by reverse transcriptase PCR
    • COI: 1:CAS:528:DC%2BD3cXkslKltb8%3
    • Zani S, Mellon MT, Collier JL, Zehr JP (2000) Expression of nifH genes in natural microbial assemblages in Lake George, New York, detected by reverse transcriptase PCR. Appl Environ Microbiol 66:3119–3124
    • (2000) Appl Environ Microbiol , vol.66 , pp. 3119-3124
    • Zani, S.1    Mellon, M.T.2    Collier, J.L.3    Zehr, J.P.4
  • 49
    • 0030303003 scopus 로고    scopus 로고
    • Problems and promises of assaying the genetic potential for nitrogen fixation in the marine environment
    • COI: 1:CAS:528:DyaK28XmtlymtLw%3
    • Zehr JP, Capone DG (1996) Problems and promises of assaying the genetic potential for nitrogen fixation in the marine environment. Microb Ecol 32:263–281
    • (1996) Microb Ecol , vol.32 , pp. 263-281
    • Zehr, J.P.1    Capone, D.G.2
  • 50
    • 0024746373 scopus 로고
    • Use of degenerate oligonucleotides for amplification of the nifH gene from the marine cyanobacterium Trichodesmium thiebautii
    • COI: 1:CAS:528:DyaL1MXlvVymsrk%3
    • Zehr JP, McReynolds LA (1989) Use of degenerate oligonucleotides for amplification of the nifH gene from the marine cyanobacterium Trichodesmium thiebautii. Appl Environ Microb 55:2522–2526
    • (1989) Appl Environ Microb , vol.55 , pp. 2522-2526
    • Zehr, J.P.1    McReynolds, L.A.2
  • 51
    • 0033955677 scopus 로고    scopus 로고
    • New perspectives on nitrogen-fixing microorganisms in tropical and subtropical oceans
    • COI: 1:STN:280:DC%2BD3c7jtVOktw%3D%3
    • Zehr JP, Carpenter EJ, Villareal TA (2000) New perspectives on nitrogen-fixing microorganisms in tropical and subtropical oceans. Trends Microbiol 8:68–73
    • (2000) Trends Microbiol , vol.8 , pp. 68-73
    • Zehr, J.P.1    Carpenter, E.J.2    Villareal, T.A.3
  • 52
    • 0038234799 scopus 로고    scopus 로고
    • Nitrogenase gene diversity and microbial community structure: a cross-system comparison
    • COI: 1:CAS:528:DC%2BD3sXlvFChs7s%3
    • Zehr JP, Jenkins BD, Short SM, Steward GF (2003) Nitrogenase gene diversity and microbial community structure: a cross-system comparison. Environ Microbiol 5:539–554
    • (2003) Environ Microbiol , vol.5 , pp. 539-554
    • Zehr, J.P.1    Jenkins, B.D.2    Short, S.M.3    Steward, G.F.4
  • 53
    • 33745536404 scopus 로고    scopus 로고
    • Molecular diversity of nitrogen-fixing bacteria from the Tibetan Plateau, China
    • COI: 1:CAS:528:DC%2BD28XnsVeisL8%3
    • Zhang Y, Li D, Wang H, Xiao Q, Liu X (2006) Molecular diversity of nitrogen-fixing bacteria from the Tibetan Plateau, China. FEMS Microbiol Lett 260:134–142
    • (2006) FEMS Microbiol Lett , vol.260 , pp. 134-142
    • Zhang, Y.1    Li, D.2    Wang, H.3    Xiao, Q.4    Liu, X.5


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