-
1
-
-
0344011969
-
Biological activity in the deep subsurface and the origin of heavy oil
-
Head IM, Jones DM, Larter SR. 2003. Biological activity in the deep subsurface and the origin of heavy oil. Nature 426:344–352. http://dx.doi.org/10.1038/nature02134.
-
(2003)
Nature
, vol.426
, pp. 344-352
-
-
Head, I.M.1
Jones, D.M.2
Larter, S.R.3
-
2
-
-
38049143952
-
Crude-oil biodegradation via methanogenesis in subsurface petroleum reservoirs
-
Jones DM, Head IM, Gray ND, Adams JJ, Rowan AK, Aitken CM, Bennett B, Huang H, Brown A, Bowler BF, Oldenburg T, Erdmann M, Larter SR. 2008. Crude-oil biodegradation via methanogenesis in subsurface petroleum reservoirs. Nature 451:176–U176. http://dx.doi.org/10.1038/Nature06484.
-
(2008)
Nature
, vol.451
, pp. U176-U176
-
-
Jones, D.M.1
Head, I.M.2
Gray, N.D.3
Adams, J.J.4
Rowan, A.K.5
Aitken, C.M.6
Bennett, B.7
Huang, H.8
Brown, A.9
Bowler, B.F.10
Oldenburg, T.11
Erdmann, M.12
Larter, S.R.13
-
3
-
-
4644280496
-
Anaerobic hydrocarbon biodegradation in deep subsurface oil reservoirs
-
Aitken CM, Jones DM, Larter SR. 2004. Anaerobic hydrocarbon biodegradation in deep subsurface oil reservoirs. Nature 431:291–294. http://dx.doi.org/10.1038/Nature02922.
-
(2004)
Nature
, vol.431
, pp. 291-294
-
-
Aitken, C.M.1
Jones, D.M.2
Larter, S.R.3
-
4
-
-
33746086811
-
Biodegradation of petroleum in subsurface geological reservoirs
-
In Ollivier B, Magot M (ed), ASM Press, Washington, DC
-
Huang H, Larter S. 2005. Biodegradation of petroleum in subsurface geological reservoirs, p 91–121. In Ollivier B, Magot M (ed), Petroleum biology. ASM Press, Washington, DC.
-
(2005)
Petroleum Biology
, pp. 91-121
-
-
Huang, H.1
Larter, S.2
-
5
-
-
77954298112
-
Hydrocarbon degradation in petroleum reservoirs
-
In Timmis KN, Spring-Verlag, Berlin, Germany
-
Head IM, Larter SR, Gray ND, Sherry A, Adams JJ, Aitken CM, Jones DM, Rowan AK, Huang H, Roling WFM. 2010. Hydrocarbon degradation in petroleum reservoirs, p 3097–3109. In Timmis KN (ed), Handbook of hydrocarbon and lipid microbiology. Spring-Verlag, Berlin, Germany.
-
(2010)
Handbook of Hydrocarbon and Lipid Microbiology
, pp. 3097-3109
-
-
Head, I.M.1
Larter, S.R.2
Gray, N.D.3
Sherry, A.4
Adams, J.J.5
Aitken, C.M.6
Jones, D.M.7
Rowan, A.K.8
Huang, H.9
Roling, W.F.M.10
-
6
-
-
0021729228
-
Biodegradation of crude oils in reservoirs
-
In Brooks J, Welte J, Academic Press, London, United Kingdom
-
Connan J. 1984. Biodegradation of crude oils in reservoirs, p 299–335. In Brooks J, Welte J (ed), Advances in petroleum geochemistry, vol. 1. Academic Press, London, United Kingdom.
-
(1984)
Advances in Petroleum Geochemistry
, vol.1
, pp. 299-335
-
-
Connan, J.1
-
7
-
-
79960354818
-
A comparative genomic analysis of energy metabolism in sulfate reducing bacteria and archaea
-
Pereira IA, Ramos AR, Grein F, Marques MC, da Silva SM, Venceslau SS. 2011. A comparative genomic analysis of energy metabolism in sulfate reducing bacteria and archaea. Front Microbiol 2:69. http://dx.doi.org/10.3389/Fmicb.2011.00069.
-
(2011)
Front Microbiol
, vol.2
, pp. 69
-
-
Pereira, I.A.1
Ramos, A.R.2
Grein, F.3
Marques, M.C.4
Da Silva, S.M.5
Venceslau, S.S.6
-
8
-
-
82455164177
-
Biological souring and mitigation in oil reservoirs
-
Gieg LM, Jack TR, Foght JM. 2011. Biological souring and mitigation in oil reservoirs. Appl Microbiol Biotechnol 92:263–282. http://dx.doi.org/10.1007/s00253-011-3542-6.
-
(2011)
Appl Microbiol Biotechnol
, vol.92
, pp. 263-282
-
-
Gieg, L.M.1
Jack, T.R.2
Foght, J.M.3
-
9
-
-
84897952323
-
Roles of thermophilic thiosulfate-reducing bacteria and methanogenic archaea in the biocorrosion of oil pipelines
-
Liang R, Grizzle RS, Duncan KE, McInerney MJ, Suflita JM. 2014. Roles of thermophilic thiosulfate-reducing bacteria and methanogenic archaea in the biocorrosion of oil pipelines. Front Microbiol 5:89. http://dx.doi.org/10.3389/fmicb.2014.00089.
-
(2014)
Front Microbiol
, vol.5
, pp. 89
-
-
Liang, R.1
Grizzle, R.S.2
Duncan, K.E.3
McInerney, M.J.4
Suflita, J.M.5
-
10
-
-
84892954948
-
The microbial communities in two apparently physically separated deep subsurface oil reservoirs show extensive DNA sequence similarities
-
Lewin A, Johansen J, Wentzel A, Kotlar HK, Drabløs F, Valla S. 2014. The microbial communities in two apparently physically separated deep subsurface oil reservoirs show extensive DNA sequence similarities. Environ Microbiol 16:545–558. http://dx.doi.org/10.1111/1462-2920.12181.
-
(2014)
Environ Microbiol
, vol.16
, pp. 545-558
-
-
Lewin, A.1
Johansen, J.2
Wentzel, A.3
Kotlar, H.K.4
Drabløs, F.5
Valla, S.6
-
12
-
-
0347794946
-
Recent studies on bacterial populations and processes in subseafloor sediments: A review
-
Parkes RJ, Cragg BA, Wellsbury P. 2000. Recent studies on bacterial populations and processes in subseafloor sediments: a review. Hydrogeol J 8:11–28. http://dx.doi.org/10.1007/Pl00010971.
-
(2000)
Hydrogeol J
, vol.8
, pp. 11-28
-
-
Parkes, R.J.1
Cragg, B.A.2
Wellsbury, P.3
-
13
-
-
0037086196
-
Metabolic activity of subsurface life in deep-sea sediments
-
D’Hondt S, Rutherford S, Spivack AJ. 2002. Metabolic activity of subsurface life in deep-sea sediments. Science 295:2067–2070. http://dx.doi.org/10.1126/science.1064878.
-
(2002)
Science
, vol.295
, pp. 2067-2070
-
-
D’Hondt, S.1
Rutherford, S.2
Spivack, A.J.3
-
14
-
-
81055130204
-
Deep subseafloor microbial cells on physiological standby
-
Jørgensen BB. 2011. Deep subseafloor microbial cells on physiological standby. Proc Natl Acad Sci U S A 108:18193–18194. http://dx.doi.org/10.1073/pnas.1115421108.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 18193-18194
-
-
Jørgensen, B.B.1
-
15
-
-
84867043272
-
Global distribution of microbial abundance and biomass in subseafloor sediment
-
Kallmeyer J, Pockalny R, Adhikari RR, Smith DC, D’Hondt S. 2012. Global distribution of microbial abundance and biomass in subseafloor sediment. Proc Natl Acad Sci U S A 109:16213–16216. http://dx.doi.org/10.1073/pnas.1203849109.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 16213-16216
-
-
Kallmeyer, J.1
Pockalny, R.2
Adhikari, R.R.3
Smith, D.C.4
D’Hondt, S.5
-
16
-
-
78249275536
-
Methanogenesis, sulfate reduction and crude oil biodegradation in hot Alaskan oilfields
-
Gieg LM, Davidova IA, Duncan KE, Suflita JM. 2010. Methanogenesis, sulfate reduction and crude oil biodegradation in hot Alaskan oilfields. Environ Microbiol 12:3074–3086. http://dx.doi.org/10.1111/j.1462-2920.2010.02282.x.
-
(2010)
Environ Microbiol
, vol.12
, pp. 3074-3086
-
-
Gieg, L.M.1
Davidova, I.A.2
Duncan, K.E.3
Suflita, J.M.4
-
17
-
-
0029808088
-
Characterization of thermophilic consortia from two souring oil reservoirs
-
Mueller RF, Nielsen PH. 1996. Characterization of thermophilic consortia from two souring oil reservoirs. Appl Environ Microbiol 62: 3083–3087.
-
(1996)
Appl Environ Microbiol
, vol.62
, pp. 3083-3087
-
-
Mueller, R.F.1
Nielsen, P.H.2
-
18
-
-
0029974630
-
Distribution of thermophilic marine sulfate reducers in North Sea oil field waters and oil reservoirs
-
Nilsen RK, Beeder J, Thorstenson T, Torsvik T. 1996. Distribution of thermophilic marine sulfate reducers in North Sea oil field waters and oil reservoirs. Appl Environ Microbiol 62:1793–1798.
-
(1996)
Appl Environ Microbiol
, vol.62
, pp. 1793-1798
-
-
Nilsen, R.K.1
Beeder, J.2
Thorstenson, T.3
Torsvik, T.4
-
19
-
-
0029939361
-
Desulfotomaculum thermocisternum sp. Nov., a sulfate reducer isolated from a hot North Sea oil reservoir
-
Nilsen RK, Torsvik T, Lien T. 1996. Desulfotomaculum thermocisternum sp. nov., a sulfate reducer isolated from a hot North Sea oil reservoir. Int J Syst Bacteriol 46:397–402. http://dx.doi.org/10.1099/00207713-46-2-397.
-
(1996)
Int J Syst Bacteriol
, vol.46
, pp. 397-402
-
-
Nilsen, R.K.1
Torsvik, T.2
Lien, T.3
-
20
-
-
0033952662
-
Culturedependent and culture-independent characterization of microbial assemblages associated with high-temperature petroleum reservoirs
-
Orphan VJ, Taylor LT, Hafenbradl D, Delong EF. 2000. Culturedependent and culture-independent characterization of microbial assemblages associated with high-temperature petroleum reservoirs. Appl Environ Microbiol 66:700–711. http://dx.doi.org/10.1128/Aem.66.2.700-711.2000.
-
(2000)
Appl Environ Microbiol
, vol.66
, pp. 700-711
-
-
Orphan, V.J.1
Taylor, L.T.2
Hafenbradl, D.3
Delong, E.F.4
-
21
-
-
84905021432
-
Conversion of crude oil to methane by a microbial consortium enriched from oil reservoir production waters
-
Berdugo-Clavijo C, Gieg LM. 2014. Conversion of crude oil to methane by a microbial consortium enriched from oil reservoir production waters. Front Microbiol 5:197. http://dx.doi.org/10.3389/Fmicb.2014.00197.
-
(2014)
Front Microbiol
, vol.5
, pp. 197
-
-
Berdugo-Clavijo, C.1
Gieg, L.M.2
-
22
-
-
70450218710
-
Biocorrosive thermophilic microbial communities in Alaskan north slope oil facilities
-
Duncan KE, Gieg LM, Parisi VA, Tanner RS, Tringe SG, Bristow J, Suflita JM. 2009. Biocorrosive thermophilic microbial communities in Alaskan north slope oil facilities. Environ Sci Technol 43:7977–7984. http://dx.doi.org/10.1021/Es9013932.
-
(2009)
Environ Sci Technol
, vol.43
, pp. 7977-7984
-
-
Duncan, K.E.1
Gieg, L.M.2
Parisi, V.A.3
Tanner, R.S.4
Tringe, S.G.5
Bristow, J.6
Suflita, J.M.7
-
23
-
-
84894380995
-
Identification of crude-oil components and microorganisms that cause souring under anaerobic conditions
-
Hasegawa R, Toyama K, Miyanaga K, Tanji Y. 2014. Identification of crude-oil components and microorganisms that cause souring under anaerobic conditions. Appl Microbiol Biotechnol 98:1853–1861. http://dx.doi.org/10.1007/S00253-013-5107-3.
-
(2014)
Appl Microbiol Biotechnol
, vol.98
, pp. 1853-1861
-
-
Hasegawa, R.1
Toyama, K.2
Miyanaga, K.3
Tanji, Y.4
-
24
-
-
84862890899
-
Key players and team play: Anaerobic microbial communities in hydrocarbon-contaminated aquifers
-
Kleinsteuber S, Schleinitz KM, Vogt C. 2012. Key players and team play: anaerobic microbial communities in hydrocarbon-contaminated aquifers. Appl Microbiol Biotechnol 94:851–873. http://dx.doi.org/10.1007/s00253-012-4025-0.
-
(2012)
Appl Microbiol Biotechnol
, vol.94
, pp. 851-873
-
-
Kleinsteuber, S.1
Schleinitz, K.M.2
Vogt, C.3
-
25
-
-
84856771287
-
Phylogenetic diversity of microbial communities associated with the crude-oil, large-insoluble-particle and formation-water components of the reservoir fluid from a non-flooded high-temperature petroleum reservoir
-
Kobayashi H, Endo K, Sakata S, Mayumi D, Kawaguchi H, Ikarashi M, Miyagawa Y, Maeda H, Sato K. 2012. Phylogenetic diversity of microbial communities associated with the crude-oil, large-insoluble-particle and formation-water components of the reservoir fluid from a non-flooded high-temperature petroleum reservoir. J Biosci Bioeng 113:204–210. http://dx.doi.org/10.1016/J.Jbiosc.2011.09.015.
-
(2012)
J Biosci Bioeng
, vol.113
, pp. 204-210
-
-
Kobayashi, H.1
Endo, K.2
Sakata, S.3
Mayumi, D.4
Kawaguchi, H.5
Ikarashi, M.6
Miyagawa, Y.7
Maeda, H.8
Sato, K.9
-
26
-
-
84897108731
-
Comparison of microbial communities involved in souring and corrosion in offshore and onshore oil production facilities in Nigeria
-
Okoro C, Smith S, Chiejina L, Lumactud R, An D, Park HS, Voordouw J, Lomans BP, Voordouw G. 2014. Comparison of microbial communities involved in souring and corrosion in offshore and onshore oil production facilities in Nigeria. J Ind Microbiol Biotechnol 41:665–678. http://dx.doi.org/10.1007/S10295-014-1401-Z.
-
(2014)
J Ind Microbiol Biotechnol
, vol.41
, pp. 665-678
-
-
Okoro, C.1
Smith, S.2
Chiejina, L.3
Lumactud, R.4
An, D.5
Park, H.S.6
Voordouw, J.7
Lomans, B.P.8
Voordouw, G.9
-
27
-
-
58149216600
-
Characterizing microbial diversity in production water from an Alaskan mesothermic petroleum reservoir with two independent molecular methods
-
Pham VD, Hnatow LL, Zhang S, Fallon RD, Jackson SC, Tomb JF, DeLong EF, Keeler SJ. 2009. Characterizing microbial diversity in production water from an Alaskan mesothermic petroleum reservoir with two independent molecular methods. Environ Microbiol 11:176–187. http://dx.doi.org/10.1111/j.1462-2920.2008.01751.x.
-
(2009)
Environ Microbiol
, vol.11
, pp. 176-187
-
-
Pham, V.D.1
Hnatow, L.L.2
Zhang, S.3
Fallon, R.D.4
Jackson, S.C.5
Tomb, J.F.6
Delong, E.F.7
Keeler, S.J.8
-
28
-
-
0029662670
-
Characterization of 16S rRNA genes from oil field microbial communities indicates the presence of a variety of sulfatereducing, fermentative, and sulfide-oxidizing bacteria
-
Voordouw G, Armstrong SM, Reimer MF, Fouts B, Telang AJ, Shen Y, Gevertz D. 1996. Characterization of 16S rRNA genes from oil field microbial communities indicates the presence of a variety of sulfatereducing, fermentative, and sulfide-oxidizing bacteria. Appl Environ Microbiol 62:1623–1629.
-
(1996)
Appl Environ Microbiol
, vol.62
, pp. 1623-1629
-
-
Voordouw, G.1
Armstrong, S.M.2
Reimer, M.F.3
Fouts, B.4
Telang, A.J.5
Shen, Y.6
Gevertz, D.7
-
29
-
-
84899966961
-
Comparison of bacterial community in aqueous and oil phases of water-flooded petroleum reservoirs using pyrosequencing and clone library approaches
-
Wang LY, Ke WJ, Sun XB, Liu JF, Gu JD, Mu BZ. 2014. Comparison of bacterial community in aqueous and oil phases of water-flooded petroleum reservoirs using pyrosequencing and clone library approaches. Appl Microbiol Biotechnol 98:4209–4221. http://dx.doi.org/10.1007/S00253-013-5472-Y
-
(2014)
Appl Microbiol Biotechnol
, vol.98
, pp. 4209-4221
-
-
Wang, L.Y.1
Ke, W.J.2
Sun, X.B.3
Liu, J.F.4
Gu, J.D.5
Mu, B.Z.6
-
30
-
-
84859826344
-
High coverage sequencing of DNA from microorganisms living in an oil reservoir 2.5 kilometres subsurface
-
Kotlar HK, Lewin A, Johansen J, Throne-Holst M, Haverkamp T, Markussen S, Winnberg A, Ringrose P, Aakvik T, Ryeng E, Jakobsen K, Drabløs F, Valla S. 2011. High coverage sequencing of DNA from microorganisms living in an oil reservoir 2.5 kilometres subsurface. Env Microbiol Rep 3:674–681. http://dx.doi.org/10.1111/J.1758-2229.2011.00279.X.
-
(2011)
Env Microbiol Rep
, vol.3
, pp. 674-681
-
-
Kotlar, H.K.1
Lewin, A.2
Johansen, J.3
Throne-Holst, M.4
Haverkamp, T.5
Markussen, S.6
Winnberg, A.7
Ringrose, P.8
Aakvik, T.9
Ryeng, E.10
Jakobsen, K.11
Drabløs, F.12
Valla, S.13
-
32
-
-
84987834862
-
Temperature and injection water source influence microbial community structure in four Alaskan north slope hydrocarbon reservoirs
-
Piceno YM, Reid FC, Tom LM, Conrad ME, Bill M, Hubbard CG, Fouke BW, Graff CJ, Han J, Stringfellow WT, Hanlon JS, Hu P, Hazen TC, Andersen GL. 2014. Temperature and injection water source influence microbial community structure in four Alaskan north slope hydrocarbon reservoirs. Front Microbiol 5:409. http://dx.doi.org/10.3389/fmicb.2014.00409.
-
(2014)
Front Microbiol
, vol.5
, pp. 409
-
-
Piceno, Y.M.1
Reid, F.C.2
Tom, L.M.3
Conrad, M.E.4
Bill, M.5
Hubbard, C.G.6
Fouke, B.W.7
Graff, C.J.8
Han, J.9
Stringfellow, W.T.10
Hanlon, J.S.11
Hu, P.12
Hazen, T.C.13
Ersen, G.L.14
-
33
-
-
84868294021
-
Microbial diversity in long-term water-flooded oil reservoirs with different in situ temperatures in China
-
Zhang F, She YH, Chai LJ, Banat IM, Zhang XT, Shu FC, Wang ZL, Yu LJ, Hou DJ. 2012. Microbial diversity in long-term water-flooded oil reservoirs with different in situ temperatures in China. Sci Rep 2:760. http://dx.doi.org/10.1038/Srep00760.
-
(2012)
Sci Rep
, vol.2
, pp. 760
-
-
Zhang, F.1
She, Y.H.2
Chai, L.J.3
Banat, I.M.4
Zhang, X.T.5
Shu, F.C.6
Wang, Z.L.7
Yu, L.J.8
Hou, D.J.9
-
34
-
-
84884237048
-
Metagenomics of hydrocarbon resource environments indicates aerobic Taxa and genes to be unexpectedly common
-
An D, Caffrey SM, Soh J, Agrawal A, Brown D, Budwill K, Dong X, Dunfield PF, Foght J, Gieg LM, Hallam SJ, Hanson NW, He Z, Jack TR, Klassen J, Konwar KM, Kuatsjah E, Li C, Larter S, Leopatra V, Nesbo CL, Oldenburg T, Page AP, Ramos-Padron E, Rochman FF, Saidi- Mehrabad A, Sensen CW, Sipahimalani P, Song YC, Wilson S, Wolbring G, Wong ML, Voordouw G. 2013. Metagenomics of hydrocarbon resource environments indicates aerobic Taxa and genes to be unexpectedly common. Environ Sci Technol 47:10708–10717. http://dx.doi.org/10.1021/Es4020184.
-
(2013)
Environ Sci Technol
, vol.47
, pp. 10708-10717
-
-
An, D.1
Caffrey, S.M.2
Soh, J.3
Agrawal, A.4
Brown, D.5
Budwill, K.6
Dong, X.7
Dunfield, P.F.8
Foght, J.9
Gieg, L.M.10
Hallam, S.J.11
Hanson, N.W.12
He, Z.13
Jack, T.R.14
Klassen, J.15
Konwar, K.M.16
Kuatsjah, E.17
Li, C.18
Larter, S.19
Leopatra, V.20
Nesbo, C.L.21
Oldenburg, T.22
Page, A.P.23
Ramos-Padron, E.24
Rochman, F.F.25
Saidi-Mehrabad, A.26
Sensen, C.W.27
Sipahimalani, P.28
Song, Y.C.29
Wilson, S.30
Wolbring, G.31
Wong, M.L.32
Voordouw, G.33
more..
-
35
-
-
84896351830
-
New hydrocarbon degradation pathways in the microbial metagenome from Brazilian petroleum reservoirs
-
Sierra-García IN, Alvarez J, de Vasconcellos SP, de Souza A, dos Santos EV, de Oliveira VM. 2014. New hydrocarbon degradation pathways in the microbial metagenome from Brazilian petroleum reservoirs. PLoS One 9:e90087. http://dx.doi.org/10.1371/journal.pone.0090087.
-
(2014)
Plos One
, vol.9
-
-
Sierra-García, I.N.1
Alvarez, J.2
De Vasconcellos, S.P.3
De Souza, A.4
Dos Santos, E.V.5
De Oliveira, V.M.6
-
36
-
-
84936942726
-
Unusual biology across a group comprising more than 15% of domain Bacteria
-
Brown CT, Hug LA, Thomas BC, Sharon I, Castelle CJ, Singh A, Wilkins MJ, Wrighton KC, Williams KH, Banfield JF. 2015. Unusual biology across a group comprising more than 15% of domain Bacteria. Nature 523:208–211. http://dx.doi.org/10.1038/nature14486.
-
(2015)
Nature
, vol.523
, pp. 208-211
-
-
Brown, C.T.1
Hug, L.A.2
Thomas, B.C.3
Sharon, I.4
Castelle, C.J.5
Singh, A.6
Wilkins, M.J.7
Wrighton, K.C.8
Williams, K.H.9
Banfield, J.F.10
-
37
-
-
84955719113
-
The genome of Syntrophorhabdus aromaticivorans strain UI provides new insights for syn- trophic aromatic compound metabolism and electron flow
-
Nobu MK, Narihiro T, Hideyuki T, Qiu YL, Sekiguchi Y, Woyke T, Goodwin L, Davenport KW, Kamagata Y, Liu WT. 2014. The genome of Syntrophorhabdus aromaticivorans strain UI provides new insights for syn- trophic aromatic compound metabolism and electron flow. Environ Microbiol. http://dx.doi.org/10.1111/1462-2920.12444.
-
(2014)
Environ Microbiol
-
-
Nobu, M.K.1
Narihiro, T.2
Hideyuki, T.3
Qiu, Y.L.4
Sekiguchi, Y.5
Woyke, T.6
Goodwin, L.7
Davenport, K.W.8
Kamagata, Y.9
Liu, W.T.10
-
38
-
-
61449095502
-
Desulfonauticus autotrophicus sp. Nov., a novel thermophilic sulfate-reducing bacterium isolated from oil-production water and emended description of the genus Desulfonauticus
-
Mayilraj S, Kaksonen AH, Cord-Ruwisch R, Schumann P, Spröer C, Tindall BJ, Spring S. 2009. Desulfonauticus autotrophicus sp. nov., a novel thermophilic sulfate-reducing bacterium isolated from oil-production water and emended description of the genus Desulfonauticus. Extremophiles 13:247–255. http://dx.doi.org/10.1007/s00792-008-0212-4.
-
(2009)
Extremophiles
, vol.13
, pp. 247-255
-
-
Mayilraj, S.1
Kaksonen, A.H.2
Cord-Ruwisch, R.3
Schumann, P.4
Spröer, C.5
Tindall, B.J.6
Spring, S.7
-
39
-
-
84999048215
-
Draft genome sequence of Thermoanaerobacter sp. Strain A7A, reconstructed from a metagenome obtained from a high-temperature hydrocarbon reservoir in the Bass Strait, Australia
-
Li D, Greenfield P, Rosewarne CP, Midgley DJ. 2013. Draft genome sequence of Thermoanaerobacter sp. strain A7A, reconstructed from a metagenome obtained from a high-temperature hydrocarbon reservoir in the Bass Strait, Australia. Genome Announc 1:e00701-13. http://dx.doi.org/10.1128/genomeA.00701-13.
-
(2013)
Genome Announc
, vol.1
, pp. e00e13-e00701
-
-
Li, D.1
Greenfield, P.2
Rosewarne, C.P.3
Midgley, D.J.4
-
40
-
-
84960134096
-
Microbial control of oceanic carbon flux: The plot thickens, p 7–8
-
In Jiao N, Azam F, Sanders S, AAAS, Washington, DC
-
Azam F. 2010. Microbial control of oceanic carbon flux: the plot thickens, p 7–8. In Jiao N, Azam F, Sanders S (ed), Microbial carbon pump in the ocean. AAAS, Washington, DC.
-
(2010)
Microbial Carbon Pump in the Ocean
-
-
Azam, F.1
-
41
-
-
79953022302
-
The impact of microbial metabolism on marine dissolved organic matter
-
Kujawinski EB. 2011. The impact of microbial metabolism on marine dissolved organic matter. Annu Rev Mar Sci 3:567–599. http://dx.doi.org/10.1146/annurev-marine-120308-081003.
-
(2011)
Annu Rev Mar Sci
, vol.3
, pp. 567-599
-
-
Kujawinski, E.B.1
-
42
-
-
0002219895
-
Xylan of siphonaceous green algae
-
Iriki Y, Suzuki T, Nisizawa K, Miwa T. 1960. Xylan of siphonaceous green algae. Nature 187:82–83. http://dx.doi.org/10.1038/187082a0.
-
(1960)
Nature
, vol.187
, pp. 82-83
-
-
Iriki, Y.1
Suzuki, T.2
Nisizawa, K.3
Miwa, T.4
-
43
-
-
85022899536
-
The monosaccharide spectra of natural waters
-
Mopper K, Dawson R, Liebezeit G, Ittekkot V. 1980. The monosaccharide spectra of natural waters. Mar Chem 10:55–66. http://dx.doi.org/10.1016/0304-4203(80)90058-4.
-
(1980)
Mar Chem
, vol.10
, pp. 55-66
-
-
Mopper, K.1
Dawson, R.2
Liebezeit, G.3
Ittekkot, V.4
-
44
-
-
0021064460
-
Dissolved carbohydrates in the New York bight and the variability of marine organic matter
-
Harvey GR. 1983. Dissolved carbohydrates in the New York bight and the variability of marine organic matter. Mar Chem 12:333–339. http://dx.doi.org/10.1016/0304-4203(83)90060-9.
-
(1983)
Mar Chem
, vol.12
, pp. 333-339
-
-
Harvey, G.R.1
-
45
-
-
0003316416
-
Chemical studies on dissolved carbohydrates in the water samples collected from the North Pacific and Bering Sea
-
Sakugawa H, Handa N. 1985. Chemical studies on dissolved carbohydrates in the water samples collected from the North Pacific and Bering Sea. Oceanol Acta 8:185–196.
-
(1985)
Oceanol Acta
, vol.8
, pp. 185-196
-
-
Sakugawa, H.1
Handa, N.2
-
46
-
-
31544483932
-
Community genomics among stratified microbial assemblages in the ocean’s interior
-
DeLong EF, Preston CM, Mincer T, Rich V, Hallam SJ, Frigaard NU, Martinez A, Sullivan MB, Edwards R, Brito BR, Chisholm SW, Karl DM. 2006. Community genomics among stratified microbial assemblages in the ocean’s interior. Science 311:496–503. http://dx.doi.org/10.1126/science.1120250.
-
(2006)
Science
, vol.311
, pp. 496-503
-
-
Delong, E.F.1
Preston, C.M.2
Mincer, T.3
Rich, V.4
Hallam, S.J.5
Frigaard, N.U.6
Martinez, A.7
Sullivan, M.B.8
Edwards, R.9
Brito, B.R.10
Chisholm, S.W.11
Karl, D.M.12
-
47
-
-
0033898247
-
Substrate specificity in polysaccharide hydrolysis: Contrasts between bottom water and sediments
-
Arnosti C. 2000. Substrate specificity in polysaccharide hydrolysis: contrasts between bottom water and sediments. Limnol Oceanogr 45: 1112–1119. http://dx.doi.org/10.4319/lo.2000.45.5.1112.
-
(2000)
Limnol Oceanogr
, vol.45
, pp. 1112-1119
-
-
Arnosti, C.1
-
48
-
-
53949089068
-
Functional differences between Arctic seawater and sedimentary microbial communities: Contrasts in microbial hydrolysis of complex substrates
-
Arnosti C. 2008. Functional differences between Arctic seawater and sedimentary microbial communities: contrasts in microbial hydrolysis of complex substrates. FEMS Microbiol Ecol 66:343–351. http://dx.doi.org/10.1111/j.1574-6941.2008.00587.x.
-
(2008)
FEMS Microbiol Ecol
, vol.66
, pp. 343-351
-
-
Arnosti, C.1
-
49
-
-
84869143636
-
Draft genome sequence of the xylan-degrading marine bacterium strain S124, representing a novel species of the genus Oceanicola
-
Kwon YK, Kim JJ, Kim JH, Jeon SM, Ye BR, Jang J, Heo SJ, Park SC, Kang DH, Oh C. 2012. Draft genome sequence of the xylan-degrading marine bacterium strain S124, representing a novel species of the genus Oceanicola. J Bacteriol 194:6325. http://dx.doi.org/10.1128/JB.01614-12.
-
(2012)
J Bacteriol
, vol.194
, pp. 6325
-
-
Kwon, Y.K.1
Kim, J.J.2
Kim, J.H.3
Jeon, S.M.4
Ye, B.R.5
Jang, J.6
Heo, S.J.7
Park, S.C.8
Kang, D.H.9
Oh, C.10
-
50
-
-
38049120268
-
Polysaccharide hydrolysis in aggregates and free enzyme activity in aggregate-free seawater from the north-eastern Gulf of Mexico
-
Ziervogel K, Arnosti C. 2008. Polysaccharide hydrolysis in aggregates and free enzyme activity in aggregate-free seawater from the north-eastern Gulf of Mexico. Environ Microbiol 10:289–299. http://dx.doi.org/10.1111/j.1462-2920.2007.01451.x.
-
(2008)
Environ Microbiol
, vol.10
, pp. 289-299
-
-
Ziervogel, K.1
Arnosti, C.2
-
51
-
-
0031458333
-
The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus
-
Klenk HP, Clayton RA, Tomb JF, White O, Nelson KE, Ketchum KA, Dodson RJ, Gwinn M, Hickey EK, Peterson JD, Richardson DL, Kerlavage AR, Graham DE, Kyrpides NC, Fleischmann RD, Quackenbush J, Lee NH, Sutton GG, Gill S, Kirkness EF, Dougherty BA, McKenney K, Adams MD, Loftus B, Peterson S, Reich CI, McNeil LK, Badger JH, Glodek A, Zhou LX, Overbeek R, Gocayne JD, Weidman JF, McDonald L, Utterback T, Cotton MD, Spriggs T, Artiach P, Kaine BP, Sykes SM, Sadow PW, DAndrea KP, Bowman C, Fujii C, Garland SA, Mason TM, Olsen GJ, Fraser CM, Smith HO, Woese CR, Venter JC. 1997. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus. Nature 390:364–370. http://dx.doi.org/10.1038/37052.
-
(1997)
Nature
, vol.390
, pp. 364-370
-
-
Klenk, H.P.1
Clayton, R.A.2
Tomb, J.F.3
White, O.4
Nelson, K.E.5
Ketchum, K.A.6
Dodson, R.J.7
Gwinn, M.8
Hickey, E.K.9
Peterson, J.D.10
Richardson, D.L.11
Kerlavage, A.R.12
Graham, D.E.13
Kyrpides, N.C.14
Fleischmann, R.D.15
Quackenbush, J.16
Lee, N.H.17
Sutton, G.G.18
Gill, S.19
Kirkness, E.F.20
Dougherty, B.A.21
McKenney, K.22
Adams, M.D.23
Loftus, B.24
Peterson, S.25
Reich, C.I.26
McNeil, L.K.27
Badger, J.H.28
Glodek, A.29
Zhou, L.X.30
Overbeek, R.31
Gocayne, J.D.32
Weidman, J.F.33
McDonald, L.34
Utterback, T.35
Cotton, M.D.36
Spriggs, T.37
Artiach, P.38
Kaine, B.P.39
Sykes, S.M.40
Sadow, P.W.41
Dandrea, K.P.42
Bowman, C.43
Fujii, C.44
Garland, S.A.45
Mason, T.M.46
Olsen, G.J.47
Fraser, C.M.48
Smith, H.O.49
Woese, C.R.50
Venter, J.C.51
more..
-
52
-
-
0028184628
-
Archaeoglobus fulgidus isolated from hot north sea oil field waters
-
Beeder J, Nilsen RK, Rosnes JT, Torsvik T, Lien T. 1994. Archaeoglobus fulgidus isolated from hot north sea oil field waters. Appl Environ Microbiol 60:1227–1231.
-
(1994)
Appl Environ Microbiol
, vol.60
, pp. 1227-1231
-
-
Beeder, J.1
Nilsen, R.K.2
Rosnes, J.T.3
Torsvik, T.4
Lien, T.5
-
53
-
-
0027676205
-
Hyperthermophilic archaea are thriving in deep north sea and Alaskan oil reservoirs
-
Stetter KO, Huber R, Blöchl E, Kurr M, Eden RD, Fielder M, Cash H, Vance I. 1993. Hyperthermophilic archaea are thriving in deep north sea and Alaskan oil reservoirs. Nature 365:743–745. http://dx.doi.org/10.1038/365743a0.
-
(1993)
Nature
, vol.365
, pp. 743-745
-
-
Stetter, K.O.1
Huber, R.2
Blöchl, E.3
Kurr, M.4
Eden, R.D.5
Fielder, M.6
Cash, H.7
Vance, I.8
-
54
-
-
61349178912
-
Archaeoglobus fulgidus and Thermotoga elfii, thermophilic isolates from deep geothermal water of the Paris Basin
-
Fardeau M, Goulhen F, Bruschi M, Khelifi N, Cayol J, Ignatiadis I, Guyot F, Ollivier B. 2009. Archaeoglobus fulgidus and Thermotoga elfii, thermophilic isolates from deep geothermal water of the Paris Basin. Geomicrobiol J 26:119–130. http://dx.doi.org/10.1080/01490450802674970.
-
(2009)
Geomicrobiol J
, vol.26
, pp. 119-130
-
-
Fardeau, M.1
Goulhen, F.2
Bruschi, M.3
Khelifi, N.4
Cayol, J.5
Ignatiadis, I.6
Guyot, F.7
Ollivier, B.8
-
55
-
-
84897931364
-
Identification of key components in the energy metabolism of the hyperthermophilic sulfatereducing archaeon Archaeoglobus fulgidus by transcriptome analyses
-
Hocking WP, Stokke R, Roalkvam I, Steen IH. 2014. Identification of key components in the energy metabolism of the hyperthermophilic sulfatereducing archaeon Archaeoglobus fulgidus by transcriptome analyses. Front Microbiol 5:95. http://dx.doi.org/10.3389/Fmicb.2014.00095.
-
(2014)
Front Microbiol
, vol.5
, pp. 95
-
-
Hocking, W.P.1
Stokke, R.2
Roalkvam, I.3
Steen, I.H.4
-
56
-
-
67649603168
-
Metabolic versatility and indigenous origin of the archaeon Thermococcus sibiricus, isolated from a Siberian oil reservoir, as revealed by genome analysis
-
Mardanov AV, Ravin NV, Svetlitchnyi VA, Beletsky AV, Miroshnichenko ML, Bonch-Osmolovskaya EA, Skryabin KG. 2009. Metabolic versatility and indigenous origin of the archaeon Thermococcus sibiricus, isolated from a Siberian oil reservoir, as revealed by genome analysis. Appl Environ Microbiol 75:4580–4588. http://dx.doi.org/10.1128/AEM.00718-09.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 4580-4588
-
-
Mardanov, A.V.1
Ravin, N.V.2
Svetlitchnyi, V.A.3
Beletsky, A.V.4
Miroshnichenko, M.L.5
Bonch-Osmolovskaya, E.A.6
Skryabin, K.G.7
-
57
-
-
0036021956
-
Thermotoga lettingae sp. Nov., a novel thermophilic, methanol-degrading bacterium isolated from a thermophilic anaerobic reactor
-
Balk M, Weijma J, Stams AJ. 2002. Thermotoga lettingae sp. nov., a novel thermophilic, methanol-degrading bacterium isolated from a thermophilic anaerobic reactor. Int J Syst Evol Microbiol 52:1361–1368. http://dx.doi.org/10.1099/Ijs.0.02165-0.
-
(2002)
Int J Syst Evol Microbiol
, vol.52
, pp. 1361-1368
-
-
Balk, M.1
Weijma, J.2
Stams, A.J.3
-
58
-
-
76749141273
-
Hydrogen metabolism in the extreme thermophile Thermotoga neapolitana
-
D’Ippolito G, Dipasquale L, Vella FM, Romano I, Gambacorta A, Cutignano A, Fontana A. 2010. Hydrogen metabolism in the extreme thermophile Thermotoga neapolitana. Int J Hydrogen Energ 35: 2290–2295. http://dx.doi.org/10.1016/J.Ijhydene.2009.12.044.
-
(2010)
Int J Hydrogen Energ
, vol.35
, pp. 2290-2295
-
-
D’Ippolito, G.1
Dipasquale, L.2
Vella, F.M.3
Romano, I.4
Gambacorta, A.5
Cutignano, A.6
Fontana, A.7
-
59
-
-
84908242029
-
Anaerobic oxidation of long-chain n-alkanes by the hyperthermophilic sulfate-reducing archaeon, Archaeoglobus fulgidus
-
Khelifi N, Amin Ali O, Roche P, Grossi V, Brochier-Armanet C, Valette O, Ollivier B, Dolla A, Hirschler-Réa A. 2014. Anaerobic oxidation of long-chain n-alkanes by the hyperthermophilic sulfate-reducing archaeon, Archaeoglobus fulgidus. ISME J 8:2153–2166. http://dx.doi.org/10.1038/ismej.2014.58.
-
(2014)
ISME J
, vol.8
, pp. 2153-2166
-
-
Khelifi, N.1
Amin Ali, O.2
Roche, P.3
Grossi, V.4
Brochier-Armanet, C.5
Valette, O.6
Ollivier, B.7
Dolla, A.8
Hirschler-Réa, A.9
-
60
-
-
84868629743
-
Genomic insights into syntrophy: The paradigm for anaerobic metabolic cooperation
-
Sieber JR, McInerney MJ, Gunsalus RP. 2012. Genomic insights into syntrophy: the paradigm for anaerobic metabolic cooperation. Annu Rev Microbiol 66:429–452. http://dx.doi.org/10.1146/Annurev-Micro-090110-102844.
-
(2012)
Annu Rev Microbiol
, vol.66
, pp. 429-452
-
-
Sieber, J.R.1
McInerney, M.J.2
Gunsalus, R.P.3
-
61
-
-
0033858846
-
Thermacetogenium phaeum gen. Nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium
-
Hattori S, Kamagata Y, Hanada S, Shoun H. 2000. Thermacetogenium phaeum gen. nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium. Int J Syst Evol Microbiol 50:1601–1609. http://dx.doi.org/10.1099/00207713-50-4-1601.
-
(2000)
Int J Syst Evol Microbiol
, vol.50
, pp. 1601-1609
-
-
Hattori, S.1
Kamagata, Y.2
Hanada, S.3
Shoun, H.4
-
62
-
-
84856402440
-
A deeply branching thermophilic bacterium with an ancient acetyl-CoA pathway dominates a subsurface ecosystem
-
Takami H, Noguchi H, Takaki Y, Uchiyama I, Toyoda A, Nishi S, Chee GJ, Arai W, Nunoura T, Itoh T, Hattori M, Takai K. 2012. A deeply branching thermophilic bacterium with an ancient acetyl-CoA pathway dominates a subsurface ecosystem. PLoS One 7:e30559. http://dx.doi.org/10.1371/journal.pone.0030559.
-
(2012)
Plos One
, vol.7
-
-
Takami, H.1
Noguchi, H.2
Takaki, Y.3
Uchiyama, I.4
Toyoda, A.5
Nishi, S.6
Chee, G.J.7
Arai, W.8
Nunoura, T.9
Itoh, T.10
Hattori, M.11
Takai, K.12
-
63
-
-
0030791876
-
The eastern and western branches of the Wood/Ljungdahl pathway: How the east and west were won
-
Ragsdale SW. 1997. The eastern and western branches of the Wood/Ljungdahl pathway: how the east and west were won. Biofactors 6:3–11. http://dx.doi.org/10.1002/biof.5520060102.
-
(1997)
Biofactors
, vol.6
, pp. 3-11
-
-
Ragsdale, S.W.1
-
64
-
-
0036422780
-
Ecological consequences of the phylogenetic and physiological diversities of acetogens
-
Drake HL, Kusel K, Matthies C. 2002. Ecological consequences of the phylogenetic and physiological diversities of acetogens. Antonie von Leeuwenhoek G81:203–213. http://dx.doi.org/10.1023/A:1020514617738.
-
(2002)
Antonie Von Leeuwenhoek
, vol.G81
, pp. 203-213
-
-
Drake, H.L.1
Kusel, K.2
Matthies, C.3
-
65
-
-
33644950423
-
Non-sulfatereducing, syntrophic bacteria affiliated with Desulfotomaculum cluster I are widely distributed in methanogenic environments
-
Imachi H, Sekiguchi Y, Kamagata Y, Loy A, Qiu YL, Hugenholtz P, Kimura N, Wagner M, Ohashi A, Harada H. 2006. Non-sulfatereducing, syntrophic bacteria affiliated with Desulfotomaculum cluster I are widely distributed in methanogenic environments. Appl Environ Microbiol 72:2080–2091. http://dx.doi.org/10.1128/Aem.72.3.2080-2091.2006.
-
(2006)
Appl Environ Microbiol
, vol.72
, pp. 2080-2091
-
-
Imachi, H.1
Sekiguchi, Y.2
Kamagata, Y.3
Loy, A.4
Qiu, Y.L.5
Hugenholtz, P.6
Kimura, N.7
Wagner, M.8
Ohashi, A.9
Harada, H.10
-
66
-
-
38649114368
-
Evolution of acetoclastic methanogenesis in Methanosarcina via horizontal gene transfer from cellulolytic Clostridia
-
Fournier GP, Gogarten JP. 2008. Evolution of acetoclastic methanogenesis in Methanosarcina via horizontal gene transfer from cellulolytic Clostridia. J Bacteriol 190:1124–1127. http://dx.doi.org/10.1128/JB.01382-07.
-
(2008)
J Bacteriol
, vol.190
, pp. 1124-1127
-
-
Fournier, G.P.1
Gogarten, J.P.2
-
68
-
-
27844561449
-
Proteiniphilum acetatigenes gen. Nov., sp. nov., from a UASB reactor treating brewery wastewater
-
Chen S, Dong X. 2005. Proteiniphilum acetatigenes gen. nov., sp. nov., from a UASB reactor treating brewery wastewater. Int J Syst Evol Microbiol 55:2257–2261. http://dx.doi.org/10.1099/Ijs.0.63807-0.
-
(2005)
Int J Syst Evol Microbiol
, vol.55
, pp. 2257-2261
-
-
Chen, S.1
Dong, X.2
-
69
-
-
84878724342
-
Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage
-
Dodsworth JA, Blainey PC, Murugapiran SK, Swingley WD, Ross CA, Tringe SG, Chain PSG, Scholz MB, Lo CC, Raymond J, Quake SR, Hedlund BP. 2013. Single-cell and metagenomic analyses indicate a fermentative and saccharolytic lifestyle for members of the OP9 lineage. Nat Commun 4: http://dx.doi.org/10.1038/Ncomms2884.
-
(2013)
Nat Commun
, vol.4
-
-
Dodsworth, J.A.1
Blainey, P.C.2
Murugapiran, S.K.3
Swingley, W.D.4
Ross, C.A.5
Tringe, S.G.6
Chain, P.7
Scholz, M.B.8
Lo, C.C.9
Raymond, J.10
Quake, S.R.11
Hedlund, B.P.12
-
71
-
-
78650901942
-
Functional ecology of free-living nitrogen fixation: A contemporary perspective
-
Reed SC, Cleveland CC, Townsend AR. 2011. Functional ecology of free-living nitrogen fixation: a contemporary perspective. Annu Rev Ecol Evol S42:489–512. http://dx.doi.org/10.1146/Annurev-Ecolsys-102710-145034.
-
(2011)
Annu Rev Ecol Evol
, vol.S42
, pp. 489-512
-
-
Reed, S.C.1
Cleveland, C.C.2
Townsend, A.R.3
-
72
-
-
76149135662
-
-
North Slope, Alaska. U.S. Geological Survey Professional Paper, 1748. U.S. Geological Survey, Washington, DC
-
Flores RM, Myers MD, Houseknecht DW, Stricker GD, Brizzolara DW, Ryherd TJ, Takahashi KI. 2007. Stratigraphy and facies of Cretaceous Schrader Bluff and Prince Creek formations in Colville River Bluffs, North Slope, Alaska. U.S. Geological Survey Professional Paper, 1748. U.S. Geological Survey, Washington, DC.
-
(2007)
Stratigraphy and Facies of Cretaceous Schrader Bluff and Prince Creek Formations in Colville River Bluffs
-
-
Flores, R.M.1
Myers, M.D.2
Houseknecht, D.W.3
Stricker, G.D.4
Brizzolara, D.W.5
Ryherd, T.J.6
Takahashi, K.I.7
-
73
-
-
0020764070
-
Geology and regional setting of Kuparuk oil field, Alaska
-
Carman GJ, Hardwick P. 1983. Geology and regional setting of Kuparuk oil field, Alaska. AAPG Bull 67:1014–1031.
-
(1983)
AAPG Bull
, vol.67
, pp. 1014-1031
-
-
Carman, G.J.1
Hardwick, P.2
-
74
-
-
0343550325
-
Geology and stratigraphy of fluvio-deltaic deposits in the Ivishak formation: Applications for development of Prudhoe Bay field Alaska
-
Tye RS, Bhattacharya JP, Lorsong JA, Sindelar ST, Knock DG, Puls DD, Levinson RA. 1999. Geology and stratigraphy of fluvio-deltaic deposits in the Ivishak formation: applications for development of Prudhoe Bay field Alaska. AAPG Bull 83:1588–1623.
-
(1999)
AAPG Bull
, vol.83
, pp. 1588-1623
-
-
Tye, R.S.1
Bhattacharya, J.P.2
Lorsong, J.A.3
Sindelar, S.T.4
Knock, D.G.5
Puls, D.D.6
Levinson, R.A.7
-
75
-
-
0032703237
-
Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples
-
Miller DN, Bryant JE, Madsen EL, Ghiorse WC. 1999. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl Environ Microbiol 65:4715–4724.
-
(1999)
Appl Environ Microbiol
, vol.65
, pp. 4715-4724
-
-
Miller, D.N.1
Bryant, J.E.2
Madsen, E.L.3
Ghiorse, W.C.4
-
76
-
-
79956041561
-
EMIRGE: Reconstruction of full-length ribosomal genes from microbial community short read sequencing data
-
Miller CS, Baker BJ, Thomas BC, Singer SW, Banfield JF. 2011. EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data. Genome Biol 12:R44. http://dx.doi.org/10.1186/Gb-2011-12-5-R44.
-
(2011)
Genome Biol
, vol.12
, pp. R44
-
-
Miller, C.S.1
Baker, B.J.2
Thomas, B.C.3
Singer, S.W.4
Banfield, J.F.5
-
77
-
-
84861760530
-
IDBA-UD: A de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
-
Peng Y, Leung HC, Yiu SM, Chin FY. 2012. IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth. Bioinformatics 28:1420–1428. http://dx.doi.org/10.1093/bioinformatics/bts174.
-
(2012)
Bioinformatics
, vol.28
, pp. 1420-1428
-
-
Peng, Y.1
Leung, H.C.2
Yiu, S.M.3
Chin, F.Y.4
-
78
-
-
70350015324
-
Community-wide analysis of microbial genome sequence signatures
-
Dick GJ, Andersson AF, Baker BJ, Simmons SL, Yelton AP, Banfield JF. 2009. Community-wide analysis of microbial genome sequence signatures. Genome Biol 10:R85. http://dx.doi.org/10.1186/Gb-2009-10-8-R85.
-
(2009)
Genome Biol
, vol.10
, pp. R85
-
-
Dick, G.J.1
Ersson, A.F.2
Baker, B.J.3
Simmons, S.L.4
Yelton, A.P.5
Banfield, J.F.6
-
79
-
-
84865561269
-
Gene and translation initiation site prediction in metagenomic sequences
-
Hyatt D, LoCascio PF, Hauser LJ, Uberbacher EC. 2012. Gene and translation initiation site prediction in metagenomic sequences. Bioinformatics 28:2223–2230. http://dx.doi.org/10.1093/bioinformatics/bts429.
-
(2012)
Bioinformatics
, vol.28
, pp. 2223-2230
-
-
Hyatt, D.1
Locascio, P.F.2
Hauser, L.J.3
Uberbacher, E.C.4
-
80
-
-
34347388470
-
UniRef: Comprehensive and non-redundant UniProt reference clusters
-
Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH. 2007. UniRef: comprehensive and non-redundant UniProt reference clusters. Bioinformatics 23:1282–1288. http://dx.doi.org/10.1093/bioinformatics/btm098.
-
(2007)
Bioinformatics
, vol.23
, pp. 1282-1288
-
-
Suzek, B.E.1
Huang, H.2
McGarvey, P.3
Mazumder, R.4
Wu, C.H.5
-
81
-
-
0032919364
-
KEGG: Kyoto encyclopedia of genes and genomes
-
Ogata H, Goto S, Sato K, Fujibuchi W, Bono H, Kanehisa M. 1999. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res 27: 29–34. http://dx.doi.org/10.1093/nar/27.1.29.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 29-34
-
-
Ogata, H.1
Goto, S.2
Sato, K.3
Fujibuchi, W.4
Bono, H.5
Kanehisa, M.6
-
82
-
-
84858983547
-
KEGG for integration and interpretation of large-scale molecular data sets
-
Kanehisa M, Goto S, Sato Y, Furumichi M, Tanabe M. 2012. KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res 40:D109–D114. http://dx.doi.org/10.1093/nar/gkr988.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D109-D114
-
-
Kanehisa, M.1
Goto, S.2
Sato, Y.3
Furumichi, M.4
Tanabe, M.5
-
84
-
-
33750403801
-
RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
-
Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690. http://dx.doi.org/10.1093/bioinformatics/btl446.
-
(2006)
Bioinformatics
, vol.22
, pp. 2688-2690
-
-
Stamatakis, A.1
-
85
-
-
2542523843
-
ARB: A software environment for sequence data
-
Ludwig W, Strunk O, Westram R, Richter L, Meier H, Yadhukumar, Buchner A, Lai T, Steppi S, Jobb G, Förster W, Brettske I, Gerber S, Ginhart AW, Gross O, Grumann S, Hermann S, Jost R, König A, Liss T, Lussmann R, May M, Nonhoff B, Reichel B, Strehlow R, Stamatakis A, Stuckmann N, Vilbig A, Lenke M, Ludwig T, Bode A, Schleifer KH. 2004. ARB: a software environment for sequence data. Nucleic Acids Res 32:1363–1371. http://dx.doi.org/10.1093/nar/gkh293.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1363-1371
-
-
Ludwig, W.1
Strunk, O.2
Westram, R.3
Richter, L.4
Meier, H.5
Yadhukumar, B.A.6
Lai, T.7
Steppi, S.8
Jobb, G.9
Förster, W.10
Brettske, I.11
Gerber, S.12
Ginhart, A.W.13
Gross, O.14
Grumann, S.15
Hermann, S.16
Jost, R.17
König, A.18
Liss, T.19
Lussmann, R.20
May, M.21
Nonhoff, B.22
Reichel, B.23
Strehlow, R.24
Stamatakis, A.25
Stuckmann, N.26
Vilbig, A.27
Lenke, M.28
Ludwig, T.29
Bode, A.30
Schleifer, K.H.31
more..
-
86
-
-
84873739311
-
The SILVA ribosomal RNA gene database project: Improved data processing and web-based tools
-
Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO. 2013. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41: D590–D596. http://dx.doi.org/10.1093/nar/gks1219.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D590-D596
-
-
Quast, C.1
Pruesse, E.2
Yilmaz, P.3
Gerken, J.4
Schweer, T.5
Yarza, P.6
Peplies, J.7
Glöckner, F.O.8
|