-
1
-
-
78650788466
-
The pathology of sponge orange band disease affecting the Caribbean barrel sponge Xestospongia muta
-
Angermeier, H., Kamke, J., Abdelmohsen, U.R., Krohne, G., Pawlik, J.R., Lindquist, N.L., and Hentschel, U. (2011) The pathology of sponge orange band disease affecting the Caribbean barrel sponge Xestospongia muta. FEMS Microbiol Ecol 75: 218-230.
-
(2011)
FEMS Microbiol Ecol
, vol.75
, pp. 218-230
-
-
Angermeier, H.1
Kamke, J.2
Abdelmohsen, U.R.3
Krohne, G.4
Pawlik, J.R.5
Lindquist, N.L.6
Hentschel, U.7
-
2
-
-
3042691747
-
The quinoprotein dehydrogenases for methanol and glucose
-
Anthony, C. (2004) The quinoprotein dehydrogenases for methanol and glucose. Arch Biochem Biophys 428: 2-9.
-
(2004)
Arch Biochem Biophys
, vol.428
, pp. 2-9
-
-
Anthony, C.1
-
3
-
-
0000756551
-
Metabolic integration between symbiotic cyanobacteria and sponges: a possible mechanism
-
Arillo, A., Bavestrello, G., Burlando, B., and Sarà, M. (1993) Metabolic integration between symbiotic cyanobacteria and sponges: a possible mechanism. Mar Biol 117: 159-162.
-
(1993)
Mar Biol
, vol.117
, pp. 159-162
-
-
Arillo, A.1
Bavestrello, G.2
Burlando, B.3
Sarà, M.4
-
4
-
-
0031743360
-
Expression of the human XPB/ERCC-3 excision repair gene-homolog in the sponge Geodia cydonium after exposure to ultraviolet radiation
-
Batel, R., Fafandjel, M., Blumbach, B., Schröder, H.C., Hassanein, H.M.A., Müller, I.M., and Müller, W.E.G. (1998) Expression of the human XPB/ERCC-3 excision repair gene-homolog in the sponge Geodia cydonium after exposure to ultraviolet radiation. Mutat Res 409: 123-133.
-
(1998)
Mutat Res
, vol.409
, pp. 123-133
-
-
Batel, R.1
Fafandjel, M.2
Blumbach, B.3
Schröder, H.C.4
Hassanein, H.M.A.5
Müller, I.M.6
Müller, W.E.G.7
-
5
-
-
52949133356
-
Physiology, phylogeny and in situ evidence for bacterial and archaeal nitrifiers in the marine sponge Aplysina aerophoba
-
Bayer, K., Schmitt, S., and Hentschel, U. (2008) Physiology, phylogeny and in situ evidence for bacterial and archaeal nitrifiers in the marine sponge Aplysina aerophoba. Environ Microbiol 10: 2942-2955.
-
(2008)
Environ Microbiol
, vol.10
, pp. 2942-2955
-
-
Bayer, K.1
Schmitt, S.2
Hentschel, U.3
-
6
-
-
49049088295
-
The functional roles of marine sponges
-
Bell, J.J. (2008) The functional roles of marine sponges. Estuarine Coast Shelf Sci 79: 341-353.
-
(2008)
Estuarine Coast Shelf Sci
, vol.79
, pp. 341-353
-
-
Bell, J.J.1
-
7
-
-
0027280517
-
The proton motive force drives the outer membrane transport of cobalamin in Escherichia coli
-
Bradbeer, C. (1993) The proton motive force drives the outer membrane transport of cobalamin in Escherichia coli. J Bacteriol 175: 3146-3150.
-
(1993)
J Bacteriol
, vol.175
, pp. 3146-3150
-
-
Bradbeer, C.1
-
8
-
-
0000286531
-
An ordination of the upland forest communities of southern Wisconsin
-
Bray, J.R., and Curtis, J.T. (1957) An ordination of the upland forest communities of southern Wisconsin. Ecol Monogr 27: 325-349.
-
(1957)
Ecol Monogr
, vol.27
, pp. 325-349
-
-
Bray, J.R.1
Curtis, J.T.2
-
9
-
-
39149118031
-
Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota
-
Brochier-Armanet, C., Boussau, B., Gribaldo, S., and Forterre, P. (2008) Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota. Nat Rev Microbiol 6: 245-252.
-
(2008)
Nat Rev Microbiol
, vol.6
, pp. 245-252
-
-
Brochier-Armanet, C.1
Boussau, B.2
Gribaldo, S.3
Forterre, P.4
-
10
-
-
0034043778
-
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
-
Castresana, J. (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17: 540-552.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 540-552
-
-
Castresana, J.1
-
11
-
-
79957847744
-
Sponge mass mortalities in a warming Mediterranean Sea: Are cyanobacteria-harboring species worse off?
-
Cebrian, E., Uriz, M.J., Garrabou, J., and Ballesteros, E. (2011) Sponge mass mortalities in a warming Mediterranean Sea: Are cyanobacteria-harboring species worse off? PLoS ONE 6: e20211.
-
(2011)
PLoS ONE
, vol.6
, pp. e20211
-
-
Cebrian, E.1
Uriz, M.J.2
Garrabou, J.3
Ballesteros, E.4
-
12
-
-
79955069864
-
Modularity of methylotrophy, revisited
-
Chistoserdova, L. (2011) Modularity of methylotrophy, revisited. Environ Microbiol 13: 2603-2622.
-
(2011)
Environ Microbiol
, vol.13
, pp. 2603-2622
-
-
Chistoserdova, L.1
-
13
-
-
37449013879
-
Identification of a fourth formate dehydrogenase in Methylobacterium extorquens AM1 and confirmation of the essential role of formate oxidation in methylotrophy
-
Chistoserdova, L., Crowther, G.J., Vorholt, J.A., Skovran, E., Portais, J.-C., and Lidstrom, M.E. (2007) Identification of a fourth formate dehydrogenase in Methylobacterium extorquens AM1 and confirmation of the essential role of formate oxidation in methylotrophy. J Bacteriol 189: 9076-9081.
-
(2007)
J Bacteriol
, vol.189
, pp. 9076-9081
-
-
Chistoserdova, L.1
Crowther, G.J.2
Vorholt, J.A.3
Skovran, E.4
Portais, J.-C.5
Lidstrom, M.E.6
-
14
-
-
70349538975
-
The expanding world of methylotrophic metabolism
-
Chistoserdova, L., Kalyuzhnaya, M.G., and Lidstrom, M.E. (2009) The expanding world of methylotrophic metabolism. Annu Rev Microbiol 63: 477-499.
-
(2009)
Annu Rev Microbiol
, vol.63
, pp. 477-499
-
-
Chistoserdova, L.1
Kalyuzhnaya, M.G.2
Lidstrom, M.E.3
-
15
-
-
0036861594
-
Ammonium excretion by a symbiotic sponge supplies the nitrogen requirements of its rhodophyte partner
-
Davy, S.K., Trautman, D.A., Borowitzka, M.A., and Hinde, R. (2002) Ammonium excretion by a symbiotic sponge supplies the nitrogen requirements of its rhodophyte partner. J Exp Biol 205: 3505-3511.
-
(2002)
J Exp Biol
, vol.205
, pp. 3505-3511
-
-
Davy, S.K.1
Trautman, D.A.2
Borowitzka, M.A.3
Hinde, R.4
-
16
-
-
48249102000
-
Phylogeny.fr: robust phylogenetic analysis for the non-specialist
-
Dereeper, A., Guignon, V., Blanc, G., Audic, S., Buffet, S., Chevenet, F., etal. (2008) Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res 36: W465-W469.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. W465-W469
-
-
Dereeper, A.1
Guignon, V.2
Blanc, G.3
Audic, S.4
Buffet, S.5
Chevenet, F.6
-
17
-
-
0030981765
-
Sponge-mediated nitrification in tropical benthic communities
-
Diaz, M., and Ward, B. (1997) Sponge-mediated nitrification in tropical benthic communities. Mar Ecol Prog Ser 156: 97-107.
-
(1997)
Mar Ecol Prog Ser
, vol.156
, pp. 97-107
-
-
Diaz, M.1
Ward, B.2
-
18
-
-
3042666256
-
MUSCLE: multiple sequence alignment with high accuracy and high throughput
-
Edgar, R.C. (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
19
-
-
0037064287
-
TonB-dependent receptors-structural perspectives
-
Ferguson, A.D., and Deisenhofer, J. (2002) TonB-dependent receptors-structural perspectives. Biochim Biophys Acta 1565: 318-332.
-
(2002)
Biochim Biophys Acta
, vol.1565
, pp. 318-332
-
-
Ferguson, A.D.1
Deisenhofer, J.2
-
20
-
-
84876836241
-
Ecology of marine Bacteroidetes: a comparative genomics approach
-
Fernández-Gómez, B., Richter, M., Schüler, M., Pinhassi, J., Acinas, S.G., González, J.M., and Pedrós-Alió, C. (2013) Ecology of marine Bacteroidetes: a comparative genomics approach. ISME J 7: 1026-1037.
-
(2013)
ISME J
, vol.7
, pp. 1026-1037
-
-
Fernández-Gómez, B.1
Richter, M.2
Schüler, M.3
Pinhassi, J.4
Acinas, S.G.5
González, J.M.6
Pedrós-Alió, C.7
-
21
-
-
41649114407
-
Microbial community gene expression in ocean surface waters
-
Frias-Lopez, J., Shi, Y., Tyson, G.W., Coleman, M.L., Schuster, S.C., Chisholm, S.W., and Delong, E.F. (2008) Microbial community gene expression in ocean surface waters. Proc Natl Acad Sci USA 105: 3805-3810.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 3805-3810
-
-
Frias-Lopez, J.1
Shi, Y.2
Tyson, G.W.3
Coleman, M.L.4
Schuster, S.C.5
Chisholm, S.W.6
Delong, E.F.7
-
22
-
-
84870926204
-
Bacterial community profiles in low microbial abundance sponges
-
Giles, E.C., Kamke, J., Moitinho-Silva, L., Taylor, M.W., Hentschel, U., Ravasi, T., and Schmitt, S. (2013) Bacterial community profiles in low microbial abundance sponges. FEMS Microbiol Ecol 83: 232-241.
-
(2013)
FEMS Microbiol Ecol
, vol.83
, pp. 232-241
-
-
Giles, E.C.1
Kamke, J.2
Moitinho-Silva, L.3
Taylor, M.W.4
Hentschel, U.5
Ravasi, T.6
Schmitt, S.7
-
23
-
-
84885627400
-
Surviving in a marine desert: the sponge loop retains resources within coral reefs
-
de Goeij, J.M., van Oevelen, D., Vermeij, M.J.A., Osinga, R., Middelburg, J.J., de Goeij, A.F.P.M., and Admiraal, W. (2013) Surviving in a marine desert: the sponge loop retains resources within coral reefs. Science 342: 108-110.
-
(2013)
Science
, vol.342
, pp. 108-110
-
-
de Goeij, J.M.1
van Oevelen, D.2
Vermeij, M.J.A.3
Osinga, R.4
Middelburg, J.J.5
de Goeij, A.F.P.M.6
Admiraal, W.7
-
24
-
-
70350294348
-
Systematic artifacts in metagenomes from complex microbial communities
-
Gomez-Alvarez, V., Teal, T.K., and Schmidt, T.M. (2009) Systematic artifacts in metagenomes from complex microbial communities. ISME J 3: 1314-1317.
-
(2009)
ISME J
, vol.3
, pp. 1314-1317
-
-
Gomez-Alvarez, V.1
Teal, T.K.2
Schmidt, T.M.3
-
25
-
-
79952401369
-
Metatranscriptomic approach to analyze the functional human gut microbiota
-
Gosalbes, M.J., Durbán, A., Pignatelli, M., Abellan, J.J., Jiménez-Hernández, N., Pérez-Cobas, A.E., etal. (2011) Metatranscriptomic approach to analyze the functional human gut microbiota. PLoS ONE 6: e17447.
-
(2011)
PLoS ONE
, vol.6
, pp. e17447
-
-
Gosalbes, M.J.1
Durbán, A.2
Pignatelli, M.3
Abellan, J.J.4
Jiménez-Hernández, N.5
Pérez-Cobas, A.E.6
-
26
-
-
77950806408
-
New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0
-
Guindon, S., Dufayard, J.-F., Lefort, V., Anisimova, M., Hordijk, W., and Gascuel, O. (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59: 307-321.
-
(2010)
Syst Biol
, vol.59
, pp. 307-321
-
-
Guindon, S.1
Dufayard, J.-F.2
Lefort, V.3
Anisimova, M.4
Hordijk, W.5
Gascuel, O.6
-
27
-
-
84884572635
-
Preparation and metatranscriptomic analyses of host-microbe systems
-
Hampton-Marcell, J.T., Moormann, S.M., Owens, S.M., and Gilbert, J.A. (2013) Preparation and metatranscriptomic analyses of host-microbe systems. Methods Enzymol 531: 169-185.
-
(2013)
Methods Enzymol
, vol.531
, pp. 169-185
-
-
Hampton-Marcell, J.T.1
Moormann, S.M.2
Owens, S.M.3
Gilbert, J.A.4
-
28
-
-
0036729439
-
Molecular evidence for a uniform microbial community in sponges from different oceans
-
Hentschel, U., Hopke, J., Horn, M., Friedrich, A.B., Wagner, M., Hacker, J., and Moore, B.S. (2002) Molecular evidence for a uniform microbial community in sponges from different oceans. Appl Environ Microbiol 68: 4431-4440.
-
(2002)
Appl Environ Microbiol
, vol.68
, pp. 4431-4440
-
-
Hentschel, U.1
Hopke, J.2
Horn, M.3
Friedrich, A.B.4
Wagner, M.5
Hacker, J.6
Moore, B.S.7
-
29
-
-
84865168402
-
Genomic insights into the marine sponge microbiome
-
Hentschel, U., Piel, J., Degnan, S.M., and Taylor, M.W. (2012) Genomic insights into the marine sponge microbiome. Nat Rev Microbiol 10: 641-654.
-
(2012)
Nat Rev Microbiol
, vol.10
, pp. 641-654
-
-
Hentschel, U.1
Piel, J.2
Degnan, S.M.3
Taylor, M.W.4
-
30
-
-
33847702910
-
MEGAN analysis of metagenomic data
-
Huson, D.H., Auch, A.F., Qi, J., and Schuster, S.C. (2007) MEGAN analysis of metagenomic data. Genome Res 17: 377-386.
-
(2007)
Genome Res
, vol.17
, pp. 377-386
-
-
Huson, D.H.1
Auch, A.F.2
Qi, J.3
Schuster, S.C.4
-
31
-
-
34249654599
-
Sponges as a source of dissolved inorganic nitrogen: nitrification mediated by temperate sponges
-
Jiménez, E., and Ribes, M. (2007) Sponges as a source of dissolved inorganic nitrogen: nitrification mediated by temperate sponges. Limnol Oceanogr 52: 948-958.
-
(2007)
Limnol Oceanogr
, vol.52
, pp. 948-958
-
-
Jiménez, E.1
Ribes, M.2
-
32
-
-
77950064311
-
Activity profiles for marine sponge-associated bacteria obtained by 16S rRNA vs 16S rRNA gene comparisons
-
Kamke, J., Taylor, M.W., and Schmitt, S. (2010) Activity profiles for marine sponge-associated bacteria obtained by 16S rRNA vs 16S rRNA gene comparisons. ISME J 4: 498-508.
-
(2010)
ISME J
, vol.4
, pp. 498-508
-
-
Kamke, J.1
Taylor, M.W.2
Schmitt, S.3
-
33
-
-
84888200073
-
Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges
-
Kamke, J., Sczyrba, A., Ivanova, N., Schwientek, P., Rinke, C., Mavromatis, K., etal. (2013) Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges. ISME J 7: 2287-2300.
-
(2013)
ISME J
, vol.7
, pp. 2287-2300
-
-
Kamke, J.1
Sczyrba, A.2
Ivanova, N.3
Schwientek, P.4
Rinke, C.5
Mavromatis, K.6
-
34
-
-
33645816587
-
Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified
-
Keane, T.M., Creevey, C.J., Pentony, M.M., Naughton, T.J., and McLnerney, J.O. (2006) Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified. BMC Evol Biol 6: 29.
-
(2006)
BMC Evol Biol
, vol.6
, pp. 29
-
-
Keane, T.M.1
Creevey, C.J.2
Pentony, M.M.3
Naughton, T.J.4
McLnerney, J.O.5
-
35
-
-
84860831021
-
Metaproteomics of a gutless marine worm and its symbiotic microbial community reveal unusual pathways for carbon and energy use
-
Kleiner, M., Wentrup, C., Lott, C., Teeling, H., Wetzel, S., Young, J., etal. (2012) Metaproteomics of a gutless marine worm and its symbiotic microbial community reveal unusual pathways for carbon and energy use. Proc Natl Acad Sci USA 109: E1173-E1182.
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. E1173-E1182
-
-
Kleiner, M.1
Wentrup, C.2
Lott, C.3
Teeling, H.4
Wetzel, S.5
Young, J.6
-
36
-
-
79953028506
-
Pyrosequencing reveals highly diverse and species-specific microbial communities in sponges from the Red Sea
-
Lee, O.O., Wang, Y., Yang, J., Lafi, F.F., Al-Suwailem, A., and Qian, P.Y. (2011) Pyrosequencing reveals highly diverse and species-specific microbial communities in sponges from the Red Sea. ISME J 5: 650-664.
-
(2011)
ISME J
, vol.5
, pp. 650-664
-
-
Lee, O.O.1
Wang, Y.2
Yang, J.3
Lafi, F.F.4
Al-Suwailem, A.5
Qian, P.Y.6
-
37
-
-
33747479446
-
Archaea predominate among ammonia-oxidizing prokaryotes in soils
-
Leininger, S., Urich, T., Schloter, M., Schwark, L., Qi, J., Nicol, G.W., etal. (2006) Archaea predominate among ammonia-oxidizing prokaryotes in soils. Nature 442: 806-809.
-
(2006)
Nature
, vol.442
, pp. 806-809
-
-
Leininger, S.1
Urich, T.2
Schloter, M.3
Schwark, L.4
Qi, J.5
Nicol, G.W.6
-
38
-
-
84863980618
-
Metaproteogenomic analysis of a community of sponge symbionts
-
Liu, M., Fan, L., Zhong, L., Kjelleberg, S., and Thomas, T. (2012) Metaproteogenomic analysis of a community of sponge symbionts. ISME J 6: 1515-1525.
-
(2012)
ISME J
, vol.6
, pp. 1515-1525
-
-
Liu, M.1
Fan, L.2
Zhong, L.3
Kjelleberg, S.4
Thomas, T.5
-
39
-
-
77956590878
-
Exploring the role of microorganisms in the disease-like syndrome affecting the sponge Ianthella basta
-
Luter, H.M., Whalan, S., and Webster, N.S. (2010) Exploring the role of microorganisms in the disease-like syndrome affecting the sponge Ianthella basta. Appl Environ Microbiol 76: 5736-5744.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 5736-5744
-
-
Luter, H.M.1
Whalan, S.2
Webster, N.S.3
-
40
-
-
53549118607
-
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes
-
Meyer, F., Paarmann, D., D'Souza, M., Olson, R., Glass, E.M., Kubal, M., etal. (2008) The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9: 386.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 386
-
-
Meyer, F.1
Paarmann, D.2
D'Souza, M.3
Olson, R.4
Glass, E.M.5
Kubal, M.6
-
41
-
-
84863882374
-
Integrating protein homeostasis strategies in prokaryotes
-
Mogk, A., Huber, D., and Bukau, B. (2011) Integrating protein homeostasis strategies in prokaryotes. Cold Spring Harb Perspect Biol 3: a004366.
-
(2011)
Cold Spring Harb Perspect Biol
, vol.3
, pp. a004366
-
-
Mogk, A.1
Huber, D.2
Bukau, B.3
-
42
-
-
52949128704
-
Diversity and expression of nitrogen fixation genes in bacterial symbionts of marine sponges
-
Mohamed, N.M., Colman, A.S., Tal, Y., and Hill, R.T. (2008) Diversity and expression of nitrogen fixation genes in bacterial symbionts of marine sponges. Environ Microbiol 10: 2910-2921.
-
(2008)
Environ Microbiol
, vol.10
, pp. 2910-2921
-
-
Mohamed, N.M.1
Colman, A.S.2
Tal, Y.3
Hill, R.T.4
-
43
-
-
84896363836
-
Specificity and transcriptional activity of microbiota associated with low and high microbial abundance sponges from the Red Sea
-
Moitinho-Silva, L., Bayer, K., Cannistraci, C.V., Giles, E.C., Ryu, T., Seridi, L., etal. (2014) Specificity and transcriptional activity of microbiota associated with low and high microbial abundance sponges from the Red Sea. Mol Ecol 23: 1348-1363.
-
(2014)
Mol Ecol
, vol.23
, pp. 1348-1363
-
-
Moitinho-Silva, L.1
Bayer, K.2
Cannistraci, C.V.3
Giles, E.C.4
Ryu, T.5
Seridi, L.6
-
44
-
-
68049111391
-
Metatranscriptomics: eavesdropping on complex microbial communities
-
Moran, M.A. (2009) Metatranscriptomics: eavesdropping on complex microbial communities. Microbe 4: 329-335.
-
(2009)
Microbe
, vol.4
, pp. 329-335
-
-
Moran, M.A.1
-
45
-
-
84872965253
-
Sizing up metatranscriptomics
-
Moran, M.A., Satinsky, B., Gifford, S.M., Luo, H., Rivers, A., Chan, L.-K., etal. (2013) Sizing up metatranscriptomics. ISME J 7: 237-243.
-
(2013)
ISME J
, vol.7
, pp. 237-243
-
-
Moran, M.A.1
Satinsky, B.2
Gifford, S.M.3
Luo, H.4
Rivers, A.5
Chan, L.-K.6
-
46
-
-
0037180794
-
SAR11 clade dominates ocean surface bacterioplankton communities
-
Morris, R.M., Rappé, M.S., Connon, S.A., Vergin, K.L., Siebold, W.A., Carlson, C.A., and Giovannoni, S.J. (2002) SAR11 clade dominates ocean surface bacterioplankton communities. Nature 420: 806-810.
-
(2002)
Nature
, vol.420
, pp. 806-810
-
-
Morris, R.M.1
Rappé, M.S.2
Connon, S.A.3
Vergin, K.L.4
Siebold, W.A.5
Carlson, C.A.6
Giovannoni, S.J.7
-
47
-
-
80053642618
-
Thaumarchaeotes abundant in refinery nitrifying sludges express amoA but are not obligate autotrophic ammonia oxidizers
-
Mussmann, M., Brito, I., Pitcher, A., Sinninghe Damsté, J.S., Hatzenpichler, R., Richter, A., etal. (2011) Thaumarchaeotes abundant in refinery nitrifying sludges express amoA but are not obligate autotrophic ammonia oxidizers. Proc Natl Acad Sci USA 108: 16771-16776.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 16771-16776
-
-
Mussmann, M.1
Brito, I.2
Pitcher, A.3
Sinninghe Damsté, J.S.4
Hatzenpichler, R.5
Richter, A.6
-
48
-
-
84855462375
-
Biogeography of pelagic bacterioplankton across an antagonistic temperature-salinity gradient in the Red Sea
-
Ngugi, D.K., Antunes, A., Brune, A., and Stingl, U. (2012) Biogeography of pelagic bacterioplankton across an antagonistic temperature-salinity gradient in the Red Sea. Mol Ecol 21: 388-405.
-
(2012)
Mol Ecol
, vol.21
, pp. 388-405
-
-
Ngugi, D.K.1
Antunes, A.2
Brune, A.3
Stingl, U.4
-
49
-
-
84896374256
-
Ankyrin-repeat proteins from sponge symbionts modulate amoebal phagocytosis
-
Nguyen, M.T.H.D., Liu, M., and Thomas, T. (2014) Ankyrin-repeat proteins from sponge symbionts modulate amoebal phagocytosis. Mol Ecol 23: 1635-1645.
-
(2014)
Mol Ecol
, vol.23
, pp. 1635-1645
-
-
Nguyen, M.T.H.D.1
Liu, M.2
Thomas, T.3
-
50
-
-
25644458211
-
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes
-
Overbeek, R., Begley, T., Butler, R.M., Choudhuri, J.V., Chuang, H.Y., Cohoon, M., etal. (2005) The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res 33: 5691-5702.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5691-5702
-
-
Overbeek, R.1
Begley, T.2
Butler, R.M.3
Choudhuri, J.V.4
Chuang, H.Y.5
Cohoon, M.6
-
51
-
-
66649089244
-
Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre
-
Poretsky, R.S., Hewson, I., Sun, S., Allen, A.E., Zehr, J.P., and Moran, M.A. (2009) Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre. Environ Microbiol 11: 1358-1375.
-
(2009)
Environ Microbiol
, vol.11
, pp. 1358-1375
-
-
Poretsky, R.S.1
Hewson, I.2
Sun, S.3
Allen, A.E.4
Zehr, J.P.5
Moran, M.A.6
-
52
-
-
84859423097
-
Ammonia-oxidizing archaea as main drivers of nitrification in cold-water sponges: archaeal nitrification in cold-water sponges
-
Radax, R., Hoffmann, F., Rapp, H.T., Leininger, S., and Schleper, C. (2012a) Ammonia-oxidizing archaea as main drivers of nitrification in cold-water sponges: archaeal nitrification in cold-water sponges. Environ Microbiol 14: 909-923.
-
(2012)
Environ Microbiol
, vol.14
, pp. 909-923
-
-
Radax, R.1
Hoffmann, F.2
Rapp, H.T.3
Leininger, S.4
Schleper, C.5
-
53
-
-
84859945291
-
Metatranscriptomics of the marine sponge Geodia barretti: tackling phylogeny and function of its microbial community
-
Radax, R., Rattei, T., Lanzen, A., Bayer, C., Rapp, H.T., Urich, T., and Schleper, C. (2012b) Metatranscriptomics of the marine sponge Geodia barretti: tackling phylogeny and function of its microbial community. Environ Microbiol 14: 1308-1324.
-
(2012)
Environ Microbiol
, vol.14
, pp. 1308-1324
-
-
Radax, R.1
Rattei, T.2
Lanzen, A.3
Bayer, C.4
Rapp, H.T.5
Urich, T.6
Schleper, C.7
-
54
-
-
84878766532
-
Remote sensing the phytoplankton seasonal succession of the Red Sea
-
Raitsos, D.E., Pradhan, Y., Brewin, R.J., Stenchikov, G., and Hoteit, I. (2013) Remote sensing the phytoplankton seasonal succession of the Red Sea. PLoS ONE 8: e64909.
-
(2013)
PLoS ONE
, vol.8
, pp. e64909
-
-
Raitsos, D.E.1
Pradhan, Y.2
Brewin, R.J.3
Stenchikov, G.4
Hoteit, I.5
-
55
-
-
0033794271
-
Susceptibility to oxidative stress of the Mediterranean demosponge Petrosia ficiformis: role of endosymbionts and solar irradiance
-
Regoli, F., Cerrano, C., Chierici, E., Bompadre, S., and Bavestrello, G. (2000) Susceptibility to oxidative stress of the Mediterranean demosponge Petrosia ficiformis: role of endosymbionts and solar irradiance. Mar Biol 137: 453-461.
-
(2000)
Mar Biol
, vol.137
, pp. 453-461
-
-
Regoli, F.1
Cerrano, C.2
Chierici, E.3
Bompadre, S.4
Bavestrello, G.5
-
56
-
-
17744392073
-
Water transport, respiration and energetics of three tropical marine sponges
-
Reiswig, H.M. (1974) Water transport, respiration and energetics of three tropical marine sponges. J Exp Mar Bio Ecol 14: 231-249.
-
(1974)
J Exp Mar Bio Ecol
, vol.14
, pp. 231-249
-
-
Reiswig, H.M.1
-
57
-
-
84859970141
-
Functional convergence of microbes associated with temperate marine sponges
-
Ribes, M., Jimenez, E., Yahel, G., Lopez-Sendino, P., Diez, B., Massana, R., etal. (2012) Functional convergence of microbes associated with temperate marine sponges. Environ Microbiol 14: 1224-1239.
-
(2012)
Environ Microbiol
, vol.14
, pp. 1224-1239
-
-
Ribes, M.1
Jimenez, E.2
Yahel, G.3
Lopez-Sendino, P.4
Diez, B.5
Massana, R.6
-
58
-
-
84880917958
-
Metatranscriptomics reveal differences in in situ energy and nitrogen metabolism among hydrothermal vent snail symbionts
-
Sanders, J.G., Beinart, R.A., Stewart, F.J., Delong, E.F., and Girguis, P.R. (2013) Metatranscriptomics reveal differences in in situ energy and nitrogen metabolism among hydrothermal vent snail symbionts. ISME J 7: 1556-1567.
-
(2013)
ISME J
, vol.7
, pp. 1556-1567
-
-
Sanders, J.G.1
Beinart, R.A.2
Stewart, F.J.3
Delong, E.F.4
Girguis, P.R.5
-
59
-
-
84884551538
-
Use of internal standards for quantitative metatranscriptome and metagenome analysis
-
Satinsky, B.M., Gifford, S.M., Crump, B.C., and Moran, M.A. (2013) Use of internal standards for quantitative metatranscriptome and metagenome analysis. Methods Enzymol 531: 237-250.
-
(2013)
Methods Enzymol
, vol.531
, pp. 237-250
-
-
Satinsky, B.M.1
Gifford, S.M.2
Crump, B.C.3
Moran, M.A.4
-
60
-
-
79955973823
-
The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacterium Nocardioides sp. strain CF8 is a novel member of the AMO/PMO family
-
Sayavedra-Soto, L.A., Hamamura, N., Liu, C.-W., Kimbrel, J.A., Chang, J.H., and Arp, D.J. (2011) The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacterium Nocardioides sp. strain CF8 is a novel member of the AMO/PMO family. Environ Microbiol Rep 3: 390-396.
-
(2011)
Environ Microbiol Rep
, vol.3
, pp. 390-396
-
-
Sayavedra-Soto, L.A.1
Hamamura, N.2
Liu, C.-W.3
Kimbrel, J.A.4
Chang, J.H.5
Arp, D.J.6
-
61
-
-
46149094595
-
New substrates for TonB-dependent transport: do we only see the 'tip of the iceberg'?
-
Schauer, K., Rodionov, D.A., and de Reuse, H. (2008) New substrates for TonB-dependent transport: do we only see the 'tip of the iceberg'? Trends Biochem Sci 33: 330-338.
-
(2008)
Trends Biochem Sci
, vol.33
, pp. 330-338
-
-
Schauer, K.1
Rodionov, D.A.2
de Reuse, H.3
-
62
-
-
77649340938
-
Evidence of nitrification and denitrification in high and low microbial abundance sponges
-
Schläppy, M.-L., Schöttner, S.I., Lavik, G., Kuypers, M.M.M., Beer, D., and Hoffmann, F. (2010) Evidence of nitrification and denitrification in high and low microbial abundance sponges. Mar Biol 157: 593-602.
-
(2010)
Mar Biol
, vol.157
, pp. 593-602
-
-
Schläppy, M.-L.1
Schöttner, S.I.2
Lavik, G.3
Kuypers, M.M.M.4
Beer, D.5
Hoffmann, F.6
-
63
-
-
84857121586
-
Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges
-
Schmitt, S., Tsai, P., Bell, J., Fromont, J., Ilan, M., Lindquist, N., etal. (2012) Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges. ISME J 6: 564-576.
-
(2012)
ISME J
, vol.6
, pp. 564-576
-
-
Schmitt, S.1
Tsai, P.2
Bell, J.3
Fromont, J.4
Ilan, M.5
Lindquist, N.6
-
64
-
-
79956287318
-
Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean
-
Shi, Y., Tyson, G.W., Eppley, J.M., and DeLong, E.F. (2011) Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean. ISME J 5: 999-1013.
-
(2011)
ISME J
, vol.5
, pp. 999-1013
-
-
Shi, Y.1
Tyson, G.W.2
Eppley, J.M.3
DeLong, E.F.4
-
65
-
-
84871420177
-
Sponge-microbe associations survive high nutrients and temperatures
-
Simister, R.L., Taylor, M.W., Tsai, P., and Webster, N. (2012a) Sponge-microbe associations survive high nutrients and temperatures. PLoS ONE 7: e52220.
-
(2012)
PLoS ONE
, vol.7
, pp. e52220
-
-
Simister, R.L.1
Taylor, M.W.2
Tsai, P.3
Webster, N.4
-
66
-
-
84856569941
-
Sponge-specific clusters revisited: a comprehensive phylogeny of sponge-associated microorganisms
-
Simister, R.L., Deines, P., Botte, E.S., Webster, N.S., and Taylor, M.W. (2012b) Sponge-specific clusters revisited: a comprehensive phylogeny of sponge-associated microorganisms. Environ Microbiol 14: 517-524.
-
(2012)
Environ Microbiol
, vol.14
, pp. 517-524
-
-
Simister, R.L.1
Deines, P.2
Botte, E.S.3
Webster, N.S.4
Taylor, M.W.5
-
67
-
-
14244253561
-
Two novel phycoerythrin-associated linker proteins in the marine cyanobacterium Synechococcus sp. strain WH8102
-
Six, C., Thomas, J.-C., Thion, L., Lemoine, Y., Zal, F., and Partensky, F. (2005) Two novel phycoerythrin-associated linker proteins in the marine cyanobacterium Synechococcus sp. strain WH8102. J Bacteriol 187: 1685-1694.
-
(2005)
J Bacteriol
, vol.187
, pp. 1685-1694
-
-
Six, C.1
Thomas, J.-C.2
Thion, L.3
Lemoine, Y.4
Zal, F.5
Partensky, F.6
-
68
-
-
84872250001
-
Physiology and diversity of ammonia-oxidizing archaea
-
Stahl, D.A., and de la Torre, J.R. (2012) Physiology and diversity of ammonia-oxidizing archaea. Annu Rev Microbiol 66: 83-101.
-
(2012)
Annu Rev Microbiol
, vol.66
, pp. 83-101
-
-
Stahl, D.A.1
de la Torre, J.R.2
-
69
-
-
84884561756
-
Preparation of microbial community cDNA for metatranscriptomic analysis in marine plankton
-
Stewart, F.J. (2013) Preparation of microbial community cDNA for metatranscriptomic analysis in marine plankton. Methods Enzymol 531: 187-218.
-
(2013)
Methods Enzymol
, vol.531
, pp. 187-218
-
-
Stewart, F.J.1
-
70
-
-
77954086440
-
Development and quantitative analyses of a universal rRNA-subtraction protocol for microbial metatranscriptomics
-
Stewart, F.J., Ottesen, E.A., and DeLong, E.F. (2010) Development and quantitative analyses of a universal rRNA-subtraction protocol for microbial metatranscriptomics. ISME J 4: 896-907.
-
(2010)
ISME J
, vol.4
, pp. 896-907
-
-
Stewart, F.J.1
Ottesen, E.A.2
DeLong, E.F.3
-
71
-
-
0036229440
-
Role of rubrerythrin in the oxidative stress response of Porphyromonas gingivalis
-
Sztukowska, M., Bugno, M., Potempa, J., Travis, J., and Kurtz, D.M., Jr (2002) Role of rubrerythrin in the oxidative stress response of Porphyromonas gingivalis. Mol Microbiol 44: 479-488.
-
(2002)
Mol Microbiol
, vol.44
, pp. 479-488
-
-
Sztukowska, M.1
Bugno, M.2
Potempa, J.3
Travis, J.4
Kurtz Jr, D.M.5
-
72
-
-
34250733462
-
Sponge-associated microorganisms: evolution, ecology, and biotechnological potential
-
Taylor, M.W., Radax, R., Steger, D., and Wagner, M. (2007) Sponge-associated microorganisms: evolution, ecology, and biotechnological potential. Microbiol Mol Biol Rev 71: 295-347.
-
(2007)
Microbiol Mol Biol Rev
, vol.71
, pp. 295-347
-
-
Taylor, M.W.1
Radax, R.2
Steger, D.3
Wagner, M.4
-
73
-
-
84872914192
-
Sponge-specific' bacteria are widespread (but rare) in diverse marine environments
-
Taylor, M.W., Tsai, P., Simister, R.L., Deines, P., Botte, E., Ericson, G., etal. (2013) 'Sponge-specific' bacteria are widespread (but rare) in diverse marine environments. ISME J 7: 438-443.
-
(2013)
ISME J
, vol.7
, pp. 438-443
-
-
Taylor, M.W.1
Tsai, P.2
Simister, R.L.3
Deines, P.4
Botte, E.5
Ericson, G.6
-
74
-
-
84860488672
-
Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom
-
Teeling, H., Fuchs, B.M., Becher, D., Klockow, C., Gardebrecht, A., Bennke, C.M., etal. (2012) Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom. Science 336: 608-611.
-
(2012)
Science
, vol.336
, pp. 608-611
-
-
Teeling, H.1
Fuchs, B.M.2
Becher, D.3
Klockow, C.4
Gardebrecht, A.5
Bennke, C.M.6
-
75
-
-
78649450996
-
Functional genomic signatures of sponge bacteria reveal unique and shared features of symbiosis
-
Thomas, T., Rusch, D., DeMaere, M.Z., Yung, P.Y., Lewis, M., Halpern, A., etal. (2010) Functional genomic signatures of sponge bacteria reveal unique and shared features of symbiosis. ISME J 4: 1557-1567.
-
(2010)
ISME J
, vol.4
, pp. 1557-1567
-
-
Thomas, T.1
Rusch, D.2
DeMaere, M.Z.3
Yung, P.Y.4
Lewis, M.5
Halpern, A.6
-
76
-
-
0036498845
-
Cyanobacterial photosynthesis in the oceans: the origins and significance of divergent light-harvesting strategies
-
Ting, C.S., Rocap, G., King, J., and Chisholm, S.W. (2002) Cyanobacterial photosynthesis in the oceans: the origins and significance of divergent light-harvesting strategies. Trends Microbiol 10: 134-142.
-
(2002)
Trends Microbiol
, vol.10
, pp. 134-142
-
-
Ting, C.S.1
Rocap, G.2
King, J.3
Chisholm, S.W.4
-
77
-
-
80455129664
-
Misannotations of rRNA can now generate 90% false positive protein matches in metatranscriptomic studies
-
Tripp, H.J., Hewson, I., Boyarsky, S., Stuart, J.M., and Zehr, J.P. (2011) Misannotations of rRNA can now generate 90% false positive protein matches in metatranscriptomic studies. Nucleic Acids Res 39: 8792-8802.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 8792-8802
-
-
Tripp, H.J.1
Hewson, I.2
Boyarsky, S.3
Stuart, J.M.4
Zehr, J.P.5
-
78
-
-
49649087440
-
Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome
-
Urich, T., Lanzén, A., Qi, J., Huson, D.H., Schleper, C., and Schuster, S.C. (2008) Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome. PLoS ONE 3: e2527.
-
(2008)
PLoS ONE
, vol.3
, pp. e2527
-
-
Urich, T.1
Lanzén, A.2
Qi, J.3
Huson, D.H.4
Schleper, C.5
Schuster, S.C.6
-
79
-
-
0036069054
-
A new species of carnivorous deep-sea sponge (Demospongiae: Cladorhizidae) associated with methanotrophic bacteria
-
Vacelet, J., and Boury-Esnault, N. (2002) A new species of carnivorous deep-sea sponge (Demospongiae: Cladorhizidae) associated with methanotrophic bacteria. Cahiers de Biologie Marine 43: 141-148.
-
(2002)
Cahiers de Biologie Marine
, vol.43
, pp. 141-148
-
-
Vacelet, J.1
Boury-Esnault, N.2
-
80
-
-
36849146661
-
A methanotrophic carnivorous sponge
-
Vacelet, J., Boury-Esnault, N., Fiala-Medioni, A., and Fisher, C.R. (1995) A methanotrophic carnivorous sponge. Nature 377: 296-296.
-
(1995)
Nature
, vol.377
, pp. 296-296
-
-
Vacelet, J.1
Boury-Esnault, N.2
Fiala-Medioni, A.3
Fisher, C.R.4
-
81
-
-
58549089276
-
Shotgun metaproteomics of the human distal gut microbiota
-
Verberkmoes, N.C., Russell, A.L., Shah, M., Godzik, A., Rosenquist, M., Halfvarson, J., etal. (2009) Shotgun metaproteomics of the human distal gut microbiota. ISME J 3: 179-189.
-
(2009)
ISME J
, vol.3
, pp. 179-189
-
-
Verberkmoes, N.C.1
Russell, A.L.2
Shah, M.3
Godzik, A.4
Rosenquist, M.5
Halfvarson, J.6
-
82
-
-
0031669235
-
Nitrogen recycling or nitrogen conservation in an alga-invertebrate symbiosis?
-
Wang, J., and Douglas, A.E. (1998) Nitrogen recycling or nitrogen conservation in an alga-invertebrate symbiosis? J Exp Biol 201: 2445-2453.
-
(1998)
J Exp Biol
, vol.201
, pp. 2445-2453
-
-
Wang, J.1
Douglas, A.E.2
-
83
-
-
34248512288
-
Sponge disease: a global threat?
-
Webster, N.S. (2007) Sponge disease: a global threat? Environ Microbiol 9: 1363-1375.
-
(2007)
Environ Microbiol
, vol.9
, pp. 1363-1375
-
-
Webster, N.S.1
-
84
-
-
49449089866
-
Temperature thresholds for bacterial symbiosis with a sponge
-
Webster, N.S., Cobb, R.E., and Negri, A.P. (2008) Temperature thresholds for bacterial symbiosis with a sponge. ISME J 2: 830-842.
-
(2008)
ISME J
, vol.2
, pp. 830-842
-
-
Webster, N.S.1
Cobb, R.E.2
Negri, A.P.3
-
85
-
-
77955263252
-
Deep sequencing reveals exceptional diversity and modes of transmission for bacterial sponge symbionts
-
Webster, N.S., Taylor, M.W., Behnam, F., Lucker, S., Rattei, T., Whalan, S., etal. (2010) Deep sequencing reveals exceptional diversity and modes of transmission for bacterial sponge symbionts. Environ Microbiol 12: 2070-2082.
-
(2010)
Environ Microbiol
, vol.12
, pp. 2070-2082
-
-
Webster, N.S.1
Taylor, M.W.2
Behnam, F.3
Lucker, S.4
Rattei, T.5
Whalan, S.6
-
86
-
-
9244263012
-
Rubrerythrin from the hyperthermophilic archaeon Pyrococcus furiosus is a rubredoxin-dependent, iron-containing peroxidase
-
Weinberg, M.V., Jenney, F.E., Jr, Cui, X., and Adams, M.W. (2004) Rubrerythrin from the hyperthermophilic archaeon Pyrococcus furiosus is a rubredoxin-dependent, iron-containing peroxidase. J Bacteriol 186: 7888-7895.
-
(2004)
J Bacteriol
, vol.186
, pp. 7888-7895
-
-
Weinberg, M.V.1
Jenney Jr, F.E.2
Cui, X.3
Adams, M.W.4
-
87
-
-
34547118551
-
Linking abundance and diversity of sponge-associated microbial communities to metabolic differences in host sponges
-
Weisz, J., Hentschel, U., Lindquist, N., and Martens, C. (2007) Linking abundance and diversity of sponge-associated microbial communities to metabolic differences in host sponges. Mar Biol 152: 475-483.
-
(2007)
Mar Biol
, vol.152
, pp. 475-483
-
-
Weisz, J.1
Hentschel, U.2
Lindquist, N.3
Martens, C.4
-
88
-
-
0020675886
-
Net primary productivity in coral reef sponges
-
Wilkinson, C.R. (1983) Net primary productivity in coral reef sponges. Science 219: 410-412.
-
(1983)
Science
, vol.219
, pp. 410-412
-
-
Wilkinson, C.R.1
-
89
-
-
84893542053
-
An environmental bacterial taxon with a large and distinct metabolic repertoire
-
Wilson, M.C., Mori, T., Ruckert, C., Uria, A.R., Helf, M.J., Takada, K., etal. (2014) An environmental bacterial taxon with a large and distinct metabolic repertoire. Nature 506: 58-62.
-
(2014)
Nature
, vol.506
, pp. 58-62
-
-
Wilson, M.C.1
Mori, T.2
Ruckert, C.3
Uria, A.R.4
Helf, M.J.5
Takada, K.6
-
90
-
-
0037247127
-
In situ feeding and element removal in the symbiont-bearing sponge Theonella swinhoei: bulk DOC is the major source for carbon
-
Yahel, G., Sharp, J.H., Marie, D., Häse, C., and Genin, A. (2003) In situ feeding and element removal in the symbiont-bearing sponge Theonella swinhoei: bulk DOC is the major source for carbon. Limnol Oceanogr 48: 141-149.
-
(2003)
Limnol Oceanogr
, vol.48
, pp. 141-149
-
-
Yahel, G.1
Sharp, J.H.2
Marie, D.3
Häse, C.4
Genin, A.5
-
91
-
-
84861633828
-
Metagenomic and metatranscriptomic analysis of microbial community structure and gene expression of activated sludge
-
Yu, K., and Zhang, T. (2012) Metagenomic and metatranscriptomic analysis of microbial community structure and gene expression of activated sludge. PLoS ONE 7: e38183.
-
(2012)
PLoS ONE
, vol.7
, pp. e38183
-
-
Yu, K.1
Zhang, T.2
|