-
1
-
-
84861988021
-
Microbiota, disease, and back to health: a metastable journey
-
Blumberg R, Powrie F. 2012. Microbiota, disease, and back to health: a metastable journey. Sci Transl Med 4:137rv7. http://dx.doi.org/10.1126 /scitranslmed.3004184.
-
(2012)
Sci Transl Med
, vol.4
-
-
Blumberg, R.1
Powrie, F.2
-
2
-
-
84881248839
-
The gut microbiota of insects- diversity in structure and function
-
Engel P, Moran NA. 2013. The gut microbiota of insects- diversity in structure and function. FEMS Microbiol Rev 37:699-735. http://dx.doi.org/10.1111/1574-6976.12025.
-
(2013)
FEMS Microbiol Rev
, vol.37
, pp. 699-735
-
-
Engel, P.1
Moran, N.A.2
-
3
-
-
79959894418
-
Understanding the role of gut microbiome-host metabolic signal disruption in health and disease
-
Holmes E, Li JV, Athanasiou T, Ashrafian H, Nicholson JK. 2011. Understanding the role of gut microbiome-host metabolic signal disruption in health and disease. Trends Microbiol 19:349-359. http://dx.doi.org/10.1016/j.tim.2011.05.006.
-
(2011)
Trends Microbiol
, vol.19
, pp. 349-359
-
-
Holmes, E.1
Li, J.V.2
Athanasiou, T.3
Ashrafian, H.4
Nicholson, J.K.5
-
4
-
-
46249085739
-
Evolution of mammals and their gut microbes
-
Ley RE, Hamady M, Lozupone C, Turnbaugh PJ, Ramey RR, Bircher JS, Schlegel ML, Tucker TA, Schrenzel MD, Knight R, Gordon JI. 2008. Evolution of mammals and their gut microbes. Science 320:1647-1651. http://dx.doi.org/10.1126/science.1155725.
-
(2008)
Science
, vol.320
, pp. 1647-1651
-
-
Ley, R.E.1
Hamady, M.2
Lozupone, C.3
Turnbaugh, P.J.4
Ramey, R.R.5
Bircher, J.S.6
Schlegel, M.L.7
Tucker, T.A.8
Schrenzel, M.D.9
Knight, R.10
Gordon, J.I.11
-
5
-
-
84860486227
-
Distinctive gut microbiota of honey bees assessed using deep sampling from individual worker bees
-
Moran NA, Hansen AK, Powell JE, Sabree ZL. 2012. Distinctive gut microbiota of honey bees assessed using deep sampling from individual worker bees. PLoS One 7:e36393. http://dx.doi.org/10.1371/journal.pone.0036393.
-
(2012)
PLoS One
, vol.7
-
-
Moran, N.A.1
Hansen, A.K.2
Powell, J.E.3
Sabree, Z.L.4
-
6
-
-
85045352145
-
Functional and evolutionary insights into the simple yet specific gut microbiota of the honey bee from metagenomic analysis
-
Engel P, Moran NA. 2012. Functional and evolutionary insights into the simple yet specific gut microbiota of the honey bee from metagenomic analysis. Gut Microbes 4:60-65. http://dx.doi.org/10.4161/gmic.22517.
-
(2012)
Gut Microbes
, vol.4
, pp. 60-65
-
-
Engel, P.1
Moran, N.A.2
-
7
-
-
84884245135
-
Frischella perrara gen nov., sp. nov., a gammaproteobacterium isolated from the gut of the honey bee, Apis mellifera
-
Engel P, Kwong WK, Moran NA. 2013. Frischella perrara gen. nov., sp. nov., a gammaproteobacterium isolated from the gut of the honey bee, Apis mellifera. Int J Syst Evol Microbiol 63:3646-3651. http://dx.doi.org /10.1099/ijs.0.049569-0.
-
(2013)
Int J Syst Evol Microbiol
, vol.63
, pp. 3646-3651
-
-
Engel, P.1
Kwong, W.K.2
Moran, N.A.3
-
8
-
-
84878887226
-
Cultivation and characterization of the gut symbionts of honey bees and bumble bees: Snodgrassella alvi gen nov., sp. nov., a member of the Neisseriaceae family of the Betaproteobacteria; and Gilliamella apicola gen. nov., sp. nov., a member of Orbaceae fam. nov., Orbales ord. nov., a sister taxon to the Enterobacteriales order of the Gammaproteobacteria.
-
Kwong WK, Moran NA. 2012. Cultivation and characterization of the gut symbionts of honey bees and bumble bees: Snodgrassella alvi gen. nov., sp. nov., a member of the Neisseriaceae family of the Betaproteobacteria; and Gilliamella apicola gen. nov., sp. nov., a member of Orbaceae fam. nov., Orbales ord. nov., a sister taxon to the Enterobacteriales order of the Gammaproteobacteria. Int J Syst Evol Microbiol 63:2008-2018. http://dx.doi.org/10.1099/ijs.0.044875-0.
-
(2012)
Int J Syst Evol Microbiol
, vol.63
, pp. 2008-2018
-
-
Kwong, W.K.1
Moran, N.A.2
-
9
-
-
84860462269
-
Establishment of characteristic gut bacteria during development of the honeybee worker
-
Martinson VG, Moy J, Moran NA. 2012. Establishment of characteristic gut bacteria during development of the honeybee worker. Appl Environ Microbiol 78:2830-2840. http://dx.doi.org/10.1128/AEM.07810-11.
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 2830-2840
-
-
Martinson, V.G.1
Moy, J.2
Moran, N.A.3
-
10
-
-
84863578700
-
Functional diversity within the simple gut microbiota of the honey bee
-
Engel P, Martinson VG, Moran NA. 2012. Functional diversity within the simple gut microbiota of the honey bee. Proc Natl Acad Sci U S A 109:11002-11007. http://dx.doi.org/10.1073/pnas.1202970109.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 11002-11007
-
-
Engel, P.1
Martinson, V.G.2
Moran, N.A.3
-
11
-
-
84905671437
-
Genomics and host specialization of honey bee and bumble bee gut symbionts
-
Kwong WK, Engel P, Koch H, Moran NA. 2014. Genomics and host specialization of honey bee and bumble bee gut symbionts. Proc Natl Acad Sci U S A 111:11509-11514. http://dx.doi.org/10.1073/pnas.1405838111.
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 11509-11514
-
-
Kwong, W.K.1
Engel, P.2
Koch, H.3
Moran, N.A.4
-
12
-
-
84864058226
-
Independent studies using deep sequencing resolve the same set of core bacterial species dominating gut communities of honey bees
-
Sabree ZL, Hansen AK, Moran NA. 2012. Independent studies using deep sequencing resolve the same set of core bacterial species dominating gut communities of honey bees. PLoS One 7:e41250. http://dx.doi.org/10.1371/journal.pone.0041250.
-
(2012)
PLoS One
, vol.7
-
-
Sabree, Z.L.1
Hansen, A.K.2
Moran, N.A.3
-
13
-
-
78751670451
-
A simple and distinctive microbiota associated with honey bees and bumble bees
-
Martinson VG, Danforth BN, Minckley RL, Rueppell O, Tingek S, Moran NA. 2011. A simple and distinctive microbiota associated with honey bees and bumble bees. Mol Ecol 20:619-628. http://dx.doi.org/10.1111/j.1365-294X.2010.04959.x.
-
(2011)
Mol Ecol
, vol.20
, pp. 619-628
-
-
Martinson, V.G.1
Danforth, B.N.2
Minckley, R.L.3
Rueppell, O.4
Tingek, S.5
Moran, N.A.6
-
14
-
-
84881310832
-
Defensive bacteriome symbiont with a drastically reduced genome
-
Nakabachi A, Ueoka R, Oshima K, Teta R, Mangoni A, Gurgui M, Oldham NJ, van Echten-Deckert G, Okamura M, Hongoh Y, Miyagishima S-Y, Hattori M, Piel J, Fukatsu T. 2013. Defensive bacteriome symbiont with a drastically reduced genome. Curr Biol 23:1478-1484. http://dx.doi.org/10.1016/j.cub.2013.06.027.
-
(2013)
Curr Biol
, vol.23
, pp. 1478-1484
-
-
Nakabachi, A.1
Ueoka, R.2
Oshima, K.3
Teta, R.4
Mangoni, A.5
Gurgui, M.6
Oldham, N.J.7
van Echten-Deckert, G.8
Okamura, M.9
Hongoh, Y.10
Miyagishima, S.-Y.11
Hattori, M.12
Piel, J.13
Fukatsu, T.14
-
15
-
-
33746208944
-
HC-toxins
-
Walton JD. 2006. HC-toxins. Phytochemistry 67:1406-1413. http://dx.doi.org/10.1016/j.phytochem.2006.05.033.
-
(2006)
Phytochemistry
, vol.67
, pp. 1406-1413
-
-
Walton, J.D.1
-
16
-
-
0028266830
-
Zwittermicin A, an antifungal and plant protection agent from Bacillus cereus
-
He H, Silo-Suh LA, Handelsman J, Clardy J. 1994. Zwittermicin A, an antifungal and plant protection agent from Bacillus cereus. Tetrahedron Lett 38:2499-2502.
-
(1994)
Tetrahedron Lett
, vol.38
, pp. 2499-2502
-
-
He, H.1
Silo-Suh, L.A.2
Handelsman, J.3
Clardy, J.4
-
18
-
-
77949545789
-
Siderophores from neighboring organisms promote the growth of uncultured bacteria
-
D'Onofrio Crawford JM, Stewart EJ, Witt K, Gavrish E, Epstein S, Clardy J, Lewis K. 2010. Siderophores from neighboring organisms promote the growth of uncultured bacteria. Chem Biol 17:254-264. http://dx.doi.org/10.1016/j.chembiol.2010.02.010.
-
(2010)
Chem Biol
, vol.17
, pp. 254-264
-
-
D'Onofrio Crawford, J.M.1
Stewart, E.J.2
Witt, K.3
Gavrish, E.4
Epstein, S.5
Clardy, J.6
Lewis, K.7
-
19
-
-
77951981537
-
Chemistry and biology of siderophores
-
Hider RC, Kong X. 2010. Chemistry and biology of siderophores. Nat Prod Rep 27:637. http://dx.doi.org/10.1039/b906679a.
-
(2010)
Nat Prod Rep
, vol.27
, pp. 637
-
-
Hider, R.C.1
Kong, X.2
-
20
-
-
33748631825
-
Assembly-line enzymology for polyketide and nonribosomal peptide antibiotics: logic, machinery, and mechanisms
-
Fischbach MA, Walsh CT. 2006. Assembly-line enzymology for polyketide and nonribosomal peptide antibiotics: logic, machinery, and mechanisms. Chem Rev 106:3468-3496. http://dx.doi.org/10.1021 /cr0503097.
-
(2006)
Chem Rev
, vol.106
, pp. 3468-3496
-
-
Fischbach, M.A.1
Walsh, C.T.2
-
21
-
-
0035478654
-
Tailoring enzymes that modify nonribosomal peptides during and after chain elongation on NRPS assembly lines
-
Walsh CT, Chen H, Keating TA, Hubbard BK, Losey HC, Luo L, Marshall G, Miller DA, Patel HM. 2001. Tailoring enzymes that modify nonribosomal peptides during and after chain elongation on NRPS assembly lines. Curr Opin Chem Biol 5:525-534. http://dx.doi.org/10.1016 /S1367-5931(00)00235-0.
-
(2001)
Curr Opin Chem Biol
, vol.5
, pp. 525-534
-
-
Walsh, C.T.1
Chen, H.2
Keating, T.A.3
Hubbard, B.K.4
Losey, H.C.5
Luo, L.6
Marshall, G.7
Miller, D.A.8
Patel, H.M.9
-
22
-
-
79959811774
-
Bacterial symbionts and natural products
-
Crawford JM, Clardy J. 2011. Bacterial symbionts and natural products. Chem Commun (Camb) 47:7559-7566. http://dx.doi.org/10.1039/c1cc1 1574j.
-
(2011)
Chem Commun (Camb)
, vol.47
, pp. 7559-7566
-
-
Crawford, J.M.1
Clardy, J.2
-
23
-
-
84863574162
-
Small molecule perimeter defense in entomopathogenic bacteria
-
Crawford JM, Portmann C, Zhang X, Roeffaers MBJ, Clardy J. 2012. Small molecule perimeter defense in entomopathogenic bacteria. Proc Natl Acad Sci U S A 109:10821-10826. http://dx.doi.org/10.1073/pnas.1201160109.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 10821-10826
-
-
Crawford, J.M.1
Portmann, C.2
Zhang, X.3
Roeffaers, M.B.J.4
Clardy, J.5
-
24
-
-
84882447063
-
Metagenomic natural product discovery in lichen provides evidence for a family of biosynthetic pathways in diverse symbioses
-
Kampa A, Gagunashvili AN, Gulder TAM, Morinaka BI, Daolio C, Godejohann M, Miao VPW, Piel J, Andrésson O. 2013. Metagenomic natural product discovery in lichen provides evidence for a family of biosynthetic pathways in diverse symbioses. Proc Natl Acad Sci U S A 110: E3129-E3137. http://dx.doi.org/10.1073/pnas.1305867110.
-
(2013)
Proc Natl Acad Sci U S A
, vol.110
, pp. E3129-E3137
-
-
Kampa, A.1
Gagunashvili, A.N.2
Gulder, T.A.M.3
Morinaka, B.I.4
Daolio, C.5
Godejohann, M.6
Miao, V.P.W.7
Piel, J.8
Andrésson, O.9
-
25
-
-
38949203821
-
Exploiting the mosaic structure of trans-acyltransferase polyketide synthases for natural product discovery and pathway dissection
-
Nguyen T, Ishida K, Jenke-Kodama H, Dittmann E, Gurgui C, Hochmuth T, Taudien S, Platzer M, Hertweck C, Piel J. 2008. Exploiting the mosaic structure of trans-acyltransferase polyketide synthases for natural product discovery and pathway dissection. Nat Biotechnol 26:225- 233. http://dx.doi.org/10.1038/nbt1379.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 225- 233
-
-
Nguyen, T.1
Ishida, K.2
Jenke-Kodama, H.3
Dittmann, E.4
Gurgui, C.5
Hochmuth, T.6
Taudien, S.7
Platzer, M.8
Hertweck, C.9
Piel, J.10
-
26
-
-
84868607652
-
Genotoxicity of Escherichia coli Nissle 1917 strain cannot be dissociated from its probiotic activity
-
Olier M, Salvador-Cartier C, Secher T, Dobrindt U, Boury M, Bacquié V, Pénary M, Gaultier E, Nougayrede JP, Fioramonti J, Oswald E. 2012. Genotoxicity of Escherichia coli Nissle 1917 strain cannot be dissociated from its probiotic activity. Gut Microbes 3:501-509. http://dx.doi.org/10.4161/gmic.21737.
-
(2012)
Gut Microbes
, vol.3
, pp. 501-509
-
-
Olier, M.1
Salvador-Cartier, C.2
Secher, T.3
Dobrindt, U.4
Boury, M.5
Bacquié, V.6
Pénary, M.7
Gaultier, E.8
Nougayrede, J.P.9
Fioramonti, J.10
Oswald, E.11
-
27
-
-
84874007506
-
High prevalence of mucosa-associated E coli producing cyclomodulin and genotoxin in colon cancer.
-
Buc E, Dubois D, Sauvanet P, Raisch J, Delmas J, Darfeuille-Michaud A, Pezet D, Bonnet R. 2013. High prevalence of mucosa-associated E. coli producing cyclomodulin and genotoxin in colon cancer. PLoS One 8:e56964. http://dx.doi.org/10.1371/journal.pone.0056964.
-
(2013)
PLoS One
, vol.8
-
-
Buc, E.1
Dubois, D.2
Sauvanet, P.3
Raisch, J.4
Delmas, J.5
Darfeuille-Michaud, A.6
Pezet, D.7
Bonnet, R.8
-
28
-
-
33747137269
-
Escherichia coli induces DNA double-strand breaks in eukaryotic cells
-
Nougayrede J-P, Homburg S, Taieb F, Boury M, Brzuszkiewicz E, Gottschalk G, Buchrieser C, Hacker J, Dobrindt U, Oswald E. 2006. Escherichia coli induces DNA double-strand breaks in eukaryotic cells. Science 313:848-851. http://dx.doi.org/10.1126/science.1127059.
-
(2006)
Science
, vol.313
, pp. 848-851
-
-
Nougayrede, J.-P.1
Homburg, S.2
Taieb, F.3
Boury, M.4
Brzuszkiewicz, E.5
Gottschalk, G.6
Buchrieser, C.7
Hacker, J.8
Dobrindt, U.9
Oswald, E.10
-
29
-
-
70350439157
-
Genetic structure and distribution of the colibactin genomic island among members of the family Enterobacteriaceae
-
Putze J, Hennequin C, Nougayrède J-P, Zhang W, Homburg S, Karch H, Bringer M-A, Fayolle C, Carniel E, Rabsch W, Oelschlaeger TA, Oswald E, Forestier C, Hacker J, Dobrindt J. 2009. Genetic structure and distribution of the colibactin genomic island among members of the family Enterobacteriaceae. Infect Immun 77:4696-4703. http://dx.doi.org/10.1128/IAI.00522-09.
-
(2009)
Infect Immun
, vol.77
, pp. 4696-4703
-
-
Putze, J.1
Hennequin, C.2
Nougayrède, J.-P.3
Zhang, W.4
Homburg, S.5
Karch, H.6
Bringer, M.-A.7
Fayolle, C.8
Carniel, E.9
Rabsch, W.10
Oelschlaeger, T.A.11
Oswald, E.12
Forestier, C.13
Hacker, J.14
Dobrindt, J.15
-
30
-
-
84867192879
-
Intestinal inflammation targets cancer-inducing activity of the microbiota
-
Arthur JC, Perez-Chanona E, Mühlbauer M, Tomkovich S, Uronis JM, Fan T-J, Campbell BJ, Abujamel T, Dogan B, Rogers AB, Rhodes JM, Stintzi A, Simpson KW, Hansen JJ, Keku TO, Fodor AA, Jobin C. 2012. Intestinal inflammation targets cancer-inducing activity of the microbiota. Science 338:120-123. http://dx.doi.org/10.1126/science.1224820.
-
(2012)
Science
, vol.338
, pp. 120-123
-
-
Arthur, J.C.1
Perez-Chanona, E.2
Mühlbauer, M.3
Tomkovich, S.4
Uronis, J.M.5
Fan, T.-J.6
Campbell, B.J.7
Abujamel, T.8
Dogan, B.9
Rogers, A.B.10
Rhodes, J.M.11
Stintzi, A.12
Simpson, K.W.13
Hansen, J.J.14
Keku, T.O.15
Fodor, A.A.16
Jobin, C.17
-
31
-
-
77954730486
-
Escherichia coli induces DNA damage in vivo and triggers genomic instability in mammalian cells
-
Cuevas-Ramos G, Petit CR, Marcq I, Boury M, Oswald E, Nougayrède J-P. 2010. Escherichia coli induces DNA damage in vivo and triggers genomic instability in mammalian cells. Proc Natl Acad Sci U S A 107: 11537-11542. http://dx.doi.org/10.1073/pnas.1001261107.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 11537-11542
-
-
Cuevas-Ramos, G.1
Petit, C.R.2
Marcq, I.3
Boury, M.4
Oswald, E.5
Nougayrède, J.-P.6
-
32
-
-
84879842883
-
In vivo evidence for a prodrug activation mechanism during colibactin maturation
-
Bian X, Fu J, Plaza A, Herrmann J, Pistorius D, Stewart AF, Zhang Y, Müller R. 2013. In vivo evidence for a prodrug activation mechanism during colibactin maturation. Chembiochem 14:1194-1197. http://dx.doi.org/10.1002/cbic.201300208.
-
(2013)
Chembiochem
, vol.14
, pp. 1194-1197
-
-
Bian, X.1
Fu, J.2
Plaza, A.3
Herrmann, J.4
Pistorius, D.5
Stewart, A.F.6
Zhang, Y.7
Müller, R.8
-
33
-
-
84874909872
-
A prodrug resistance mechanism is involved in colibactin biosynthesis and cytotoxicity
-
Brotherton CA, Balskus EP. 2013. A prodrug resistance mechanism is involved in colibactin biosynthesis and cytotoxicity. J Am Chem Soc 135: 3359-3362. http://dx.doi.org/10.1021/ja312154m.
-
(2013)
J Am Chem Soc
, vol.135
, pp. 3359-3362
-
-
Brotherton, C.A.1
Balskus, E.P.2
-
34
-
-
84903719462
-
Comparative metabolomics and structural characterizations illuminate colibactin pathway- dependent small molecules
-
Vizcaino MI, Engel P, Trautman E, Crawford JM. 2014. Comparative metabolomics and structural characterizations illuminate colibactin pathway- dependent small molecules. J Am Chem Soc 136:9244-9247. http: //dx.doi.org/10.1021/ja503450q.
-
(2014)
J Am Chem Soc
, vol.136
, pp. 9244-9247
-
-
Vizcaino, M.I.1
Engel, P.2
Trautman, E.3
Crawford, J.M.4
-
35
-
-
84880045850
-
The genus Pseudovibrio contains metabolically versatile bacteria adapted for symbiosis
-
Bondarev V, Richter M, Romano S, Piel J, Schwedt A, Schulz-Vogt HN. 2013. The genus Pseudovibrio contains metabolically versatile bacteria adapted for symbiosis. Environ Microbiol 15:2095-2113. http://dx.doi.org/10.1111/1462-2920.12123.
-
(2013)
Environ Microbiol
, vol.15
, pp. 2095-2113
-
-
Bondarev, V.1
Richter, M.2
Romano, S.3
Piel, J.4
Schwedt, A.5
Schulz-Vogt, H.N.6
-
36
-
-
38549101119
-
The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions
-
Markowitz VM, Szeto E, Palaniappan K, Grechkin Y, Chu K, Chen I-MA, Dubchak I, Anderson I, Lykidis A, Mavromatis K, Ivanova NN, Kyprides NC. 2007. The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions. Nucleic Acids Res 36: D528-D533. http://dx.doi.org/10.1093/nar/gkm846.
-
(2007)
Nucleic Acids Res
, vol.36
, pp. D528-D533
-
-
Markowitz, V.M.1
Szeto, E.2
Palaniappan, K.3
Grechkin, Y.4
Chu, K.5
Chen, I.-M.A.6
Dubchak, I.7
Anderson, I.8
Lykidis, A.9
Mavromatis, K.10
Ivanova, N.N.11
Kyprides, N.C.12
-
37
-
-
23144460836
-
The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs
-
Schattner P, Brooks AN, Lowe TM. 2005. The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs. Nucleic Acids Res 33:W686-W689. http://dx.doi.org/10.1093/nar/gki366.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. W686-W689
-
-
Schattner, P.1
Brooks, A.N.2
Lowe, T.M.3
-
38
-
-
0141519279
-
OrthoMCL: identification of ortholog groups for eukaryotic genomes
-
Li L, Stoeckert CJ, Roos DS. 2003. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res 13:2178-2189. http://dx.doi.org/10.1101/gr.1224503.
-
(2003)
Genome Res
, vol.13
, pp. 2178-2189
-
-
Li, L.1
Stoeckert, C.J.2
Roos, D.S.3
-
39
-
-
84907585369
-
Hidden diversity in honey bee gut symbionts detected by single-cell genomics
-
Engel P, Stepanauskas R, Moran NA. 2014. Hidden diversity in honey bee gut symbionts detected by single-cell genomics. PLoS Genet 10: e1004596. http://dx.doi.org/10.1371/journal.pgen.1004596.
-
(2014)
PLoS Genet
, vol.10
-
-
Engel, P.1
Stepanauskas, R.2
Moran, N.A.3
-
40
-
-
69649109364
-
Circos: an information aesthetic for comparative genomics
-
Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. 2009. Circos: an information aesthetic for comparative genomics. Genome Res 19:1639-1645. http://dx.doi.org/10.1101/gr.092759.109.
-
(2009)
Genome Res
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
Schein, J.2
Birol, I.3
Connors, J.4
Gascoyne, R.5
Horsman, D.6
Jones, S.J.7
Marra, M.A.8
-
41
-
-
3042666256
-
MUSCLE: multiple sequence alignment with high accuracy and high throughput
-
Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792-1797. http://dx.doi.org/10.1093/nar/gkh340.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
42
-
-
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, Gascuel O. 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59:307- 321. http://dx.doi.org/10.1093/sysbio/syq010.
-
(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
-
43
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW. 1990. Basic local alignment search tool. J Mol Biol 215:403-410. http://dx.doi.org/10.1016/S0022 -2836(05)80360-2.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
-
44
-
-
84883353135
-
antiSMASH 2.0-a versatile platform for genome mining of secondary metabolite producers
-
Blin K, Medema MH, Kazempour D, Fischbach MA, Breitling R, Takano E, Weber T. 2013. antiSMASH 2.0-a versatile platform for genome mining of secondary metabolite producers. Nucleic Acids Res 41:W204-W212. http://dx.doi.org/10.1093/nar/gkt449.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. W204-W212
-
-
Blin, K.1
Medema, M.H.2
Kazempour, D.3
Fischbach, M.A.4
Breitling, R.5
Takano, E.6
Weber, T.7
-
45
-
-
64249084052
-
Methods for in silico prediction of microbial polyketide and nonribosomal peptide biosynthetic pathways from DNA sequence data.
-
Chapter 8
-
Bachmann BO, Ravel J. 2009. Chapter 8. Methods for in silico prediction of microbial polyketide and nonribosomal peptide biosynthetic pathways from DNA sequence data. Methods Enzymol 458:181-217. http://dx.doi.org/10.1016/S0076-6879(09)04808-3.
-
(2009)
Methods Enzymol
, vol.458
, pp. 181-217
-
-
Bachmann, B.O.1
Ravel, J.2
-
46
-
-
79959936207
-
NRPSpredictor2-a web server for predicting NRPS adenylation domain specificity
-
Röttig M, Medema MH, Blin K, Weber T, Rausch C, Kohlbacher O. 2011. NRPSpredictor2-a web server for predicting NRPS adenylation domain specificity. Nucleic Acids Res 39:W362-W367. http://dx.doi.org /10.1093/nar/gkr323.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W362-W367
-
-
Röttig, M.1
Medema, M.H.2
Blin, K.3
Weber, T.4
Rausch, C.5
Kohlbacher, O.6
-
47
-
-
63849246525
-
Protein structure prediction on the Web: a case study using the Phyre server
-
Kelley LA, Sternberg MJE. 2009. Protein structure prediction on the Web: a case study using the Phyre server. Nat Protoc 4:363-371. http://dx.doi.org/10.1038/nprot.2009.2.
-
(2009)
Nat Protoc
, vol.4
, pp. 363-371
-
-
Kelley, L.A.1
Sternberg, M.J.E.2
-
48
-
-
79955025122
-
Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice
-
Goodman AL, Kallstrom G, Faith JJ, Reyes A, Moore A, Dantas G, Gordon JI. 2011. Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. Proc Natl Acad Sci USA 108: 6252-6257. http://dx.doi.org/10.1073/pnas.1102938108.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 6252-6257
-
-
Goodman, A.L.1
Kallstrom, G.2
Faith, J.J.3
Reyes, A.4
Moore, A.5
Dantas, G.6
Gordon, J.I.7
-
49
-
-
84862999012
-
Mass spectral molecular networking of living microbial colonies
-
Watrous J, Roach P, Alexandrov T, Heath BS, Yang JY, Kersten RD, van der Voort M, Pogliano K, Gross H, Raaijmakers JM, Moore BS, Laskin J, Bandeira N, Dorrestein PC. 2012. Mass spectral molecular networking of living microbial colonies. Proc Natl Acad Sci U S A 109: E1743-E1752. http://dx.doi.org/10.1073/pnas.1203689109.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. E1743-E1752
-
-
Watrous, J.1
Roach, P.2
Alexandrov, T.3
Heath, B.S.4
Yang, J.Y.5
Kersten, R.D.6
van der Voort, M.7
Pogliano, K.8
Gross, H.9
Raaijmakers, J.M.10
Moore, B.S.11
Laskin, J.12
Bandeira, N.13
Dorrestein, P.C.14
-
50
-
-
0034568798
-
Evidence for symmetric chromosomal inversions around the replication origin in bacteria
-
research0011.1
-
Eisen JA, Heidelberg JF, White O, Salzberg SL. 2000. Evidence for symmetric chromosomal inversions around the replication origin in bacteria. Genome Biol 1:research0011.1. http://dx.doi.org/10.1186/gb-2000 -1-6-research0011.
-
(2000)
Genome Biol
, vol.1
-
-
Eisen, J.A.1
Heidelberg, J.F.2
White, O.3
Salzberg, S.L.4
-
51
-
-
0028841535
-
Divergent sequence motifs correlated with the substrate specificity of (methyl) malonyl-CoA:acyl carrier protein transacylase domains in modular polyketide synthases
-
Haydock SF, Aparicio JF, Molnár I, Schwecke T, Khaw LE, König A, Marsden AFA, Galloway IA, Staunton J, Leadlay PF. 1995. Divergent sequence motifs correlated with the substrate specificity of (methyl) malonyl-CoA:acyl carrier protein transacylase domains in modular polyketide synthases. FEBS Lett 374:246 -248. http://dx.doi.org/10.1016/0014-5793(95)01119-Y.
-
(1995)
FEBS Lett
, vol.374
, pp. 246 -248
-
-
Haydock, S.F.1
Aparicio, J.F.2
Molnár, I.3
Schwecke, T.4
Khaw, L.E.5
König, A.6
Marsden, A.F.A.7
Galloway, I.A.8
Staunton, J.9
Leadlay, P.F.10
-
52
-
-
84892722612
-
A natural prodrug activation mechanism in the biosynthesis of nonribosomal peptides
-
Reimer D, Bode HB. 2014. A natural prodrug activation mechanism in the biosynthesis of nonribosomal peptides. Nat Prod Rep 31:154-159. http://dx.doi.org/10.1039/c3np70081j.
-
(2014)
Nat Prod Rep
, vol.31
, pp. 154-159
-
-
Reimer, D.1
Bode, H.B.2
-
53
-
-
84885145321
-
Escherichia coli producing colibactin triggers premature and transmissible senescence in mammalian cells
-
Secher T, Samba-Louaka A, Oswald E, Nougayrède J-P. 2013. Escherichia coli producing colibactin triggers premature and transmissible senescence in mammalian cells. PLoS One 8:e77157. http://dx.doi.org/10.1371/journal.pone.0077157.
-
(2013)
PLoS One
, vol.8
-
-
Secher, T.1
Samba-Louaka, A.2
Oswald, E.3
Nougayrède, J.-P.4
-
54
-
-
3142537256
-
Bacterial probiotics induce an immune response in the honey bee (Hymenoptera: Apidae)
-
Evans JD, Lopez DL. 2004. Bacterial probiotics induce an immune response in the honey bee (Hymenoptera: Apidae). J Econ Entomol 97: 752-756. http://dx.doi.org/10.1603/0022-0493(2004)097[0752:BPIAIR]2.0.CO;2.
-
(2004)
J Econ Entomol
, vol.97
, pp. 752-756
-
-
Evans, J.D.1
Lopez, D.L.2
-
55
-
-
79952118619
-
High levels of miticides and agrochemicals in North American apiaries: implications for honey bee health
-
Mullin CA, Frazier M, Frazier JL, Ashcraft S, Simonds R, van- Engelsdorp D, Pettis JS. 2010. High levels of miticides and agrochemicals in North American apiaries: implications for honey bee health. PLoS One 5:e9754. http://dx.doi.org/10.1371/journal.pone.0009754.
-
(2010)
PLoS One
, vol.5
-
-
Mullin, C.A.1
Frazier, M.2
Frazier, J.L.3
Ashcraft, S.4
Simonds, R.5
van-Engelsdorp, D.6
Pettis, J.S.7
-
56
-
-
47949120118
-
Clinical use of E coli Nissle 1917 in inflammatory bowel disease.
-
Schultz M. 2008. Clinical use of E. coli Nissle 1917 in inflammatory bowel disease. Inflamm Bowel Dis 14:1012-1018. http://dx.doi.org/10.1002/ibd.20377.
-
(2008)
Inflamm Bowel Dis
, vol.14
, pp. 1012-1018
-
-
Schultz, M.1
-
57
-
-
14644386907
-
A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncP) conjugative machineries and their cognate Escherichia coli host strains
-
Demarre G, Guérout A-M, Matsumoto-Mashimo C, Rowe-Magnus D, Marlière P, Mazel D. 2005. A new family of mobilizable suicide plasmids based on broad host range R388 plasmid (IncW) and RP4 plasmid (IncP) conjugative machineries and their cognate Escherichia coli host strains. Res Microbiol 156:245-255. http://dx.doi.org/10.1016/j.resmic.2004.09.007.
-
(2005)
Res Microbiol
, vol.156
, pp. 245-255
-
-
Demarre, G.1
Guérout, A.-M.2
Matsumoto-Mashimo, C.3
Rowe-Magnus, D.4
Marlière, P.5
Mazel, D.6
-
58
-
-
13144257722
-
A novel two-component system controls the expression of Pseudomonas aeruginosa fimbrial cup genes
-
Kulasekara HD, Ventre I, Kulasekara BR, Lazdunski A, Filloux A, Lory S. 2005. A novel two-component system controls the expression of Pseudomonas aeruginosa fimbrial cup genes. Mol Microbiol 55:368-380. http: //dx.doi.org/10.1111/j.1365-2958.2004.04402.x.
-
(2005)
Mol Microbiol
, vol.55
, pp. 368-380
-
-
Kulasekara, H.D.1
Ventre, I.2
Kulasekara, B.R.3
Lazdunski, A.4
Filloux, A.5
Lory, S.6
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