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Items: 1 to 20 of 78

1.

Towards reconstructing a metabolic tree of life.

Marcet-Houben M, Puigbò P, Romeu A, Garcia-Vallve S.

Bioinformation. 2007;2(4):135-44. Epub 2007 Dec 11.

2.

Lessons from studies of Symbiobacterium thermophilum, a unique syntrophic bacterium.

Ueda K, Beppu T.

Biosci Biotechnol Biochem. 2007 May;71(5):1115-21. Epub 2007 May 7. Review.

3.

Distribution of Symbiobacterium thermophilum and related bacteria in the marine environment.

Sugihara T, Watsuji TO, Kubota S, Yamada K, Oka K, Watanabe K, Meguro M, Sawada E, Yoshihara K, Ueda K, Beppu T.

Biosci Biotechnol Biochem. 2008 Jan;72(1):204-11. Epub 2008 Jan 7.

4.

Unique Evolution of Symbiobacterium thermophilum Suggested from Gene Content and Orthologous Protein Sequence Comparisons.

Oshima K, Ueda K, Beppu T, Nishida H.

Int J Evol Biol. 2010 Dec 22;2011:376831. doi: 10.4061/2011/376831.

5.

Genome sequence of Symbiobacterium thermophilum, an uncultivable bacterium that depends on microbial commensalism.

Ueda K, Yamashita A, Ishikawa J, Shimada M, Watsuji TO, Morimura K, Ikeda H, Hattori M, Beppu T.

Nucleic Acids Res. 2004 Sep 21;32(16):4937-44. Print 2004.

6.

Gene arrangements characteristic of the phylum Actinobacteria.

Kunisawa T.

Antonie Van Leeuwenhoek. 2007 Oct;92(3):359-65. Epub 2007 Jun 9.

PMID:
17558547
7.

Tree of life based on genome context networks.

Ding G, Yu Z, Zhao J, Wang Z, Li Y, Xing X, Wang C, Liu L, Li Y.

PLoS One. 2008;3(10):e3357. doi: 10.1371/journal.pone.0003357. Epub 2008 Oct 9.

8.

Construction of phylogenetic trees by kernel-based comparative analysis of metabolic networks.

Oh SJ, Joung JG, Chang JH, Zhang BT.

BMC Bioinformatics. 2006 Jun 6;7:284.

9.

Identification of indole derivatives as self-growth inhibitors of Symbiobacterium thermophilum, a unique bacterium whose growth depends on coculture with a Bacillus sp.

Watsuji TO, Yamada S, Yamabe T, Watanabe Y, Kato T, Saito T, Ueda K, Beppu T.

Appl Environ Microbiol. 2007 Oct;73(19):6159-65. Epub 2007 Aug 10.

10.

Phylogenetic and Guanine-Cytosine Content Analysis of Symbiobacterium thermophilum Genes.

Nishida H, Yun CS.

Int J Evol Biol. 2010 Dec 12;2011:634505. doi: 10.4061/2011/634505.

11.

Assessing clustering results with reference taxonomies.

Valiente G.

Genome Inform. 2006;17(2):131-40.

PMID:
17503386
12.

The gene tree delusion.

Springer MS, Gatesy J.

Mol Phylogenet Evol. 2016 Jan;94(Pt A):1-33. doi: 10.1016/j.ympev.2015.07.018. Epub 2015 Jul 31.

PMID:
26238460
13.

Enzyme sequence similarity improves the reaction alignment method for cross-species pathway comparison.

Ovacik MA, Androulakis IP.

Toxicol Appl Pharmacol. 2013 Sep 15;271(3):363-71. doi: 10.1016/j.taap.2010.09.009. Epub 2010 Sep 17.

PMID:
20851138
14.

Phylophenetic properties of metabolic pathway topologies as revealed by global analysis.

Zhang Y, Li S, Skogerbø G, Zhang Z, Zhu X, Zhang Z, Sun S, Lu H, Shi B, Chen R.

BMC Bioinformatics. 2006 May 9;7:252.

15.

Development of a membrane dialysis bioreactor and its application to a large-scale culture of a symbiotic bacterium, Symbiobacterium thermophilum.

Ueda K, Saka H, Ishikawa Y, Kato T, Takeshita Y, Shiratori H, Ohno M, Hosono K, Wada M, Ishikawa Y, Beppu T.

Appl Microbiol Biotechnol. 2002 Nov;60(3):300-5. Epub 2002 Oct 12.

PMID:
12436311
16.

Analysis of phenetic trees based on metabolic capabilites across the three domains of life.

Aguilar D, Aviles FX, Querol E, Sternberg MJ.

J Mol Biol. 2004 Jul 9;340(3):491-512.

PMID:
15210350
17.

Genome trees constructed using five different approaches suggest new major bacterial clades.

Wolf YI, Rogozin IB, Grishin NV, Tatusov RL, Koonin EV.

BMC Evol Biol. 2001 Oct 20;1:8.

18.

Establishing the independent culture of a strictly symbiotic bacterium Symbiobacterium thermophilum from its supporting Bacillus strain.

Ohno M, Okano I, Watsuji T, Kakinuma T, Ueda K, Beppu T.

Biosci Biotechnol Biochem. 1999 Jun;63(6):1083-90.

19.

Analysis of the tryptophanase expression in Symbiobacterium thermophilum in a coculture with Geobacillus stearothermophilus.

Watsuji TO, Takano H, Yamabe T, Tamazawa S, Ikemura H, Ohishi T, Matsuda T, Shiratori-Takano H, Beppu T, Ueda K.

Appl Microbiol Biotechnol. 2014 Dec;98(24):10177-86. doi: 10.1007/s00253-014-6053-4. Epub 2014 Sep 10.

PMID:
25200839
20.

Conserved indels in protein sequences that are characteristic of the phylum Actinobacteria.

Gao B, Gupta RS.

Int J Syst Evol Microbiol. 2005 Nov;55(Pt 6):2401-12.

PMID:
16280504

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