메뉴 건너뛰기




Volumn 5, Issue 2, 2013, Pages 351-361

Comparative genomics of Blattabacterium cuenoti: The frozen legacy of an ancient endosymbiont genome

Author keywords

Blatta orientalis; Blattabacterium endosymbiont; Genome reduction; Nitrogen metabolism; Pan genome; Urease

Indexed keywords

BLATTA ORIENTALIS; BLATTABACTERIUM; BLATTARIA; BLATTELLA GERMANICA; BLATTELLIDAE; BLATTIDAE; CRYPTOCERCIDAE; CRYPTOCERCUS PUNCTULATUS; HEXAPODA; ISOPTERA; MASTOTERMES DARWINIENSIS; PERIPLANETA AMERICANA; TERMITIDAE;

EID: 84876549266     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evt011     Document Type: Article
Times cited : (56)

References (55)
  • 1
    • 18744382506 scopus 로고    scopus 로고
    • ProtTest: Selection of best-fit models of protein evolution
    • Abascal F, Zardoya R, Posada D. 2005. ProtTest: selection of best-fit models of protein evolution. Bioinformatics 21:2104-2105.
    • (2005) Bioinformatics , vol.21 , pp. 2104-2105
    • Abascal, F.1    Zardoya, R.2    Posada, D.3
  • 2
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul SF, et al. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25: 3389-3402.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 3389-3402
    • Altschul, S.F.1
  • 3
    • 0028969834 scopus 로고
    • The establishment of intracellular symbiosis in an ancestor of cockroaches and termites
    • Bandi C, et al. 1995. The establishment of intracellular symbiosis in an ancestor of cockroaches and termites. Proc Biol Sci. 268:293-299.
    • (1995) Proc Biol Sci. , vol.268 , pp. 293-299
    • Bandi, C.1
  • 4
    • 27144454498 scopus 로고    scopus 로고
    • Biology bacteriocyte-associated endosymbionts of plant sap-sucking insects
    • Baumann P. 2005. Biology bacteriocyte-associated endosymbionts of plant sap-sucking insects. Annu Rev Microbiol. 59:155-189.
    • (2005) Annu Rev Microbiol. , vol.59 , pp. 155-189
    • Baumann, P.1
  • 5
    • 1842410439 scopus 로고
    • Metabolism of the sulphur amino acids and of sulphate in Blattella germanica
    • Block RJ, Henry SM. 1962. Metabolism of the sulphur amino acids and of sulphate in Blattella germanica. Nature 191:392-393.
    • (1962) Nature , vol.191 , pp. 392-393
    • Block, R.J.1    Henry, S.M.2
  • 6
    • 24044433279 scopus 로고    scopus 로고
    • ACT: The artemis comparison tool
    • Carver T, et al. 2005. ACT: the Artemis Comparison Tool. Bioinformatics 21:3422-3423.
    • (2005) Bioinformatics , vol.21 , pp. 3422-3423
    • Carver, T.1
  • 7
    • 33644787447 scopus 로고    scopus 로고
    • OrthoMCL-DB: Querying a comprehensive multi-species collection of ortholog groups
    • Chen F, et al. 2006. OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups. Nucleic Acids Res. 34: D363-D368.
    • (2006) Nucleic Acids Res. , vol.34
    • Chen, F.1
  • 8
    • 0035931904 scopus 로고    scopus 로고
    • Coevolution between a cockroach and its bacterial endosymbiont: A biogeographical perspective
    • Clark JW, et al. 2001. Coevolution between a cockroach and its bacterial endosymbiont: a biogeographical perspective. Proc Biol Sci. 268: 393-398.
    • (2001) Proc Biol Sci. , vol.268 , pp. 393-398
    • Clark, J.W.1
  • 9
    • 0001837040 scopus 로고
    • Nitrogen excretion in cockroaches
    • Cochran D. 1985. Nitrogen excretion in cockroaches. Annu Rev Entomol. 30:29-49.
    • (1985) Annu Rev Entomol. , vol.30 , pp. 29-49
    • Cochran, D.1
  • 10
    • 0242452590 scopus 로고
    • Cytological changes in the cat body of the American cockroach Periplaneta americana in relation to dietary nitrogen levels
    • Cochran DG, Mullins DE, Mullins KJ. 1979. Cytological changes in the cat body of the American cockroach Periplaneta americana in relation to dietary nitrogen levels. Ann Entomol Soc Am. 72:197-205.
    • (1979) Ann Entomol Soc Am. , vol.72 , pp. 197-205
    • Cochran, D.G.1    Mullins, D.E.2    Mullins, K.J.3
  • 11
    • 0027244090 scopus 로고
    • NADPH-sulfite reductase from Escherichia coli. A flavin reductase participating in the generation of the free radical of ribonucleotide reductase
    • Covès J, Niviè re V, Eschenbrenner M, Fontecave M. 1993. NADPH-sulfite reductase from Escherichia coli. A flavin reductase participating in the generation of the free radical of ribonucleotide reductase. J Biol Chem. 268:18604-18609.
    • (1993) J Biol Chem. , vol.268 , pp. 18604-18609
    • Covès, J.1    Nivière, V.2    Eschenbrenner, M.3    Fontecave, M.4
  • 12
    • 84864453108 scopus 로고    scopus 로고
    • JModelTest2: More models, new heuristics and parallel computing
    • Darriba D, Taboada GL, Doallo R, Posada D. 2012. jModelTest2: more models, new heuristics and parallel computing. Nat Methods. 9:772.
    • (2012) Nat Methods , vol.9 , pp. 772
    • Darriba, D.1    Taboada, G.L.2    Doallo, R.3    Posada, D.4
  • 13
    • 1642308878 scopus 로고    scopus 로고
    • Host-symbiont stability and fast evolutionary rates in an ant-bacterium association: Cospeciation of Camponotus species and their endosymbionts, candidatus Blochmannia
    • Degnan PH, Lazarus AB, Brock CD, Wernegreen JJ. 2004. Host-symbiont stability and fast evolutionary rates in an ant-bacterium association: cospeciation of Camponotus species and their endosymbionts, candidatus Blochmannia. Syst Biol. 53:95-110.
    • (2004) Syst Biol. , vol.53 , pp. 95-110
    • Degnan, P.H.1    Lazarus, A.B.2    Brock, C.D.3    Wernegreen, J.J.4
  • 14
    • 34147132825 scopus 로고    scopus 로고
    • Identifying bacterial genes and endosymbiont DNA with Glimmer
    • Delcher A, Bratke K, Powers E, Salzberg S. 2007. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics 23: 673-679.
    • (2007) Bioinformatics , vol.23 , pp. 673-679
    • Delcher, A.1    Bratke, K.2    Powers, E.3    Salzberg, S.4
  • 15
    • 38349144037 scopus 로고    scopus 로고
    • Nutritional upgrading for omnivorous carpenter ants by the endosymbiont Blochmannia
    • Feldhaar H, et al. 2007. Nutritional upgrading for omnivorous carpenter ants by the endosymbiont Blochmannia. BMC Biol. 5:48.
    • (2007) BMC Biol. , vol.5 , pp. 48
    • Feldhaar, H.1
  • 16
    • 0041422250 scopus 로고    scopus 로고
    • The genome sequence of Blochmannia floridanus: Comparative analysis of reduced genomes
    • Gil R, et al. 2003. The genome sequence of Blochmannia floridanus: comparative analysis of reduced genomes. Proc Natl Acad Sci U S A. 100: 9388-9393.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 9388-9393
    • Gil, R.1
  • 17
    • 52649174233 scopus 로고    scopus 로고
    • Patterns and rates of nucleotide substitution, insertion and deletion in the endosymbiont of ants Blochmannia floridanus
    • Gómez-Valero L, et al. 2008. Patterns and rates of nucleotide substitution, insertion and deletion in the endosymbiont of ants Blochmannia floridanus. Mol Ecol. 17:4382-4392.
    • (2008) Mol Ecol. , vol.17 , pp. 4382-4392
    • Gómez-Valero, L.1
  • 18
    • 84855993154 scopus 로고    scopus 로고
    • Metabolic stasis in an ancient symbiosis: Genome-scale metabolic networks from two Blattabacterium cuenoti strains, primary endosymbionts of cockroaches
    • González-Domenech CM, et al. 2012. Metabolic stasis in an ancient symbiosis: genome-scale metabolic networks from two Blattabacterium cuenoti strains, primary endosymbionts of cockroaches. BMC Microbiol. 12:S5.
    • (2012) BMC Microbiol. , vol.12
    • González-Domenech, C.M.1
  • 19
    • 77956519355 scopus 로고    scopus 로고
    • GenoPlotR: Comparative gene and genome visualization in R
    • Guy L, Kultima JR, Andersson SG. 2010. genoPlotR: comparative gene and genome visualization in R. Bioinformatics 26:2334-2335.
    • (2010) Bioinformatics , vol.26 , pp. 2334-2335
    • Guy, L.1    Kultima, J.R.2    Andersson, S.G.3
  • 20
    • 34547872154 scopus 로고    scopus 로고
    • Death of an order: A comprehensive molecular phylogenetic study confirms that termites are eusocial cockroaches
    • Inward D, Beccaloni G, Eggleton P. 2007. Death of an order: a comprehensive molecular phylogenetic study confirms that termites are eusocial cockroaches. Biol Lett. 3:331-335.
    • (2007) Biol Lett. , vol.3 , pp. 331-335
    • Inward, D.1    Beccaloni, G.2    Eggleton, P.3
  • 21
    • 0028929916 scopus 로고
    • A phylogeny of cockroaches and related insects based on DNA sequence of mitochondrial ribosomal RNA genes
    • Kambhampati S. 1995. A phylogeny of cockroaches and related insects based on DNA sequence of mitochondrial ribosomal RNA genes. Proc Natl Acad Sci U S A. 92:2017-2020.
    • (1995) Proc Natl Acad Sci U S A , vol.92 , pp. 2017-2020
    • Kambhampati, S.1
  • 22
    • 13744252890 scopus 로고    scopus 로고
    • MAFFT version 5: Improvement in accuracy of multiple sequence alignment
    • Katoh K, Kuma K, Toh H, Miyata T. 2005. MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res. 33: 511-518.
    • (2005) Nucleic Acids Res. , vol.33 , pp. 511-518
    • Katoh, K.1    Kuma, K.2    Toh, H.3    Miyata, T.4
  • 23
    • 81755163088 scopus 로고    scopus 로고
    • Serratia symbiotica from the aphid Cinara cedri: A missing link from facultative to obligate insect endosymbiont
    • Lamelas A, et al. 2011. Serratia symbiotica from the aphid Cinara cedri: a missing link from facultative to obligate insect endosymbiont. PLoS Genet. 7:e1002357.
    • (2011) PLoS Genet. , vol.7
    • Lamelas, A.1
  • 24
    • 79960080098 scopus 로고    scopus 로고
    • New clues about the evolutionary history of metabolic losses in bacterial endosymbionts, provided by the genome of Buchnera aphidicola from the aphid Cinara tujafilina
    • Lamelas A, Gosalbes MJ, Moya A, Latorre A. 2011. New clues about the evolutionary history of metabolic losses in bacterial endosymbionts, provided by the genome of Buchnera aphidicola from the aphid Cinara tujafilina. Appl Environ Microbiol. 77:4446-4454.
    • (2011) Appl Environ Microbiol. , vol.77 , pp. 4446-4454
    • Lamelas, A.1    Gosalbes, M.J.2    Moya, A.3    Latorre, A.4
  • 25
    • 0038247880 scopus 로고    scopus 로고
    • Evidence for cocladogenesis between diverse dictyopteran lineages and their intracellular endosymbionts
    • Lo N, Bandi C, Watanabe H, Nalepa C, Beninati T. 2003. Evidence for cocladogenesis between diverse dictyopteran lineages and their intracellular endosymbionts. Mol Biol Evol. 20:907-913.
    • (2003) Mol Biol Evol. , vol.20 , pp. 907-913
    • Lo, N.1    Bandi, C.2    Watanabe, H.3    Nalepa, C.4    Beninati, T.5
  • 26
    • 34848860800 scopus 로고    scopus 로고
    • Cockroaches that lack Blattabacterium endosymbionts: The phylogenetically divergent genus Nocticola
    • Lo N, Beninati T, Stone F, Walker J, Sacchi L. 2007. Cockroaches that lack Blattabacterium endosymbionts: the phylogenetically divergent genus Nocticola. Biol Lett. 3:327-330.
    • (2007) Biol Lett. , vol.3 , pp. 327-330
    • Lo, N.1    Beninati, T.2    Stone, F.3    Walker, J.4    Sacchi, L.5
  • 27
    • 55849098139 scopus 로고    scopus 로고
    • Blattabacteria, the endosymbionts of cockroaches, have small genome sizes and high genome copy numbers
    • López-SánchezMJ, et al. 2008. Blattabacteria, the endosymbionts of cockroaches, have small genome sizes and high genome copy numbers. Environ Microbiol. 10:3417-3422.
    • (2008) Environ Microbiol. , vol.10 , pp. 3417-3422
    • López-Sánchez, M.J.1
  • 28
    • 73649124197 scopus 로고    scopus 로고
    • Evolutionary convergence and nitrogen metabolism in Blattabacterium strain Bge, primary endosymbiont of the cockroach Blattella germanica
    • López-Sánchez MJ, et al. 2009. Evolutionary convergence and nitrogen metabolism in Blattabacterium strain Bge, primary endosymbiont of the cockroach Blattella germanica. PLoS Genet. 5:e1000721.
    • (2009) PLoS Genet. , vol.5
    • López-Sánchez, M.J.1
  • 30
    • 83855165692 scopus 로고    scopus 로고
    • Extreme genome reduction in symbiotic bacteria
    • McCutcheon JP, Moran NA. 2012. Extreme genome reduction in symbiotic bacteria. Nat Rev Microbiol. 10:13-26.
    • (2012) Nat Rev Microbiol. , vol.10 , pp. 13-26
    • McCutcheon, J.P.1    Moran, N.A.2
  • 31
    • 39449118068 scopus 로고    scopus 로고
    • Learning how to live together: Genomic insights into prokaryote-animal symbioses
    • Moya A, PeretóJ, Gil R, Latorre A. 2008. Learning how to live together: genomic insights into prokaryote-animal symbioses. Nat Rev Genet. 9: 218-229.
    • (2008) Nat Rev Genet. , vol.9 , pp. 218-229
    • Moya, A.1    Peretó, J.2    Gil, R.3    Latorre, A.4
  • 32
    • 0006089624 scopus 로고
    • Nitrogen excretion in cockroaches: Uric acid is not a major product
    • Mullins DE, Cochran DG. 1972. Nitrogen excretion in cockroaches: uric acid is not a major product. Science 177:699-701.
    • (1972) Science , vol.177 , pp. 699-701
    • Mullins, D.E.1    Cochran, D.G.2
  • 33
    • 0016311082 scopus 로고
    • Nitrogen metabolism in the American cockroach: An examination of whole body and fat body regulation of cations in response to nitrogen balance
    • Mullins DE, Cochran DG. 1974. Nitrogen metabolism in the American cockroach: an examination of whole body and fat body regulation of cations in response to nitrogen balance. J Exp Biol. 61: 557-570.
    • (1974) J Exp Biol. , vol.61 , pp. 557-570
    • Mullins, D.E.1    Cochran, D.G.2
  • 34
    • 0017263563 scopus 로고
    • A comparative study of nitrogen excretion in twenty-three cockroach species
    • Mullins DE, Cochran DG. 1976. A comparative study of nitrogen excretion in twenty-three cockroach species. Comp Biochem Physiol A Comp Physiol. 53:393-399.
    • (1976) Comp Biochem Physiol A Comp Physiol. , vol.53 , pp. 393-399
    • Mullins, D.E.1    Cochran, D.G.2
  • 35
    • 0019321718 scopus 로고
    • Rapid isolation of high molecular weight plant DNA
    • Murray MG, Thompson WF. 1980. Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res. 8:4321-4325.
    • (1980) Nucleic Acids Res. , vol.8 , pp. 4321-4325
    • Murray, M.G.1    Thompson, W.F.2
  • 36
    • 65549111754 scopus 로고    scopus 로고
    • Infernal 1.0: Inference of RNA alignments
    • Nawrocki EP, et al. 2009. Infernal 1.0: inference of RNA alignments. Bioinformatics 25:1335-1337.
    • (2009) Bioinformatics , vol.25 , pp. 1335-1337
    • Nawrocki, E.P.1
  • 37
    • 84859131305 scopus 로고    scopus 로고
    • Genome economization in the endosymbiont of the wood roach Cryptocercus punctulatus due to drastic loss of amino acid synthesis capabilities
    • Neef A, et al. 2011. Genome economization in the endosymbiont of the wood roach Cryptocercus punctulatus due to drastic loss of amino acid synthesis capabilities. Genome Biol Evol. 3:1437-1448.
    • (2011) Genome Biol Evol. , vol.3 , pp. 1437-1448
    • Neef, A.1
  • 38
    • 33750009568 scopus 로고    scopus 로고
    • A small microbial genome: The end of a long symbiotic relationship?
    • Pé rez-Brocal V, et al. 2006. A small microbial genome: the end of a long symbiotic relationship? Science 314: 312-313.
    • (2006) Science , vol.314 , pp. 312-313
    • Pérez-Brocal, V.1
  • 39
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European molecular biology open software suite
    • Rice P, Longden I, Bleasby A. 2000. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 16:276-277.
    • (2000) Trends Genet. , vol.16 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 40
    • 0033635022 scopus 로고    scopus 로고
    • Artemis: Sequence visualization and annotation
    • Rutherford K, et al. 2000. Artemis: sequence visualization and annotation. Bioinformatics 16:944-945.
    • (2000) Bioinformatics , vol.16 , pp. 944-945
    • Rutherford, K.1
  • 41
    • 77953636364 scopus 로고    scopus 로고
    • Chromosome stability and gene loss in cockroach endosymbionts
    • Sabree ZL, Degnan PH, Moran NA. 2010. Chromosome stability and gene loss in cockroach endosymbionts. Appl Environ Microbiol. 76: 4076-4079.
    • (2010) Appl Environ Microbiol. , vol.76 , pp. 4076-4079
    • Sabree, Z.L.1    Degnan, P.H.2    Moran, N.A.3
  • 42
    • 84862932996 scopus 로고    scopus 로고
    • Genome shrinkage and loss of nutrient-providing potential in the obligate symbiont of the primitive termite Mastotermes darwiniensis
    • Sabree ZL, et al. 2012. Genome shrinkage and loss of nutrient-providing potential in the obligate symbiont of the primitive termite Mastotermes darwiniensis. Appl Environ Microbiol. 78:204-210.
    • (2012) Appl Environ Microbiol. , vol.78 , pp. 204-210
    • Sabree, Z.L.1
  • 43
    • 73349101558 scopus 로고    scopus 로고
    • Nitrogen recycling and nutritional provisioning by Blattabacterium, the cockroach endosymbiont
    • Sabree ZL, Kambhampati S, Moran NA. 2009. Nitrogen recycling and nutritional provisioning by Blattabacterium, the cockroach endosymbiont. Proc Natl Acad Sci U S A. 106:19521-19526.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 19521-19526
    • Sabree, Z.L.1    Kambhampati, S.2    Moran, N.A.3
  • 45
    • 79953681013 scopus 로고    scopus 로고
    • Genomic revelations of a mutualism: The pea aphid and its obligate bacterial symbiont
    • Shigenobu S, Wilson AC. 2011. Genomic revelations of a mutualism: the pea aphid and its obligate bacterial symbiont. Cell Mol Life Sci. 68: 1297-1309.
    • (2011) Cell Mol Life Sci. , vol.68 , pp. 1297-1309
    • Shigenobu, S.1    Wilson, A.C.2
  • 47
    • 14644397888 scopus 로고    scopus 로고
    • RAxML-III: A fast program for maximum likelihood-based inference of large phylogenetic trees
    • Stamatakis A, Ludwig T, Meier H. 2005. RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees. Bioinformatics 21:456-463.
    • (2005) Bioinformatics , vol.21 , pp. 456-463
    • Stamatakis, A.1    Ludwig, T.2    Meier, H.3
  • 48
    • 80455129664 scopus 로고    scopus 로고
    • Misannotations of rRNA can now generate 90% false positive protein matches in metatranscriptomic studies
    • Tripp HJ, Hewson I, Boyarsky S, Stuart JM, Zehr JP. 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
  • 49
    • 0042902833 scopus 로고    scopus 로고
    • The COG database: An updated version includes eukaryotes
    • Vasudevan S, et al. 2003. The COG database: an updated version includes eukaryotes. BMC Bioinformatics 4:41.
    • (2003) BMC Bioinformatics , vol.4 , pp. 41
    • Vasudevan, S.1
  • 50
    • 0034487561 scopus 로고    scopus 로고
    • Molecular data support a rapid radiation of aphids in the Cretaceous and multiple origins of host alternation
    • von Dohlen C, Moran NA. 2000. Molecular data support a rapid radiation of aphids in the Cretaceous and multiple origins of host alternation. Biol J Linn Soc. 71:689-717.
    • (2000) Biol J Linn Soc. , vol.71 , pp. 689-717
    • Von Dohlen, C.1    Moran, N.A.2
  • 51
    • 23744507140 scopus 로고    scopus 로고
    • Order blattida latreille, 1810
    • Rasnitsyn AP, Quicke DLJ, editors. Dordrecht (The Netherlands): Kluwer Academic Publishers
    • Vrsansky P, Vishniakova VN, Rasnitsyn AP. 2002. Order Blattida Latreille, 1810. In: Rasnitsyn AP, Quicke DLJ, editors. History of insect orders. Dordrecht (The Netherlands): Kluwer Academic Publishers. p. 263-270.
    • (2002) History of Insect Orders , pp. 263-270
    • Vrsansky, P.1    Vishniakova, V.N.2    Rasnitsyn, A.P.3
  • 53
    • 78649588858 scopus 로고    scopus 로고
    • Unprecedented loss of ammonia assimilation capability in a urease-encoding bacterial mutualist
    • Williams LE, Wernegreen JJ. 2010. Unprecedented loss of ammonia assimilation capability in a urease-encoding bacterial mutualist. BMC Genomics 11:687.
    • (2010) BMC Genomics , vol.11 , pp. 687
    • Williams, L.E.1    Wernegreen, J.J.2
  • 54
    • 33644853927 scopus 로고    scopus 로고
    • Origin of replication in circular prokaryotic chromosomes
    • Worning P, et al. 2006. Origin of replication in circular prokaryotic chromosomes. Environ Microbiol. 8:353-361.
    • (2006) Environ Microbiol. , vol.8 , pp. 353-361
    • Worning, P.1
  • 55
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4: Phylogenetic analysis by maximum likelihood
    • Yang Z. 2007. PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol. 24:1586-1591.
    • (2007) Mol Biol Evol. , vol.24 , pp. 1586-1591
    • Yang, Z.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.