-
1
-
-
0033670249
-
Horizontal gene transfer in bacterial and archaeal complete genomes
-
Garcia-Vallve S, Romeu A, Palau J, (2000) Horizontal gene transfer in bacterial and archaeal complete genomes. Genome Res 10: 1719-1725.
-
(2000)
Genome Res
, vol.10
, pp. 1719-1725
-
-
Garcia-Vallve, S.1
Romeu, A.2
Palau, J.3
-
2
-
-
21144435581
-
Phylogenomic evidence supports past endosymbiosis, intracellular and horizontal gene transfer in Cryptosporidium parvum
-
Huang J, Mullapudi N, Lancto CA, Scott M, Abrahamsen MS, et al. (2004) Phylogenomic evidence supports past endosymbiosis, intracellular and horizontal gene transfer in Cryptosporidium parvum. Genome Biol 5: R88.
-
(2004)
Genome Biol
, vol.5
-
-
Huang, J.1
Mullapudi, N.2
Lancto, C.A.3
Scott, M.4
Abrahamsen, M.S.5
-
3
-
-
44649170477
-
Evidence for horizontal transfer of a secondary metabolite gene cluster between fungi
-
Khaldi N, Collemare J, Lebrun MH, Wolfe KH, (2008) Evidence for horizontal transfer of a secondary metabolite gene cluster between fungi. Genome Biol 9: R18.
-
(2008)
Genome Biol
, vol.9
-
-
Khaldi, N.1
Collemare, J.2
Lebrun, M.H.3
Wolfe, K.H.4
-
4
-
-
67649998350
-
Genomic footprints of a cryptic plastid endosymbiosis in diatoms
-
Moustafa A, Beszteri B, Maier UG, Bowler C, Valentin K, et al. (2009) Genomic footprints of a cryptic plastid endosymbiosis in diatoms. Science 324: 1724-1726.
-
(2009)
Science
, vol.324
, pp. 1724-1726
-
-
Moustafa, A.1
Beszteri, B.2
Maier, U.G.3
Bowler, C.4
Valentin, K.5
-
5
-
-
56649089802
-
Horizontal gene transfer of the algal nuclear gene psbO to the photosynthetic sea slug Elysia chlorotica
-
Rumpho ME, Worful JM, Lee J, Kannan K, Tyler MS, et al. (2008) Horizontal gene transfer of the algal nuclear gene psbO to the photosynthetic sea slug Elysia chlorotica. Proc Natl Acad Sci U S A 105: 17867-17871.
-
(2008)
Proc Natl Acad Sci U S A
, vol.105
, pp. 17867-17871
-
-
Rumpho, M.E.1
Worful, J.M.2
Lee, J.3
Kannan, K.4
Tyler, M.S.5
-
6
-
-
77649225628
-
Bacterial genes in the aphid genome: absence of functional gene transfer from Buchnera to its host
-
Nikoh N, McCutcheon JP, Kudo T, Miyagishima SY, Moran NA, et al. (2010) Bacterial genes in the aphid genome: absence of functional gene transfer from Buchnera to its host. PLoS Genet 6: e1000827.
-
(2010)
PLoS Genet
, vol.6
-
-
Nikoh, N.1
McCutcheon, J.P.2
Kudo, T.3
Miyagishima, S.Y.4
Moran, N.A.5
-
7
-
-
0038459177
-
Identification and expression analysis of a gene encoding a bacterial-type phosphoenolpyruvate carboxylase from Arabidopsis and rice
-
Sanchez R, Cejudo FJ, (2003) Identification and expression analysis of a gene encoding a bacterial-type phosphoenolpyruvate carboxylase from Arabidopsis and rice. Plant Physiol 132: 949-957.
-
(2003)
Plant Physiol
, vol.132
, pp. 949-957
-
-
Sanchez, R.1
Cejudo, F.J.2
-
8
-
-
79955530030
-
The remarkable diversity of plant PEPC (phosphoenolpyruvate carboxylase): recent insights into the physiological functions and post-translational controls of non-photosynthetic PEPCs
-
O'Leary B, Park J, Plaxton WC, (2011) The remarkable diversity of plant PEPC (phosphoenolpyruvate carboxylase): recent insights into the physiological functions and post-translational controls of non-photosynthetic PEPCs. Biochem J 436: 15-34.
-
(2011)
Biochem J
, vol.436
, pp. 15-34
-
-
O'Leary, B.1
Park, J.2
Plaxton, W.C.3
-
9
-
-
77954270711
-
GUIDANCE: a web server for assessing alignment confidence scores
-
Penn O, Privman E, Ashkenazy H, Landan G, Graur D, et al. (2010) GUIDANCE: a web server for assessing alignment confidence scores. Nucleic Acids Res 38: W23-28.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Penn, O.1
Privman, E.2
Ashkenazy, H.3
Landan, G.4
Graur, D.5
-
10
-
-
0029047354
-
A nuclear gene of eubacterial origin in Euglena gracilis reflects cryptic endosymbioses during protist evolution
-
Henze K, Badr A, Wettern M, Cerff R, Martin W, (1995) A nuclear gene of eubacterial origin in Euglena gracilis reflects cryptic endosymbioses during protist evolution. Proc Natl Acad Sci U S A 92: 9122-9126.
-
(1995)
Proc Natl Acad Sci U S A
, vol.92
, pp. 9122-9126
-
-
Henze, K.1
Badr, A.2
Wettern, M.3
Cerff, R.4
Martin, W.5
-
11
-
-
0033616714
-
Horizontal gene transfer among genomes: the complexity hypothesis
-
Jain R, Rivera MC, Lake JA, (1999) Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci U S A 96: 3801-3806.
-
(1999)
Proc Natl Acad Sci U S A
, vol.96
, pp. 3801-3806
-
-
Jain, R.1
Rivera, M.C.2
Lake, J.A.3
-
12
-
-
47349124015
-
Evidence of recent interkingdom horizontal gene transfer between bacteria and Candida parapsilosis
-
Fitzpatrick DA, Logue ME, Butler G, (2008) Evidence of recent interkingdom horizontal gene transfer between bacteria and Candida parapsilosis. BMC Evol Biol 8: 181.
-
(2008)
BMC Evol Biol
, vol.8
, pp. 181
-
-
Fitzpatrick, D.A.1
Logue, M.E.2
Butler, G.3
-
13
-
-
45849089569
-
Massive horizontal gene transfer in bdelloid rotifers
-
Gladyshev EA, Meselson M, Arkhipova IR, (2008) Massive horizontal gene transfer in bdelloid rotifers. Science 320: 1210-1213.
-
(2008)
Science
, vol.320
, pp. 1210-1213
-
-
Gladyshev, E.A.1
Meselson, M.2
Arkhipova, I.R.3
-
14
-
-
0033517997
-
Lessons from the Aeropyrum pernix genome
-
Faguy DM, Doolittle WF, (1999) Lessons from the Aeropyrum pernix genome. Curr Biol 9: R883-886.
-
(1999)
Curr Biol
, vol.9
-
-
Faguy, D.M.1
Doolittle, W.F.2
-
15
-
-
54349125857
-
Distant horizontal gene transfer is rare for multiple families of prokaryotic insertion sequences
-
Wagner A, de la Chaux N, (2008) Distant horizontal gene transfer is rare for multiple families of prokaryotic insertion sequences. Mol Genet Genomics 280: 397-408.
-
(2008)
Mol Genet Genomics
, vol.280
, pp. 397-408
-
-
Wagner, A.1
de la Chaux, N.2
-
16
-
-
39749192558
-
Integration of horizontally transferred genes into regulatory interaction networks takes many million years
-
Lercher MJ, Pal C, (2008) Integration of horizontally transferred genes into regulatory interaction networks takes many million years. Mol Biol Evol 25: 559-567.
-
(2008)
Mol Biol Evol
, vol.25
, pp. 559-567
-
-
Lercher, M.J.1
Pal, C.2
-
17
-
-
84858077472
-
The Pfam protein families database
-
Punta M, Coggill PC, Eberhardt RY, Mistry J, Tate J, et al. (2012) The Pfam protein families database. Nucleic Acids Res 40: D290-301.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Punta, M.1
Coggill, P.C.2
Eberhardt, R.Y.3
Mistry, J.4
Tate, J.5
-
18
-
-
71749099862
-
phyloXML: XML for evolutionary biology and comparative genomics
-
Han MV, Zmasek CM, (2009) phyloXML: XML for evolutionary biology and comparative genomics. BMC Bioinformatics 10: 356.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 356
-
-
Han, M.V.1
Zmasek, C.M.2
-
19
-
-
79960976768
-
UniProt Knowledgebase: a hub of integrated protein data
-
Magrane M, Consortium U, (2011) UniProt Knowledgebase: a hub of integrated protein data. Database (Oxford) 2011: bar009.
-
(2011)
Database (Oxford)
, vol.2011
-
-
Magrane, M.1
Consortium, U.2
-
20
-
-
79959959356
-
T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension
-
Di Tommaso P, Moretti S, Xenarios I, Orobitg M, Montanyola A, et al. (2011) T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension. Nucleic Acids Res 39: W13-17.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Di Tommaso, P.1
Moretti, S.2
Xenarios, I.3
Orobitg, M.4
Montanyola, A.5
-
21
-
-
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.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
22
-
-
77955019084
-
Parallelization of the MAFFT multiple sequence alignment program
-
Katoh K, Toh H, (2010) Parallelization of the MAFFT multiple sequence alignment program. Bioinformatics 26: 1899-1900.
-
(2010)
Bioinformatics
, vol.26
, pp. 1899-1900
-
-
Katoh, K.1
Toh, H.2
-
23
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
-
24
-
-
31144442881
-
Automatic assessment of alignment quality
-
Lassmann T, Sonnhammer EL, (2005) Automatic assessment of alignment quality. Nucleic Acids Res 33: 7120-7128.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 7120-7128
-
-
Lassmann, T.1
Sonnhammer, E.L.2
-
25
-
-
79957613599
-
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, et al. (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: 2731-2739.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
Peterson, D.2
Peterson, N.3
Stecher, G.4
Nei, M.5
-
26
-
-
14644397888
-
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
-
27
-
-
75149150388
-
TreeGraph 2: combining and visualizing evidence from different phylogenetic analyses
-
Stover BC, Muller KF, (2010) TreeGraph 2: combining and visualizing evidence from different phylogenetic analyses. BMC Bioinformatics 11: 7.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 7
-
-
Stover, B.C.1
Muller, K.F.2
|