415 related articles for article (PubMed ID: 27336403)
1. Phylogeny Reconstruction with Alignment-Free Method That Corrects for Horizontal Gene Transfer.
Bromberg R; Grishin NV; Otwinowski Z
PLoS Comput Biol; 2016 Jun; 12(6):e1004985. PubMed ID: 27336403
[TBL] [Abstract][Full Text] [Related]
2. 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; 1():8. PubMed ID: 11734060
[TBL] [Abstract][Full Text] [Related]
3. Highways of gene sharing in prokaryotes.
Beiko RG; Harlow TJ; Ragan MA
Proc Natl Acad Sci U S A; 2005 Oct; 102(40):14332-7. PubMed ID: 16176988
[TBL] [Abstract][Full Text] [Related]
4. Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain.
Sheinman M; Arkhipova K; Arndt PF; Dutilh BE; Hermsen R; Massip F
Elife; 2021 Jun; 10():. PubMed ID: 34121661
[TBL] [Abstract][Full Text] [Related]
5. Inferring Phylogenomic Relationship of Microbes Using Scalable Alignment-Free Methods.
Bernard G; Stephens TG; González-Pech RA; Chan CX
Methods Mol Biol; 2021; 2242():69-76. PubMed ID: 33961218
[TBL] [Abstract][Full Text] [Related]
6. AnnoTree: visualization and exploration of a functionally annotated microbial tree of life.
Mendler K; Chen H; Parks DH; Lobb B; Hug LA; Doxey AC
Nucleic Acids Res; 2019 May; 47(9):4442-4448. PubMed ID: 31081040
[TBL] [Abstract][Full Text] [Related]
7. An emerging phylogenetic core of Archaea: phylogenies of transcription and translation machineries converge following addition of new genome sequences.
Brochier C; Forterre P; Gribaldo S
BMC Evol Biol; 2005 Jun; 5():36. PubMed ID: 15932645
[TBL] [Abstract][Full Text] [Related]
8. Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes.
Mirkin BG; Fenner TI; Galperin MY; Koonin EV
BMC Evol Biol; 2003 Jan; 3():2. PubMed ID: 12515582
[TBL] [Abstract][Full Text] [Related]
9. Updated clusters of orthologous genes for Archaea: a complex ancestor of the Archaea and the byways of horizontal gene transfer.
Wolf YI; Makarova KS; Yutin N; Koonin EV
Biol Direct; 2012 Dec; 7():46. PubMed ID: 23241446
[TBL] [Abstract][Full Text] [Related]
10. CVTree3 Web Server for Whole-genome-based and Alignment-free Prokaryotic Phylogeny and Taxonomy.
Zuo G; Hao B
Genomics Proteomics Bioinformatics; 2015 Oct; 13(5):321-31. PubMed ID: 26563468
[TBL] [Abstract][Full Text] [Related]
11. Calculating orthologs in bacteria and Archaea: a divide and conquer approach.
Halachev MR; Loman NJ; Pallen MJ
PLoS One; 2011; 6(12):e28388. PubMed ID: 22174796
[TBL] [Abstract][Full Text] [Related]
12. GO4genome: a prokaryotic phylogeny based on genome organization.
Merkl R; Wiezer A
J Mol Evol; 2009 May; 68(5):550-62. PubMed ID: 19436929
[TBL] [Abstract][Full Text] [Related]
13. A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm.
Podell S; Gaasterland T; Allen EE
BMC Bioinformatics; 2008 Oct; 9():419. PubMed ID: 18840280
[TBL] [Abstract][Full Text] [Related]
14. A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea.
Wu D; Hugenholtz P; Mavromatis K; Pukall R; Dalin E; Ivanova NN; Kunin V; Goodwin L; Wu M; Tindall BJ; Hooper SD; Pati A; Lykidis A; Spring S; Anderson IJ; D'haeseleer P; Zemla A; Singer M; Lapidus A; Nolan M; Copeland A; Han C; Chen F; Cheng JF; Lucas S; Kerfeld C; Lang E; Gronow S; Chain P; Bruce D; Rubin EM; Kyrpides NC; Klenk HP; Eisen JA
Nature; 2009 Dec; 462(7276):1056-60. PubMed ID: 20033048
[TBL] [Abstract][Full Text] [Related]
15. Concatenated alignments and the case of the disappearing tree.
Thiergart T; Landan G; Martin WF
BMC Evol Biol; 2014 Dec; 14():266. PubMed ID: 25547755
[TBL] [Abstract][Full Text] [Related]
16. Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ.
Omelchenko MV; Makarova KS; Wolf YI; Rogozin IB; Koonin EV
Genome Biol; 2003; 4(9):R55. PubMed ID: 12952534
[TBL] [Abstract][Full Text] [Related]
17. Origins of major archaeal clades correspond to gene acquisitions from bacteria.
Nelson-Sathi S; Sousa FL; Roettger M; Lozada-Chávez N; Thiergart T; Janssen A; Bryant D; Landan G; Schönheit P; Siebers B; McInerney JO; Martin WF
Nature; 2015 Jan; 517(7532):77-80. PubMed ID: 25317564
[TBL] [Abstract][Full Text] [Related]
18. UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction.
Na SI; Kim YO; Yoon SH; Ha SM; Baek I; Chun J
J Microbiol; 2018 Apr; 56(4):280-285. PubMed ID: 29492869
[TBL] [Abstract][Full Text] [Related]
19. The net of life: reconstructing the microbial phylogenetic network.
Kunin V; Goldovsky L; Darzentas N; Ouzounis CA
Genome Res; 2005 Jul; 15(7):954-9. PubMed ID: 15965028
[TBL] [Abstract][Full Text] [Related]
20. A spectrum of verticality across genes.
Nagies FSP; Brueckner J; Tria FDK; Martin WF
PLoS Genet; 2020 Nov; 16(11):e1009200. PubMed ID: 33137105
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]