Comparative phylogenomic analyses of teleost fish Hox gene clusters: Lessons from the cichlid fish Astatotilapia burtoni: Comment

BMC Genomics

Volumn 9, Issue , 2008, Pages

  Thomas Chollier, Morgane ^a,b   Ledent, Valérie ^a  

^a UNIVERSITÉ LIBRE DE BRUXELLES   (Belgium)

^b VRIJE UNIVERSITEIT BRUSSEL   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

HOMEODOMAIN PROTEIN;

ANIMAL CELL; ARTICLE; CICHLID; COMPUTER PROGRAM; EXPRESSED SEQUENCE TAG; FISH; FISH GENETICS; GENE CLUSTER; GENE IDENTIFICATION; GENETIC ANALYSIS; GENETIC CONSERVATION; NONHUMAN; PHYLOGENY; SEQUENCE ANALYSIS; TELEOST; ANIMAL; BAYES THEOREM; CLASSIFICATION; COMPARATIVE STUDY; GENETICS; GENOME; HOMEOBOX; MOLECULAR EVOLUTION; MULTIGENE FAMILY; PSEUDOGENE;

ASTATOTILAPIA BURTONI; CICHLIDAE; TELEOSTEI;

ANIMALS; BAYES THEOREM; CICHLIDS; EVOLUTION, MOLECULAR; GENES, HOMEOBOX; GENOME; MULTIGENE FAMILY; PHYLOGENY; PSEUDOGENES;

EID: 39549106873     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-9-35     Document Type: Article

References (13)

1. Hoegg S Boore J Kuehl J Meyer A Comparative phylogenomic analyses of teleost fish Hox gene clusters: Lessons from the cichlid fish Astatotilapia burtoni BMC Genomics 2007, 8:317. 2080641 17845724 10.1186/ 1471-2164-8-317
2. Thomas-Chollier M Leyns L Ledent V HoxPred: Automated classification of Hox proteins using combinations of generalised profiles BMC Bioinformatics 2007, 8:247. 1965487 17626621 10.1186/1471-2105-8-247
3. Burge C Karlin S Prediction of complete gene structures in human genomic DNA J Mol Biol 1997, 268:78-94. 10.1006/jmbi.1997.0951 9149143
4. Birney E Clamp M Durbin R GeneWise and Genomewise Genome Res 2004, 14(5):988-995. 479130 15123596 10.1101/gr.1865504
5. Zou SM Jiang XY He ZZ Yuan J Yuan XN Li SF Hox gene clusters in blunt snout bream, Megalobrama amblycephala andcomparison with those of zebrafish, fugu and medaka genomes Gene 2007, 400(1-2):60-70. 10.1016/ j.gene.2007.05.021 17618068
6. Misof BY Wagner GP Evidence for four Hox clusters in the killifish Fundulus heteroclitus (teleostei) Mol Phylogenet Evol 1996, 5(2):309-322. 10.1006/mpev.1996.0026 8728389
7. Prohaska SJ Stadler PF The duplication of the Hox gene clusters in teleost fishes Theory in Biosciences 2004, 123:89-110. 10.1016/ j.thbio.2004.03.004 18202881
8. Hubbard TJP Aken BL Beal K Ballester B Caccamo M Chen Y Clarke L Coates G Cunningham F Cutts T Down T Dyer SC Fitzgerald S Fernandez-Banet J Graf S Haider S Hammond M Herrero J Holland R Howe K Howe K Johnson N Kahari A Keefe D Kokocinski F Kulesha E Lawson D Longden I Melsopp C Megy K Meidl P Ouverdin B Parker A Prlic A Rice S Rios D Schuster M Sealy I Severin J Slater G Smedley D Spudich G Trevanion S Vilella A Vogel J White S Wood M Cox T Curwen V Durbin R Fernandez-Suarez XM Flicek P Kasprzyk A Proctor G Searle S Smith J Ureta-Vidal A Birney E Ensembl 2007 Nucleic Acids Res 2007, 35(Database):D610-7. 1761443 17148474 10.1093/nar/gkl996
9. Aparicio S Hawker K Cottage A Mikawa Y Zuo L Venkatesh B Chen E Krumlauf R Brenner S Organization of the Fugu rubripes Hox clusters: Evidence for continuing evolution of vertebrate Hox complexes Nat Genet 1997, 16:79-83. 10.1038/ng0597-79 9140399
10. Mayor C Brudno M Schwartz JR Poliakov A Rubin EM Frazer KA Pachter LS Dubchak I VISTA: Visualizing global DNA sequence alignments of arbitrary length Bioinformatics 2000, 16(11):1046-1047. 10.1093/bioinformatics/ 16.11.1046 11159318
11. Huelsenbeck JP Ronquist F MRBAYES: Bayesian inference of phylogenetic trees Bioinformatics 2001, 17(8):754-755. 10.1093/bioinformatics/ 17.8.754 11524383
12. Ronquist F Huelsenbeck JP MrBayes 3: Bayesian phylogenetic inference under mixed models Bioinformatics 2003, 19(12):1572-1574. 10.1093/ bioinformatics/btg180 12912839
13. Guindon S Gascuel O A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood Syst Biol 2003, 52(5):696-704. 10.1080/10635150390235520 14530136