Phylogenetic analysis reveals wide distribution of globin X

Biology Direct

Volumn 6, Issue , 2011, Pages

  Dröge, Jasmin ^a   Makałowski, Wojciech ^a  

^a UNIVERSITY OF MÜNSTER   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CHONDRICHTHYES; CRUSTACEA; HEMICHORDATA; HEXAPODA; PETROMYZON; PETROMYZON MARINUS; PLATYHELMINTHES; REPTILIA; TELEOSTEI; VERTEBRATA;

GLOBIN;

ALGORITHM; AMINO ACID SEQUENCE; AMPHIBIA; ANIMAL; ARTICLE; CLASSIFICATION; EXON; FISH; GENETICS; INVERTEBRATE; METABOLISM; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PHYLOGENY; PROTEIN DATABASE; REPTILE; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY;

ALGORITHMS; AMINO ACID SEQUENCE; AMPHIBIANS; ANIMALS; DATABASES, PROTEIN; EVOLUTION, MOLECULAR; EXONS; FISHES; GLOBINS; INVERTEBRATES; MOLECULAR SEQUENCE DATA; PHYLOGENY; REPTILES; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID;

EID: 80054065944     PISSN: None     EISSN: 17456150     Source Type: Journal    
DOI: 10.1186/1745-6150-6-54     Document Type: Article

References (25)

1. Hardison RC. A brief history of hemoglobins: plant, animal, protist, and bacteria. Proc Natl Acad Sci USA 1996, 93:5675-5679. 10.1073/pnas.93.12.5675, 39118, 8650150.
2. Burmester T, Weich B, Reinhardt S, Hankeln T. A vertebrate globin expressed in the brain. Nature 2000, 407:520-523. 10.1038/35035093, 11029004.
3. Burmester T, Ebner B, Weich B, Hankeln T. Cytoglobin: a novel globin type ubiquitously expressed in vertebrate tissues. Mol Biol Evol 2002, 19:416-421.
4. Trent JT, Hargrove MS. A ubiquitously expressed human hexacoordinate hemoglobin. J Biol Chem 2002, 277:19538-19545. 10.1074/jbc.M201934200, 11893755.
5. Fuchs C, Burmester T, Hankeln T. The amphibian globin gene repertoire as revealed by the Xenopus genome. Cytogenet Genome Res 2006, 112:296-306. 10.1159/000089884, 16484786.
6. Patel VS, Cooper SJ, Deakin JE, Fulton B, Graves T, Warren WC, Wilson RK, Graves JA. Platypus globin genes and flanking loci suggest a new insertional model for beta-globin evolution in birds and mammals. BMC Biol 2008, 6:34. 10.1186/1741-7007-6-34, 2529266, 18657265.
7. Kugelstadt D, Haberkamp M, Hankeln T, Burmester T. Neuroglobin, cytoglobin, and a novel, eye-specific globin from chicken. Biochem Biophys Res Commun 2004, 325:719-725. 10.1016/j.bbrc.2004.10.080, 15541349.
8. Roesner A, Fuchs C, Hankeln T, Burmester T. A globin gene of ancient evolutionary origin in lower vertebrates: evidence for two distinct globin families in animals. Mol Biol Evol 2005, 22:12-20.
9. Roesner A, Hankeln T, Burmester T. Hypoxia induces a complex response of globin expression in zebrafish (Danio rerio). J Exp Biol 2006, 209:2129-2137. 10.1242/jeb.02243, 16709914.
10. Wawrowski A, Gerlach F, Hankeln T, Burmester T. Changes of globin expression in the Japanese medaka (Oryzias latipes) in response to acute and chronic hypoxia. J Comp Physiol B 2011, 181:199-208. 10.1007/s00360-010-0518-2, 20963423.
11. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990, 215:403-410.
12. Brunak S, Engelbrecht J, Knudsen S. Prediction of human mRNA donor and acceptor sites from the DNA sequence. J Mol Biol 1991, 220:49-65. 10.1016/0022-2836(91)90380-O, 2067018.
13. Hebsgaard SM, Korning PG, Tolstrup N, Engelbrecht J, Rouze P, Brunak S. Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information. Nucleic Acids Res 1996, 24:3439-3452. 10.1093/nar/24.17.3439, 146109, 8811101.
14. Burge CB, Karlin S. Finding the genes in genomic DNA. Curr Opin Struct Biol 1998, 8:346-354. 10.1016/S0959-440X(98)80069-9, 9666331.
15. Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004, 32:1792-1797. 10.1093/nar/gkh340, 390337, 15034147.
16. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690. 10.1093/bioinformatics/btl446, 16928733.
17. Stamatakis A, Hoover P, Rougemont J. A rapid bootstrap algorithm for the RAxML Web servers. Syst Biol 2008, 57:758-771. 10.1080/10635150802429642, 18853362.
18. Ronquist F, Huelsenbeck JP. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 2003, 19:1572-1574. 10.1093/bioinformatics/btg180, 12912839.
19. Huelsenbeck JP, Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 2001, 17:754-755. 10.1093/bioinformatics/17.8.754, 11524383.
20. Miller MA, Holder MT, Vos R, Midford PE, Liebowitz T, Chan L, Hoover P, Warnow T. The CIPRES Portals. CIPES. 2009, http://www.phylo.org/sub_sections/portal
21. Whelan S, Goldman N. A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 2001, 18:691-699.
22. Abascal F, Zardoya R, Posada D. ProtTest: selection of best-fit models of protein evolution. Bioinformatics 2005, 21:2104-2105. 10.1093/bioinformatics/bti263, 15647292.
23. Letunic I, Bork P. Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics 2007, 23:127-128. 10.1093/bioinformatics/btl529, 17050570.
24. Ebner B, Panopoulou G, Vinogradov SN, Kiger L, Marden MC, Burmester T, Hankeln T. The globin gene family of the cephalochordate amphioxus: implications for chordate globin evolution. BMC Evol Biol 2010, 10:370. 10.1186/1471-2148-10-370, 3087553, 21118516.
25. Seymour RS, Bennett-Stamper CL, Johnston SD, Carrier DR, Grigg GC. Evidence for endothermic ancestors of crocodiles at the stem of archosaur evolution. Physiol Biochem Zool 2004, 77:1051-1067. 10.1086/422766, 15674775.