Xanthine dehydrogenase (Xdh): Episodic evolution of a "neutral" protein

Journal of Molecular Evolution

Volumn 53, Issue 4-5, 2001, Pages 485-495

  Rodríguez Trelles, Francisco ^a,c   Tarrío, Rosa ^a,b   Ayala, Francisco J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b Santiago de Compostela   (Spain)

^c MISIÓN BIOLÓGICA DE GALICIA CSIC   (Spain)

Author keywords

Fluctuating mutation bias; Heterogeneous nucleotide composition; Isochores; Lineage effects; Molecular clock; XDH protein evolution

Indexed keywords

PROTEIN; XANTHINE DEHYDROGENASE;

ARTICLE; CODON; EVOLUTION; FUNGUS; GENE LOCUS; GENE SEQUENCE; GENOME; INSECT; MAMMAL; MAXIMUM LIKELIHOOD METHOD; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT; VERTEBRATE;

AMINO ACID SUBSTITUTION; AMINO ACIDS; ANIMALS; BASE COMPOSITION; DIPTERA; DNA; DROSOPHILA; EVOLUTION, MOLECULAR; MODELS, GENETIC; PHYLOGENY; XANTHINE DEHYDROGENASE;

EID: 0034826141     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s002390010239     Document Type: Article

References (57)

1. Vagaries of the molecular clock
2. Molecular clock mirages
3. Molecular clock or erratic evolution? A tale of two genes
4. Dating the evolutionary radiations of the true fungi
5. The mosaic genome of warm-blooded vertebrates
6. Hidden electrophoretic variation at the xanthine dehydrogenase locus in a natural population of Drosophila melanogaster
7. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
8. Organization of the rosy locus in Drosophila melanogaster
9. Properties of xanthine dehydrogenase variants from rosy mutant strains of Drosophila melanogaster and their relevance to enzyme's structure and mechanism
10. Cystal structures of bovine milk xanthine dehydrogenase and xanthine oxidase: Structure-based mechanism of conversion
11. Cytosine deamination plays a primary role in the evolution of mammalian isochores
12. Phylogenies and the comparative method
13. Inferring phylogenies from DNA sequences of unequal base compositions
14. Inferring the pattern and process: Maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis
15. A nonhyperthermophilic common ancestor to extant life forms
16. Altered specificity mutations define residues essential for substrate positioning in xanthine dehydrogenase
17. A codon-based model of nucleotide substitutions for protein-coding DNA sequences
18. + on xanthine dehydrogenase activity in Drosophila melanogaster
19. A phylogenetic revised classification of genera in the Drosophilidae (Diptera)
20. Xanthine oxidase and xanthine dehydrogenase
21. Divergence of the nucleotide sequences encoding xanthine dehydrogenase in Calliphora vicina and Drosophila melanogaster
22. Cloning of the cDNA encoding human xanthine dehydrogenase (oxidase): Structural analysis of the protein and chromosomal location of the gene
23. The rapid generation of mutation data matrices from protein sequences
24. Sequence of the structural gene for xanthine dehydrogenase (rosy locus) in Drosophila melanogaster
25. Structure and expression of tandemly duplicated xanthine dehydrogenase genes of the silkworm (Bombyx mori)
26. Phylogeny of Drosophila and related genera inferred from the nucleotide sequence of the Cu, Zn Sod gene
27. Erratic evolution of glycerol-3-phosphate dehydrogenase in Drosophila, Chymomyza, and Ceratitis
28. Xanthine dehydrogenase from the phototrophic purple bacterium Rhodobacter caopsulatus is more similar to its eukaryotic counterparts than to prokaryotic molibdenum enzymes
29. Population genetics
30. Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene
31. Character congruence of multiple data partitions and the origin of the Hawaiian Drosophilidae
32. Molecular evolution and phylogeny of the Drosophila saltans species group inferred from the Xdh gene
33. Switch in codon bias and increased rates of amino acid substitution in the Drosophila saltans species group
34. Fluctuating mutation bias and the evolution of the base composition in Drosophila
35. Disparate evolution of paralogous introns in the Xdh gene of Drosophila
36. Evidence for a high ancestral GC content in Drosophila
37. Nucleotide sequence of the Xdh region in Drosophila pseudoobscura and an analysis of the evolution of synonymous codons
38. Distinguishing the forces controlling genetic variation at the Xdh locus in Drosophila pseudoobscura
39. Nucleotide polymorphism at the xanthine dehydrogenase locus in Drosophila pseudoobscura
40. The Mo-hydroxylases xanthine dehydrogenase and aldehyde oxidase in ryegrass as affected by nitrogen and salinity
41. Genetic differentiation between geographically distant populations of Drosophila melanogaster
42. Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C content biases
43. New Drosophila introns originate by duplication
44. Tree rooting with outgroups when they differ in their nucleotide composition from the ingroup: The Drosophila saltans and willistoni groups, a case study
45. On the evolution of Dopa decarboxylase (Ddc) and Drosophila systematics
46. The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
47. Performance of the relative-rate test under nonstationary models of nucleotide substitution
48. Molecular cloning, tissue expression of human xanthine dehydrogenase
49. Estimating the pattern of nucleotide substitution
50. The among-site rate variation and its impact on phylogenetic analyses
51. Maximum likelihood models for combined analyses of multiple sequence data
52. Likelihood ratio tests for detecting positive selection and application to primate lysozyme evolution
53. On the use of nucleic acid sequences to infer branchings in the tree of life
54. Models of amino acid substitution and applications to mitochondrial DNA evolution