Evolution of the mitochondrial DNA control region and cytochrome b genes and the inference of phylogenetic relationships in the avian genus Lophura (Galliformes)

Molecular Phylogenetics and Evolution

Volumn 19, Issue 2, 2001, Pages 187-201

  Randi, Ettore ^a   Lucchini, Vittorio ^a   Hennache, Alain ^b   Kimball, Rebecca T ^c,d   Braun, Edward L ^c,d   Ligon, J David ^d  

^a Istituto Nazionale per la Fauna Selvatica   (Italy)

^b MUSÉUM NATIONAL D'HISTOIRE NATURELLE   (France)

^c OHIO STATE UNIVERSITY   (United States)

^d UNIVERSITY OF NEW MEXICO   (United States)

Author keywords

Aves; Biogeography; Control region; Cytochrome b; Galliformes; Lophura; Mitochondrial DNA; Molecular evolution; Phasianidae; Phylogenetics; RNA editing

Indexed keywords

AMINO ACID SEQUENCE; CODON; CYTOCHROME B; DNA FLANKING REGION; GENETIC DIVERGENCE; GENETIC RELATIONSHIP; LEUCINE; MITOCHONDRIAL DNA; MOLECULAR EVOLUTION; PHYLOGENETIC ANALYSIS; RNA EDITING; SOUTHEAST ASIA; SOUTHERN BLOTTING; TRANSFER RNA;

AVES; GALLIFORMES; LOPHURA; LOPHURA BULWERI; LOPHURA DIARDI; LOPHURA EDWARDSI; LOPHURA ERYTHROPHTHALMA; LOPHURA HATINHENSIS; LOPHURA IGNITA; LOPHURA INORNATA; LOPHURA LEUCOMELANOS; LOPHURA NYCTHEMERA; LOPHURA SWINHOII; PHASIANIDAE;

EID: 0034782682     PISSN: 10557903     EISSN: None     Source Type: Journal    
DOI: 10.1006/mpev.2001.0922     Document Type: Article

References (76)

1. Comparison of a mitochondrial gene and a corresponding nuclear pseudogene
2. Pleistocene phylogeographic effects on avian populations and the speciation process
3. Speciation durations and Pleistocene effects on vertebrate phylogeography
4. Mitochondrial control-region sequences as tools for understanding the evolution of avian taxa
5. Evolution and history of the western Palaearctlc avifauna
6. RNA editing in metazoan mitochondria: Staying fit without sex
7. The limits of aminoacid sequence data in angiosperm phylogenetic reconstruction
8. Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods
9. Sequence and gene organization of the chicken mitochondrial genome: A novel gene order in higher vertebrates
10. Nucleotide sequence and evolution of coding and noncoding regions of a quail mitochondrial genome
11. Testing significance of incongruence
12. Evolutionary trees from DNA sequences: A maximum-likelihood approach
13. Confidence limits on phylogenies: An approach using the bootstrap
14. Detecting substitution rate heterogeneity among regions of nucleotide sequence
15. Correlation of functional domains and rates of nucleotide substitution in cytochrome b
16. Raising Tibet
17. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
18. Biogeography of mammals in SE Asia: Estimates of rates of colonization, extinction and speciation
19. Genetic diversity, phylogenetic relationships and conservation of Edwards's Pheasant Lophura edwardsi
20. Signal, noise, and reliability in molecular phylogenetic analyses
21. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis
22. A test of the glacial refugium hypothesis using patterns of mitochondrial and nuclear DNA sequence variation in rock ptarmigan (Lagopus mutus)
23. Evolutionary conservation of protein regions in the protonmotive cytochrome b and their possible roles in redox catalysis
24. Phylogeny estimation and hypothesis testing using maximum-likelihood
25. Evolution of the cytochrome b gene of mammals
26. A comparative summary of genetic distances in the vertebrates from the mitochondrial cytochrome b gene
27. Evolution of protein molecules
28. Sequence variation in the Guillemot (Alcidae: Cepphus) mitochondrial control region and its nuclear homolog
29. Resolution of the phylogenetic position of the Congo peafowl, Afropavo congensis: A biogeographic and evolutionary enigma
30. A molecular phylogeny of the pheasants and partridges suggests these lineages are polyphyletic
31. Evaluation of the maximum-likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
32. The importance of recent Ice Ages in speciation: A failed paradigm
33. Pleistocene effects on North American songbird evolution
34. Pathways of lysozyme evolution inferred from the sequences of cytochrome b in birds
35. Patterns of nucleotide substitution in mitochondrial protein coding genes of vertebrates
36. A new method for calculating evolutionary substitution rates
37. The stochastic mode of molecular evolution: What consequences for systematic investigations?
38. Testing the phylogeny of swordtail fishes using split decomposition and spectral analysis
39. Family Phasianidae
40. Plumage variation and geographical distribution in the Kalij and Silver Pheasants
41. A reconstruction of the late Tertiary and Quaternary distribution of large mammals and their habitats in Sundaland, based on their ecology, genetically derived speciation times and the fossil record
42. An extra nucleotide is not translated in mitochondrial ND3 of some birds and turtles
43. The window of taxonomic resolution for phylogenies based on mitochondrial cytochrome b
44. tRNA punctuation model of RNA processing in human mitochondria
45. Rapid isolation of animal mitochondrial DNA by alkaline extraction
46. Molecular evolution of the mitochondrial genome
47. A mitochondrial cytochrome b phylogeny of the Alectoris partridges
48. Searching for mtDNA genetic diversity in the captive Edwards' Pheasants
49. Organization and evolution of the mitochondrial DNA control-region in the avian genus Alectoris
50. Mitochondrial DNA phylogeny and speciation in the Tragopans
51. Tests of applicability of several substitution models for DNA sequence data
52. The neighbor-joining method: A new method for reconstructing phylogenetic trees
53. Mammalian mitochondrial D-loop region structural analysis: Identification of new conserved sequences and their functional and evolutionary implications
54. Systematic relationships of endemic Vietnamese Pheasants
55. A guide to RNA editing
56. Multiple independent transpositions of mitochondrial DNA control region sequences to the nucleus
57. Numts: A challenge for avian systematics and population biology
58. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
59. The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
60. Contribution de l'anatomie et a la systematique des Galliformes
61. Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding
62. Phylogeny determination using the dynamically weighted parsimony method
63. Animal mitochondrial DNA: Structure and evolution
64. Maximum-likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
65. On the best evolutionary rate for phylogenetic analysis
66. 1
67. Sequence evolution and phylogenetic signal in D-loop and cytochrome b sequences of rainbow fishes (Melanotaeniidae)
68. Molecular systematics and biogeography of aridland gnatcatchers (Genus Polioptila) and evidence supporting species status of the California gnatcatchers (Polioptila californica)
69. Evidence from molecular systematics for decreased avian diversification in the Pleistocene epoch