First divergence time estimate of spiders, scorpions, mites and ticks (subphylum: Chelicerata) inferred from mitochondrial phylogeny

Experimental and Applied Acarology

Volumn 47, Issue 1, 2009, Pages 1-18

  Jeyaprakash, Ayyamperumal ^a   Hoy, Marjorie A ^a  

^a UNIVERSITY OF FLORIDA   (United States)

Author keywords

Divergence time estimates; Evolution of Chelicerata; Mitochondrial phylogeny; Multidivtime; r8s Analysis

Indexed keywords

MITOCHONDRIAL DNA; PROTEIN; RIBOSOME RNA; RNA 16S; RNA, RIBOSOMAL, 12S; TRANSFER RNA;

AMPHIBIAN; DIVERGENCE; EVOLUTIONARY BIOLOGY; FOSSIL RECORD; GENE; MITE; MITOCHONDRION; PHYLOGENY; REPTILE; RNA; SPIDER; TICK;

ANIMAL; ARACHNID; ARTICLE; GENETICS; MITOCHONDRIAL GENOME; MOLECULAR EVOLUTION; PHYLOGENY; SEQUENCE ALIGNMENT;

ANIMALS; ARACHNIDA; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; GENOME, MITOCHONDRIAL; PHYLOGENY; PROTEINS; RNA, RIBOSOMAL; RNA, RIBOSOMAL, 16S; RNA, TRANSFER; SEQUENCE ALIGNMENT;

ACARI; ALGAE; AMPHIBIA; ANIMALIA; ARANEAE; ARTHROPODA; CHELICERATA; FUNGI; HEXAPODA; IXODIDA; REPTILIA; SCORPIONES;

EID: 57849118282     PISSN: 01688162     EISSN: 15729702     Source Type: Journal    
DOI: 10.1007/s10493-008-9203-5     Document Type: Article

References (59)

1. WC Black-IV RL Roehrdanz 1998 Mitochondrial gene order is not conserved in arthropods: prostriate and metastriate tick mitochondrial genomes Mol Biol Evol 15 1772 1785
2. JL Boore 1999 Animal mitochondrial genomes Nucleic Acids Res 27 1767 1780 10.1093/nar/27.8.1767
3. EH Choi SJ Park KH Jang W Hwang 2007 Complete mitochondrial genome of a Chinese scorpion Mesobuthus martensii (Chelicerata, Scorpiones, Buthidae) DNA Seq 18 459 471 10.1080/10425170701289883
4. TJ Crease 1999 The complete sequence of the mitochondrial genome of Daphnia pulex (Cladocera: Crustacea) Gene 233 89 99 10.1016/S0378-1119(99)00151- 1
5. S Davila D Pinero P Bustos MA Cevallos G Davila 2005 The mitochondrial genome sequence of the scorpion Centruroides limpidus (Karsch 1879) (Chelicerata: Arachnida) Gene 360 92 102 10.1016/j.gene.2005.06.008
6. PCJ Donoghue MJ Benton 2007 Rocks and clocks: calibrating the tree of life using fossils and molecules Trends Ecol Evol 22 424 431 10.1016/j.tree.2007.05.005
7. Dunlop JA, Selden PA (1998) Early history and phylogeny of the chelicerates. In: Fortey RA, Thomas RH (eds) Arthropod relationships. Chapman & Hall, London, pp 221-237
8. Evans GO (1992) Principles of Acarology. C.A.B. International, Wallingford
9. JD Evans DL Lopez 2002 Complete mitochondrial DNA sequence of the important honey bee pest, Varroa destructor (Acari: Varroidae) Exp Appl Acarol 27 69 78 10.1023/A:1021574306010
10. PK Flook CH Rowell G Gellissen 1995 The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome J Mol Evol 41 928 941 10.1007/BF00173173
11. B Gantenbein V Fet IA Ganteinbein-Ritter F Balloux 2005 Evidence for recombination in scorpion mitochondrial DNA (Scorpiones: Buthidae) Proc R Soc Lond B Biol Sci 272 697 704 10.1098/rspb.2004.3017
12. Hall BG (2001) Phylogenetic trees made easy. Sinauer Associates, Inc., Sunderland
13. Hall BG (2004) CodonAlign Version 2.0. Sinauer Associates, Inc., Sunderland
14. DS Heckman DM Geiser BR Eidell RL Stauffer NL Kardos SB Hedges 2001 Molecular evidence for the early colonization of land by fungi and plants Science 293 1129 1133 10.1126/science.1061457
15. SB Hedges S Kumar 2003 Genomic clocks and evolutionary timescales Trends Genet 19 200 206 10.1016/S0168-9525(03)00053-2
16. Hoogstraal H (1978) Biology of ticks. In: Wilde JKH (ed) Tick-borne diseases and their vectors. Edinburg University Press, Edinburg, pp 3-14
17. JP Huelsenbeck F Ronquist 2001 MrBayes: Bayesian inference of phylogeny Bioinformatics 17 754 755 10.1093/bioinformatics/17.8.754
18. JG Inoue M Miya B Venkatesh M Nishida 2005 The mitochondrial genome of Indonesian coelacanth Latimeria menadoensis (Sarcopterygii: Coelacanthiformes) and divergence time estimation between the two coelacanths Gene 349 227 235 10.1016/j.gene.2005.01.008
19. A Jeyaprakash MA Hoy 2007 The mitochondrial genome of the predatory mite Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) is unexpectedly large and contains several novel features Gene 391 264 274 10.1016/j.gene.2007.01.012
20. H Klompen D Grimaldi 2001 First record of a parasitiform mite: a larval argasid tick in Cretaceous amber (Acari: Ixodida: Argasidae) Ann Entomol Soc Am 94 10 15 10.1603/0013-8746(2001)094[0010:FMROAP]2.0.CO;2
21. JSH Klompen WC Black-IV JE Keirans JH Oliver Jr 1996 Evolution of ticks Annu Rev Entomol 41 141 161 10.1146/annurev.en.41.010196.001041
22. H Klompen M Lekveishvili WC Black-IV 2007 Phylogeny of parasitiform mites (Acari) based on rRNA Mol Phylogenet Evol 43 936 951 10.1016/j.ympev.2006.10. 024
23. S Kumar SB Hedges 1998 A molecular timescale for vertebrate evolution Nature 392 917 920 10.1038/31927
24. DV Lavrov JL Boore WM Brown 2000 The complete mitochondrial DNA sequence of the horseshoe crab Limulus polyphemus Mol Biol Evol 17 813 824
25. DV Lavrov JL Boore WM Brown 2000 A novel RNA editing occurs in the mitochondrial tRNAs of the centipede Lithobius forficatus Proc Natl Acad Sci USA 97 13738 13742 10.1073/pnas.250402997
26. DV Lavrov JL Boore WM Brown 2002 Complete mtDNA sequences of two millipedes suggest a new model for mitochondrial gene rearrangements: duplication and nonrandom loss Mol Biol Evol 19 163 169
27. DL Lewis CL Farr LS Kaguni 1995 Drosophila melanogaster mitochondrial DNA: completion of the nucleotide sequence and evolutionary comparisons Insect Mol Biol 4 263 278 10.1111/j.1365-2583.1995.tb00032.x
28. WR Lourenco JC Gall 2004 Fossil scorpion from the Buntsandstein (Early Triassic) of France C R Palevol 3 369 378 10.1016/j.crpv.2004.06.006
29. Q Loytynoja N Goldman 2008 Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis Science 320 1632 1635 10.1126/science.1158395
30. Maddison WP, Maddison DR (1992) MacClade analysis of phylogeny and character evolution. Sinauer Associates, Inc., Sunderland
31. M Manuel M Jager J Murienne C Clabaut HL Guyader 2006 Hox genes in sea spiders (Pycnogonida) and the homology of arthropod head segments Dev Genes Evol 216 481 491 10.1007/s00427-006-0095-2
32. SE Masta JL Boore 2004 The complete mitochondrial genome sequence of the spider Habronattus oregonensis reveals rearranged and extremely truncated tRNAs Mol Biol Evol 21 893 902 10.1093/molbev/msh096
33. H Mitani A Talbert M Fukunaga 2004 New world relapsing fever Borrelia found in Ornithodoros porcinus ticks in central Tanzania Microbiol Immunol 48 501 505
34. M Navajas Y le Conte M Solignac S Cros-Arteil J-M Cornuet 2002 The complete sequence of the mitochondrial genome of the honeybee ectoparasite mite Varroa destructor (Acari: Mesostigmata) Mol Biol Evol 19 2313 2317
35. E Negrisolo A Minelli G Valle 2004 Extensive gene order rearrangement in the mitochondrial genome of the centipede Scutigera coleoptrata J Mol Evol 58 413 423 10.1007/s00239-003-2563-x
36. E Negrisolo A Minelli G Valle 2004 The mitochondrial genome of the house centipede Scutigera and the monophyly versus paraphyly of myriapods Mol Biol Evol 21 770 780 10.1093/molbev/msh078
37. RA Norton PM Bonamo JD Grierson WM Shear 1988 Oribatid mite fossils from a Devonian deposit near Gilboa, New York State J Paleontol 62 259 269
38. E Pennisi 2008 Building the tree of life, genome by genome Science 320 1716 1717 10.1126/science.320.5884.1716
39. D Penny PA Selden 2002 The oldest linyphiid spider, in lower Cretaceous Lebanese amber (Araneae, Linyphiidae, Linyphiinae) J Arachnol 30 487 493 10.1636/0161-8202(2002)030[0487:TOLSIL]2.0.CO;2
40. ML Perez JR Valverde B Batuecas F Amat R Marco R Garesse 1994 Speciation in the Artemia genus: mitochondrial DNA analysis of bisexual and parthenogenetic brine shrimps J Mol Evol 38 156 168 10.1007/BF00166162
41. Pisani D, Poling LL, Lyons-Weiler M, Hedges SB (2004) The colonization of land by animals: molecular phylogeny and divergence times among arthropods. BMC Biol 2:1-10. http://www.biomedcentral.com/1741-7007/2/1. doi: 10.1186/1741-7007-2-1
42. Podsiadlowski L, Braband A (2006) The complete mitochondrial genome of the sea spider Nymphon gracile (Arthropoda: Pycnogonida). BMC Genomics 7:1-13. http://www.biomedcentral.com/1471-2164/7/284. doi: 10.1186/1471-2164-7-284
43. L Podsiadlowski H Kohlhagen M Koch 2007 The complete mitochondrial genome of Scutigerella causeyae (Myriapoda: Symphyla) and the phylogenetic position of Symphyla Mol Phylogenet Evol 45 251 260 10.1016/j.ympev.2007.07.017
44. D Posada KA Crandall 1998 MODELTEST: testing the model of DNA substitution Bioinformatics 14 817 818 10.1093/bioinformatics/14.9.817
45. Y Qiu D Song K Zhou H Sun 2005 The mitochondrial sequences of Heptathela hangzhouensis and Ornithoctonus huwena reveal unique gene arrangements and atypical tRNAs J Mol Evol 60 57 71 10.1007/s00239-004-0010-2
46. MJ Sanderson 2003 r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock Bioinformatics 19 301 302 10.1093/bioinformatics/19.2.301
47. MJ Sanderson 2008 Phylogenetic signal in the eukaryotic tree of life Science 321 121 123 10.1126/science.1154449
48. R Shao Y Aoki H Mitani N Tabuchi SC Barker M Fukunaga 2004 The mitochondrial genomes of soft ticks have an arrangement of genes that has remained unchanged for over 400 million years Insect Mol Biol 13 219 224 10.1111/j.0962-1075.2004.00447.x
49. R Shao SC Barker H Mitani Y Aoki M Fukunaga 2005 Evolution of duplicate control regions in the mitochondrial genomes of Metazoa: a case study with Australian Ixodes ticks Mol Biol Evol 22 620 629 10.1093/molbev/msi047
50. R Shao H Mitani SC Barker M Takahashi M Fukunaga 2005 Novel mitochondrial gene content and gene arrangement indicate illegitimate inter-mtDNA recombination in the chigger mite, Leptotrombidium pallidum J Mol Evol 60 764 773 10.1007/s00239-004-0226-1
51. R Shao SC Barker H Mitani M Takahashi M Fukunaga 2006 Molecular mechanisms for the variation of mitochondrial gene content and gene arrangement among chigger mites of the genus Leptotrombidium (Acari: Acariformes) J Mol Biol 63 251 261
52. JW Shultz JC Regier 2000 Phylogenetic analysis of arthropods using two nuclear protein-encoding genes supports a crustacean + hexapod clade Proc R Soc Lond B Biol Sci 267 1011 1019 10.1098/rspb.2000.1104
53. Swofford DL (2002) PAUP*phylogenetic analysis using parsimony, version 4. Sinauer Associates, Inc., Sunderland
54. JL Thorne H Kishino IS Painter 1998 Estimating the rate of evolution of the rate of molecular evolution Mol Biol Evol 15 1647 1657
55. D Waloszek JA Dunlop 2002 A larval sea spider (Arthropoda: Pycnogonida) from the Upper Cambrian 'Orsten' of Sweden and the phylogenetic position of pycnogonids Palaentol 45 421 436 10.1111/1475-4983.00244
56. BL Webster RR Copley RA Jenner JA Mackenzie-Dodds SJ Bourlat O Rota-Stabelli 2006 Mitogenomics and phylogenomics reveal priapulid worms as extant models of the ancestral ecdysozoan Evol Dev 8 502 510 10.1111/j.1525-142X.2006.00123.x
57. BL Webster JA Mackenzie-Dodds MJ Telford DTJ Littlewood 2007 The mitochondrial genome of Priapulus caudatus Lamarck (Priapulida: Priapulidae) Gene 389 96 105 10.1016/j.gene.2006.10.005
58. Z Yang 1997 PAML: a program package for phylogenetics analysis by maximum likelihood Comput Appl Biosci 13 555 556
59. Z Yang AD Yoder 2003 Comparison of likelihood and Bayesian methods for estimating divergence times using multiple gene loci and calibration points, with application to a radiation of cute-looking mouse lemur species Syst Biol 52 705 716 10.1080/10635150390235557