Các mối quan hệ phát sinh chủng loài của động vật thủy sinh nhờ dữ liệu genom ti thể

Daly M, Brugler MR, Cartwright P, Collins AG, Dawson MN, Fautin DG, France SC, Mcfadden CS, Opresko DM, Rodriguez E, Romano SL, Stake JL: The phylum Cnidaria: A review of phylogenetic patterns and diversity 300 years after Linnaeus*. Zootaxa. 2007, 182: 127-128. Collins AG: Recent insights into cnidarian phylogeny. Smithsonian Contributions to Marine Sciences. 2009, 38: 139-149. Cavalier-Smith T, Allsopp MTEP, Chao EE, Boury-Esnault N, Vacelet J: Sponge phylogeny, animal monophyly, and the origin of the nervous system: 18S rRNA evidence. Can J Zool. 1996, 74: 2031-2045. 10.1139/z96-231. France SC, Rosel PE, Agenbroad JE, Mullineaux LS, Kocher T: DNA sequence variation of mitochondrial large-subunit rRNA provides support for a two-subclass organization of the Anthozoa (Cnidaria). Mol. Mar. Biol. Biotechnolog. 1996, 5: 15-28. Odorico DM, Miller DJ: Internal and external relationships of the Cnidaria: implications of primary and predicted secondary structure of the 5’-end of the 23S-like rDNA. Proc Biol Sci/R. Soc. 1997, 264: 77-82. 10.1098/rspb.1997.0011. Berntson EA, France SC, Mullineaux LS: Phylogenetic relationships within the class Anthozoa (phylum Cnidaria) based on nuclear 18S rDNA sequences. Mol Phylogenet Evol. 1999, 13: 417-433. 10.1006/mpev.1999.0649. Collins AG: Phylogeny of Medusozoa and the evolution of cnidarian life cycles. J Evolution Biol. 2002, 15: 418-432. 10.1046/j.1420-9101.2002.00403.x. Kayal E, Lavrov DV: The mitochondrial genome of Hydra oligactis (Cnidaria, Hydrozoa) sheds new light on animal mtDNA evolution and cnidarian phylogeny. Gene. 2008, 410: 177-186. 10.1016/j.gene.2007.12.002. Lavrov DV, Wang X, Kelly M: Reconstructing ordinal relationships in the Demospongiae using mitochondrial genomic data. Mol Phylogenet Evol. 2008, 49: 111-124. 10.1016/j.ympev.2008.05.014. Park E, Hwang D-S, Lee J-S, Song J-I, Seo T-K, Won Y-J: Estimation of divergence times in cnidarian evolution based on mitochondrial protein-coding genes and the fossil record. Mol Phylogenet Evol. 2012, 62: 329-345. 10.1016/j.ympev.2011.10.008. Shao Z, Graf S, Chaga OY, Lavrov DV: Mitochondrial genome of the moon jelly Aurelia aurita (Cnidaria, Scyphozoa): A linear DNA molecule encoding a putative DNA-dependent DNA polymerase. Gene. 2006, 381: 92-101. Kim J, Kim W, Cunningham CW: A new perspective on lower metazoan relationships from 18S rDNA Sequences. Mol Biol Evol. 1999, 16: 423-427. 10.1093/oxfordjournals.molbev.a026124. Dawson MN: Some implications of molecular phylogenetics for understanding biodiversity in jellyfishes, with emphasis on Scyphozoa. Hydrobiologia. 2004, 530–531: 249-260. Collins AG, Schuchert P, Marques AC, Jankowski T, Medina M, Schierwater B: Medusozoan phylogeny and character evolution clarified by new large and small subunit rDNA data and an assessment of the utility of phylogenetic mixture models. Syst Bio. 2006, 55: 97-115. 10.1080/10635150500433615. Mayer AG: Medusae of the world. 1910, Washington, D.C: Carnegie institution of Washington, 386- Thiel H: The evolution of Scyphozoa: A review. Cnidaria and their Evolution. 1966, London: Academic Press Bayha KM, Dawson MN, Collins AG, Barbeitos MS, Haddock SHD: Evolutionary relationships among scyphozoan jellyfish families based on complete taxon sampling and phylogenetic analyses of 18S and 28S ribosomal DNA. Integr Comp Biol. 2010, 50: 436-455. 10.1093/icb/icq074. Cartwright P, Nawrocki AM: Character evolution in hydrozoa (phylum Cnidaria). Integr Comp Biol. 2010, 50 (3): 456-472. 10.1093/icb/icq089. Cartwright P, Evans NM, Dunn CW, Marques AC, Miglietta MP, Schuchert P, Collins AG: Phylogenetics of Hydroidolina (Hydrozoa: Cnidaria). J. Mar. Biol. Assoc. U.K. 2008, 88: 1663-1672. 10.1017/S0025315408002257. Kitahara MV, Cairns SD, Stolarski J, Blair D, Miller DJ: A comprehensive phylogenetic analysis of the Scleractinia (Cnidaria, Anthozoa) based on mitochondrial CO1 sequence data. PLoS One. 2010, 5: e11490-10.1371/journal.pone.0011490. Fukami H, Chen CA, Budd AF, Collins A, Wallace C, Chuang Y-Y, Chen C, Dai C-F, Iwao K, Sheppard C, Knowlton N: Mitochondrial and nuclear genes suggest that stony corals are monophyletic but most families of stony corals are not (Order Scleractinia, Class Anthozoa, Phylum Cnidaria). PLoS One. 2008, 3: e3222-10.1371/journal.pone.0003222. Medina M, Collins AG, Takaoka TL, Kuehl JV, Boore JL: Naked corals: skeleton loss in Scleractinia. Proc Nat Acad Sci USA. 2006, 103: 9096-9100. 10.1073/pnas.0602444103. Bentlage B, Cartwright P, Yanagihara AA, Lewis C, Richards GS, Collins AG: Evolution of box jellyfish (Cnidaria: Cubozoa), a group of highly toxic invertebrates. Proc Biol Sci/R Soc. 2010, 277: 493-501. 10.1098/rspb.2009.1707. McFadden CS, Sanchez JA, France SC: Molecular phylogenetic insights into the evolution of octocorallia: a review. Integr Comp Biol. 2010, 50: 389-410. 10.1093/icb/icq056. Barbeitos MS, Romano SL, Lasker HR: Repeated loss of coloniality and symbiosis in scleractinian corals. Proc Nat Acad Sci USA. 2010, 107: 11877-11882. 10.1073/pnas.0914380107. Costello JH, Colin SP, Dabiri JO: Medusan morphospace: phylogenetic constraints, biomechanical solutions, and ecological consequences. Invertebr Biol. 2008, 127: 265-290. 10.1111/j.1744-7410.2008.00126.x. Kayal E, Bentlage B, Collins AG, Kayal M, Pirro S, Lavrov DV: Evolution of linear mitochondrial genomes in medusozoan cnidarians. Genome Biol Evol. 2012, 4: 1-12. 10.1093/gbe/evr123. Marques AC, Collins AG: Cladistic analysis of Medusozoa and cnidarian evolution. Invertebr Biol. 2004, 123: 23-42. Collins AG, Bentlage B, Lindner A, Lindsay D, Haddock SHD, Jarms G, Norenburg JL, Jankowski T, Cartwright P: Phylogenetics of Trachylina (Cnidaria: Hydrozoa) with new insights on the evolution of some problematical taxa. J Mar Biol Assoc U.K. 2008, 88: 1673-1685. 10.1017/S0025315408001732. Leclère L, Schuchert P, Cruaud C, Couloux A, Manuel M: Molecular phylogenetics of Thecata (Hydrozoa, Cnidaria) reveals long-term maintenance of life history traits despite high frequency of recent character changes. Syst Biol. 2009, 58: 509-526. 10.1093/sysbio/syp044. Leclère L, Schuchert P, Manuel M: Phylogeny of the Plumularioidea (Hydrozoa, Leptothecata): evolution of colonial organisation and life cycle. Zoologica Scripta. 2007, 36: 371-394. 10.1111/j.1463-6409.2007.00283.x. Kan X-Z, Yang J-K, Li X-F, Chen L, Lei Z-P, Wang M, Qian C-J, Gao H, Yang Z-Y: Phylogeny of major lineages of galliform birds (Aves: Galliformes) based on complete mitochondrial genomes. Genet Mol Res: GMR. 2010, 9 (3): 1625-1633. 10.4238/vol9-3gmr898. Podsiadlowski L, Braband A, Struck TH, Von Döhren J, Bartolomaeus T: Phylogeny and mitochondrial gene order variation in Lophotrochozoa in the light of new mitogenomic data from Nemertea. BMC Genomics. 2009, 10: 364-10.1186/1471-2164-10-364. Rota-Stabelli O, Kayal E, Gleeson D, Daub J, Boore JL, Telford MJ, Pisani D, Blaxter M, Lavrov DV: Ecdysozoan mitogenomics: evidence for a common origin of the legged invertebrates, the panarthropoda. Genome Biol Evol. 2010, 2: 425-440. 10.1093/gbe/evq030. Hoelzer GA: Inferring phylogenies from mtDNA variation: mitochondrial-gene trees versus nuclear-gene trees revisited. Evolution. 1997, 51: 622-626. 10.2307/2411136. Boore JL, Fuerstenberg SI: Beyond linear sequence comparisons: the use of genome-level characters for phylogenetic reconstruction. Philosophical transactions of the Royal Society of London. Series B, Biol Sci. 2008, 363: 1445-1451. Lavrov DV, Forget L, Kelly M, Lang BF: Mitochondrial genomes of two demosponges provide insights into an early stage of animal evolution. Mol Biol Evol. 2005, 22: 1231-1239. 10.1093/molbev/msi108. Gazave E, Lapébie P, Renard E, Vacelet J, Rocher C, Ereskovsky AV, Lavrov DV, Borchiellini C: Molecular phylogeny restores the supra-generic subdivision of homoscleromorph sponges (Porifera, Homoscleromorpha). PLoS One. 2010, 5: e14290-10.1371/journal.pone.0014290. Brugler MR, France SC: The complete mitochondrial genome of the black coral Chrysopathes formosa (Cnidaria: Anthozoa: Antipatharia) supports classification of antipatharians within the subclass Hexacorallia. Mol Phylogenet Evol. 2007, 42: 776-788. 10.1016/j.ympev.2006.08.016. Pick KS, Philippe H, Schreiber F, Erpenbeck D, Jackson DJ, Wrede P, Wiens M, Alié A, Morgenstern B, Manuel M, Wörheide G: Improved phylogenomic taxon sampling noticeably affects nonbilaterian relationships. Mol Biol Evol. 2010, 27: 1983-1987. 10.1093/molbev/msq089. Philippe H, Brinkmann H, Lavrov DV, Littlewood DTJ, Manuel M, Wörheide G, Baurain D: Resolving difficult phylogenetic questions: why more sequences are not enough. PLoS Biol. 2011, 9: e1000602-10.1371/journal.pbio.1000602. Philippe H, Zhou Y, Brinkmann H, Rodrigue N, Delsuc F: Heterotachy and long-branch attraction in phylogenetics. BMC Evol Biol. 2005, 5: 50-10.1186/1471-2148-5-50. Roure BB, Philippe HH: Site-specific time heterogeneity of the substitution process and its impact on phylogenetic inference. BMC Evol Biol. 2011, 11: 17-10.1186/1471-2148-11-17. Stabelli OR, Lartillot N, Philippe H, Pisani D: Serine codon usage bias in deep phylogenomics: pancrustacean relationships as a case study. Syst Biol. 2012, 10.1093/sysbio/sys077. Zrzavy J, Mihulka S, Kepka P, Bezdek A, Tietz D: Phylogeny of the Metazoa Based on Morphological and 18S Ribosomal DNA Evidence. Cladistics. 1998, 14: 249-285. Siddall ME, Martin DS, Bridge D, Desser SS, David K, Martint DS, Bridget D, Conell DK: The demise of a phylum of protists: phylogeny of myxozoa and other parasitic cnidaria. J Parasitol. 1995, 81: 961-967. 10.2307/3284049. Schuchert P: Phylogenetic analysis of the Cnidaria. J. Zoolog. Syst. Evol. Res. 1993, 31: 161-173. Evans NM, Holder MT, Barbeitos MS, Okamura B, Cartwright P: The phylogenetic position of myxozoa: exploring conflicting signals in phylogenomic and ribosomal datasets. Mol Biol. 2010, 8: 139- Evans NM, Lindner A, Raikova EV, Collins AG, Cartwright P: Phylogenetic placement of the enigmatic parasite, Polypodium hydriforme, within the Phylum Cnidaria. BMC Evol Biol. 2008, 8: 139-10.1186/1471-2148-8-139. Lartillot N, Brinkmann H, Philippe H: Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model. BMC Evol Biol. 2007, 7 (Suppl 1): S4-10.1186/1471-2148-7-S1-S4. Collins AG, Winkelmann S, Hadrys H, Schierwater B: Phylogeny of Capitata and Corynidae (Cnidaria, Hydrozoa) in light of mitochondrial 16S rDNA data. Zoologica Scripta. 2005, 34: 91-99. 10.1111/j.1463-6409.2005.00172.x. Budd AF, Romano SL, Smith ND, Barbeitos MS: Rethinking the phylogeny of scleractinian corals: a review of morphological and molecular data. Integr Comp Biol. 2010, 50: 411-427. 10.1093/icb/icq062. McFadden CS, Benayahu Y, Pante E, Thoma JN, Nevarez AP, France SC: Limitations of mitochondrial gene barcoding in Octocorallia. Mol Ecol Res. 2011, 11: 19-31. 10.1111/j.1755-0998.2010.02875.x. Bilewitch JP, Degnan SM: A unique horizontal gene transfer event has provided the octocoral mitochondrial genome with an active mismatch repair gene that has potential for an unusual self-contained function. BMC Evol Biol. 2011, 11: 228-10.1186/1471-2148-11-228. McFadden CS, France SC, Sánchez JA, Alderslade P: A molecular phylogenetic analysis of the Octocorallia (Cnidaria: Anthozoa) based on mitochondrial protein-coding sequences. Mol Phylogenet Evol. 2006, 41: 513-27. 10.1016/j.ympev.2006.06.010. Finnerty JR, Pang K, Burton P, Paulson D, Martindale MQ: Origins of bilateral symmetry: Hox and dpp expression in a sea anemone. Science. 2004, 304: 1335-1337. 10.1126/science.1091946. Matus DQ, Pang K, Marlow H, Dunn CW, Thomsen GH, Martindale MQ: Molecular evidence for deep evolutionary roots of bilaterality in animal development. Proc Nat Acad Sci USA. 2006, 103: 11195-11200. 10.1073/pnas.0601257103. Van Iten H, De Moraes LJ, Simões MG, Marques AC, Collins AG: Reassessment of the phylogenetic position of conulariids (?Ediacaran‐Triassic) within the subphylum medusozoa (phylum cnidaria). J Syst Palaeontol. 2006, 4: 109-118. 10.1017/S1477201905001793. Dunn CW: Complex colony-level organization of the deep-sea siphonophore Bargmannia elongata (Cnidaria, Hydrozoa) is directionally asymmetric and arises by the subdivision of pro-buds. Dev. Dyn: an official publication of the American Association of Anatomists. 2005, 234: 835-845. 10.1002/dvdy.20483. Jiménez-Guri E, Philippe H, Okamura B, Holland PWH: Buddenbrockia is a cnidarian worm. Science (New York, N.Y.). 2007, 317: 116-118. 10.1126/science.1142024. Palmer RA: Symmetry breaking and the evolution of development. Science. 2004, 306: 828-833. 10.1126/science.1103707. Levin M: Left-right asymmetry in embryonic development: a comprehensive review. Mech Develop. 2005, 122: 3-25. 10.1016/j.mod.2004.08.006. Nielsen C: Six major steps in animal evolution: are we derived sponge larvae?. Evol Develop. 2008, 10: 241-257. 10.1111/j.1525-142X.2008.00231.x. Uchida T: The systematic position of the Stauromedusae. Publ Seto Mar Biol Lab. 1972, 20: 133-139. Werner B: New investigations on systematics and evolution of the class Scyphozoa and the phylum Cnidaria. Publ Seto Mar Biol Lab. 1973, 20: 35-61. Gibbons MJ, Janson LA, Ismail A, Samaai T: Life cycle strategy, species richness and distribution in marine Hydrozoa (Cnidaria: Medusozoa). J Biogeogr. 2010, 37: 441-448. 10.1111/j.1365-2699.2009.02226.x. Boero F, Schierwater B, Piraino S: Cnidarian milestones in metazoan evolution. Integr Comp Biol. 2007, 47: 693-700. 10.1093/icb/icm041. Beagley CT, Okimoto R, Wolstenholme DR: The mitochondrial genome of the sea anemone Metridium senile (Cnidaria): introns, a paucity of tRNA genes, and a near-standard genetic code. Genetics. 1998, 148: 1091-1108. Sinniger F, Pawlowski J: The partial mitochondrial genome of Leiopathes glaberrima (Hexacorallia: Antipatharia) and the first report of the presence of an intron in COI in black corals. Galaxea, J Coral Reef Studies. 2009, 11 (1): 21-26. 10.3755/galaxea.11.21. Van Oppen MJH, Catmull J, McDonald BJ, Hislop NR, Hagerman PJ, Miller DJ: The mitochondrial genome of Acropora tenuis (Cnidaria; Scleractinia) contains a large group I intron and a candidate control region. J Mol Evol. 2002, 55: 1-13. 10.1007/s00239-001-0075-0. Emblem Å, Karlsen BO, Evertsen J, Johansen SD: Mitogenome rearrangement in the cold-water scleractinian coral Lophelia pertusa (Cnidaria, Anthozoa) involves a long-term evolving group I intron. Mol Phylogenet Evol. 2011, 61: 495-503. 10.1016/j.ympev.2011.07.012. Chen C, Chiou C-Y, Dai C-F, Chen CA: Unique mitogenomic features in the scleractinian family pocilloporidae (scleractinia: astrocoeniina). Marine Biotechnology. 2008, 10: 538-553. 10.1007/s10126-008-9093-x. Fukami H, Knowlton N: Analysis of complete mitochondrial DNA sequences of three members of the Montastraea annularis coral species complex (Cnidaria, Anthozoa, Scleractinia). Coral Reefs. 2005, 24: 410-417. 10.1007/s00338-005-0023-3. Flot J-F, Tillier S: The mitochondrial genome of Pocillopora (Cnidaria: Scleractinia) contains two variable regions: the putative D-loop and a novel ORF of unknown function. Gene. 2007, 401 (1–2): 80-87. Sinniger F, Chevaldonné P, Pawlowski J: Mitochondrial genome of Savalia savaglia (Cnidaria, Hexacorallia) and early metazoan phylogeny. J. Mol. Evol. 2007, 64: 196-203. 10.1007/s00239-006-0015-0. Van der Ham JL, Brugler MR, France SC: Exploring the utility of an indel-rich, mitochondrial intergenic region as a molecular barcode for bamboo corals (Octocorallia: Isididae). Marine Genomics. 2009, 2 (3-4): 183-192. 10.1016/j.margen.2009.10.002. Uda K, Komeda Y, Koyama H, Koga K, Fujita T, Iwasaki N, Suzuki T: Complete mitochondrial genomes of two Japanese precious corals, Paracorallium japonicum and Corallium konojoi (Cnidaria, Octocorallia, Coralliidae): Notable differences in gene arrangement. Gene. 2011, 476: 27-37. 10.1016/j.gene.2011.01.019. Brugler MR, France SC: The mitochondrial genome of a deep-sea bamboo coral (Cnidaria, Anthozoa, Octocorallia, Isididae): genome structure and putative origins of replication are not conserved among octocorals. J Mol Evol. 2008, 67: 125-136. 10.1007/s00239-008-9116-2. Beaton MJ, Roger a J, Cavalier-Smith T: Sequence analysis of the mitochondrial genome of Sarcophyton glaucum: conserved gene order among octocorals. J Mol Evol. 1998, 47: 697-708. 10.1007/PL00006429. Pont-Kingdon G, Okada NA, Macfarlane JL, Beagley CT, Watkins-Sims CD, Cavalier-Smith T, Clark-Walker GD, Wolstenholme DR: Mitochondrial DNA of the coral Sarcophyton glaucum contains a gene for a homologue of bacterial MutS: a possible case of gene transfer from the nucleus to the mitochondrion. J Mol Evol. 1998, 46: 419-431. 10.1007/PL00006321. Voigt O, Erpenbeck D, Wörheide G: A fragmented metazoan organellar genome: the two mitochondrial chromosomes of Hydra magnipapillata. BMC genomics. 2008, 9: 350-10.1186/1471-2164-9-350. Signorovitch AY, Buss LW, Dellaporta SL: Comparative genomics of large mitochondria in placozoans. PLoS Genetics. 2007, 3 (1): e13-10.1371/journal.pgen.0030013. Dellaporta SL, Xu A, Sagasser S, Jakob W, Moreno MA, Buss LW, Schierwater B: Mitochondrial genome of Trichoplax adhaerens supports Placozoa as the basal lower metazoan phylum. Proc Natl Acad Sci. 2006, 103: 8751-8756. 10.1073/pnas.0602076103. Wang X, Lavrov DV: Seventeen new complete mtDNA sequences reveal extensive mitochondrial genome evolution within the demospongiae. PLoS ONE. 2008, 3: e2723-10.1371/journal.pone.0002723. Erpenbeck D, Voigt O, Wörheide G, Lavrov DV: The mitochondrial genomes of sponges provide evidence for multiple invasions by Repetitive Hairpin-forming Elements (RHE). BMC genomics. 2009, 10: 591-10.1186/1471-2164-10-591. Lavrov DV: Rapid proliferation of repetitive palindromic elements in mtDNA of the endemic Baikalian sponge Lubomirskia baicalensis. Mol Biol Evol. 2010, 27: 757-760. 10.1093/molbev/msp317. Lukić-Bilela L, Brandt D, Pojskić N, Wiens M, Gamulin V, Müller WEG: Mitochondrial genome of Suberites domuncula: palindromes and inverted repeats are abundant in non-coding regions. Gene. 2008, 412: 1-11. 10.1016/j.gene.2008.01.001. Drummond A, Ashton B, Buxton S, Cheung M, Cooper A, Duran C, Field M, Heled J, Kearse M, Markowitz S, Moir R, Stones-Havas S, Sturrock S, Thierer T, Wilson A: Geneious Pro v5.5.6. 2011 Suyama M, Torrents D, Bork P: PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments. Nucleic Acids Res. 2006, 34: W609-W612. 10.1093/nar/gkl315. Philippe H: MUST, a computer package of Management Utilities for Sequences and Trees. Nucleic Acids Res. 1993, 21: 5264-5272. 10.1093/nar/21.22.5264. Lartillot N, Philippe H: Computing Bayes factors using thermodynamic integration. Syst Bio. 2006, 55: 195-207. 10.1080/10635150500433722. Lartillot N, Philippe H: A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process. Mol Biol Evol. 2004, 21: 1095-1109. 10.1093/molbev/msh112. Ott M, Zola J, Stamatakis A: Large-scale maximum likelihood-based phylogenetic analysis on the IBM BlueGene/L. Proceedings of ACM/IEEE Supercomputing Conference. 2007, 2007 Stamatakis A: RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics (Oxford, England). 2006, 22: 2688-2690. 10.1093/bioinformatics/btl446. Stamatakis A: Phylogenetic models of rate heterogeneity: a high performance computing perspective. Proceedings 20th IEEE International Parallel & Distributed Processing Symposium. 2006, 8- Stamatakis A, Hoover P, Rougemont J: A rapid bootstrap algorithm for the RAxML Web servers. Syst Biol. 2008, 57: 758-771. 10.1080/10635150802429642. Posada D: jModelTest: phylogenetic model averaging. Mol Biol Evol. 2008, 25: 1253-1256. 10.1093/molbev/msn083. Ronquist F, Teslenko M, Van der Mark P, Ayres DL, Darling A, Höhna S, Larget B, Liu L, Suchard MA, Huelsenbeck JP: MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol. 2012, 61: 539-542. 10.1093/sysbio/sys029. Shimodaira H, Hasegawa M: CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics (Oxford, England). 2001, 17: 1246-1247. 10.1093/bioinformatics/17.12.1246. Won J, Rho B, Song J: A phylogenetic study of the Anthozoa (phylum Cnidaria) based on morphological and molecular characters. Coral Reefs. 2001, 20: 39-50. 10.1007/s003380000132. Swofford DL: PAUP* 4.0. 2002, 42: 1-144.