A molecular phylogeny of the fern family Pteridaceae: Assessing overall relationships and the affinities of previously unsampled genera

Molecular Phylogenetics and Evolution

Volumn 44, Issue 3, 2007, Pages 1172-1185

  Schuettpelz, Eric ^a   Schneider, Harald ^b   Huiet, Layne ^c   Windham, Michael D ^a,d   Pryer, Kathleen M ^a  

^a DUKE UNIVERSITY   (United States)

^b UNIVERSITY OF GÖTTINGEN   (Germany)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d UNIVERSITY OF UTAH   (United States)

Author keywords

atpA; atpB; Ceratopteris; Fern systematics; Molecular phylogenetics; Pteridaceae; rbcL

Indexed keywords

ARTICLE; CLASSIFICATION; ECOSYSTEM; GENETIC VARIABILITY; GENETICS; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PTERIDACEAE;

ECOSYSTEM; EVOLUTION, MOLECULAR; MOLECULAR SEQUENCE DATA; PHYLOGENY; PTERIDACEAE; VARIATION (GENETICS);

ADIANTOPSIS; CERATOPTERIS; FILICOPHYTA; PTERIDACEAE; PTERIDIUM; PTERIS;

EID: 34547901729     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2007.04.011     Document Type: Article

References (56)

1. Banks J.A., Hickok L., and Webb M.A. The programming of sexual phenotype in the homosporous fern Ceratopteris richardii. Int. J. Plant Sci. 154 (1993) 522-534
2. Benham D.M., and Windham M.D. Generic affinities of the star-scaled cloak ferns. Am. Fern J. 82 (1992) 47-58
3. Chatterjee A., and Roux S.J. Ceratopteris richardii: a productive model for revealing secrets of signaling and development. J. Plant Growth Regul. 19 (2000) 284-289
4. Ching R.C. On natural classification of the family "Polypodiaceae". Sunyatsenia 5 (1940) 201-268
5. Copeland E.B. Genera Filicum. Chronica Botanica (1947), Waltham, Mass
6. Crane E.H. A revised circumscription of the genera of the fern family Vittariaceae. Syst. Bot. 22 (1997) 509-517
7. Crane E.H., Farrar D.R., and Wendel J.F. Phylogeny of the Vittariaceae: convergent simplification leads to a polyphyletic Vittaria. Am. Fern J. 85 (1995) 283-305
8. Gastony G.J., and Johnson W.P. Phylogenetic placements of Loxoscaphe thecifera (Aspleniaceae) and Actiniopteris radiata (Pteridaceae) based on analysis of rbcL nucleotide sequences. Am. Fern J. 91 (2001) 197-213
9. Gastony G.J., and Rollo D.R. Phylogeny and generic circumscriptions of cheilanthoid ferns (Pteridaceae: Cheilanthoideae) inferred from rbcL nucleotide sequences. Am. Fern J. 85 (1995) 341-360
10. Gastony G.J., and Rollo D.R. Cheilanthoid ferns (Pteridaceae: Cheilanthoideae) in the southwestern United States and adjacent Mexico-a molecular phylogenetic reassessment of generic lines. Aliso 17 (1998) 131-144
11. Geiger J.M., and Ranker T.A. Molecular phylogenetics and historical biogeography of Hawaiian Dryopteris (Dryopteridaceae). Mol. Phylogenet. Evol. 34 (2005) 392-407
12. Guindon S., and Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 52 (2003) 696-704
13. Hasebe M., Omori T., Nakazawa M., Sano T., Kato M., and Iwatsuki K. rbcL gene sequences provide evidence for the evolutionary lineages of leptosporangiate ferns. Proc. Natl. Acad. Sci. USA 91 (1994) 5730-5734
14. Hasebe M., Wolf P.G., Pryer K.M., Ueda K., Ito M., Sano R., Gastony G.J., Yokoyama J., Manhart J.R., Murakami N., Crane E.H., Haufler C.H., and Hauk W.D. Fern phylogeny based on rbcL nucleotide sequences. Am. Fern J. 85 (1995) 134-181
15. Hickok L.G., Warne T.R., and Fribourg R.S. The biology of the fern Ceratopteris and its use as a model system. Int. J. Plant Sci. 156 (1995) 332-345
16. Hill J.P. Meristem development at the sporophyll pinna apex in Ceratopteris richardii. Int. J. Plant Sci. 162 (2001) 235-247
17. Holttum R.E. The classification of ferns. Biol. Rev. 24 (1949) 267-296
18. Hou G.-C., and Hill J.P. Developmental anatomy of the fifth shoot-borne root in young sporophytes of Ceratopteris richardii. Planta 219 (2004) 212-220
19. Huelsenbeck J.P., and Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2001) 754-755
20. Korall P., Pryer K.M., Metzgar J.S., Schneider H., and Conant D.S. Tree ferns: monophyletic groups and their relationships as revealed by four protein-coding plastid loci. Mol. Phylogenet. Evol. 39 (2006) 830-845
21. Kramer K.U. Vittariaceae. In: Kramer K.U., and Green P.S. (Eds). The Families and Genera of Vascular Plants. Vol. 1. Pteridophytes and Gymnosperms (1990), Springer-Verlag, Berlin 272-277
22. Kramer K.U. Notes on the higher level classification of the recent ferns. In: Kramer K.U., and Green P.S. (Eds). The Families and Genera of Vascular Plants. Vol. 1. Pteridophytes and Gymnosperms (1990), Springer-Verlag, Berlin 49-52
23. Lindsay S. Considerations for a revision of the fern family Vittariaceae for Flora Malesiana. Telopea 10 (2003) 99-112
24. Ma L.Q., Komar K.M., Tu C., Zhang W., Cai Y., and Kennelley E.D. A fern that hyperaccumulates arsenic-a hardy, versatile, fast-growing plant helps to remove arsenic from contaminated soils. Nature 409 (2001) 579
25. Maddison, D.R., Maddison, W.P., 2005. MacClade 4: Analysis of Phylogeny and Character Evolution. Version 4.08. Sinauer Associates, Sunderland, Massachusetts.
26. Masuyama S., Yatabe Y., Murakami N., and Watano Y. Cryptic species in the fern Ceratopteris thalictroides (L.) Brongn. (Parkeriaceae). I. Molecular analyses and crossing tests. J. Plant Res. 115 (2002) 87-97
27. Meharg A.A. Variation in arsenic accumulation-hyperaccumulation in ferns and their allies. New Phytol. 157 (2003) 25-31
28. Mickel J.T., and Smith A.R. The Pteridophytes of Mexico (2004), New York Botanical Garden Press, Bronx, NY
29. Nakazato T., and Gastony G.J. Molecular phylogenetics of Anogramma species and related genera (Pteridaceae: Taenitidoideae). Syst. Bot. 28 (2003) 490-502
30. Nayar B.K. A phylogenetic classification of homosporous ferns. Taxon 19 (1970) 229-236
31. Pichi Sermolli R.E.G. Adumbratio florae aethiopicae 9. Cryptogrammaceae. Webbia 17 (1963) 299-315
32. Pichi Sermolli R.E.G. Tentamen pteridophytorum genera in taxonomicum ordinem redigendi. Webbia 31 (1977) 313-512
33. Posada D., and Crandall K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
34. Pryer K.M., Schuettpelz E., Wolf P.G., Schneider H., Smith A.R., and Cranfill R. Phylogeny and evolution of ferns (monilophytes) with a focus on the early leptosporangiate divergences. Am. J. Bot. 91 (2004) 1582-1598
35. Pryer K.M., Smith A.R., and Skog J.E. Phylogenetic relationships of extant ferns based on evidence from morphology and rbcL sequences. Am. Fern J. 85 (1995) 205-282
36. Rambaut, A., Drummond, A., 2005. Tracer version 1.2.1. Computer Program distributed by the authors. Department of Zoology, University of Oxford. UK. http://evolve.zoo.ox.ac.uk/software.html?id=tracer.
37. Ronquist F., and Huelsenbeck J.P. MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19 (2003) 1572-1574
38. Sánchez-Baracaldo P. Phylogenetic relationships of the subfamily Taenitidoideae, Pteridaceae. Am. Fern J. 94 (2004) 126-142
39. Schneider H. Vergleichende Wurzelanatomie der Farne (1996), Shaker Press, Aachen
40. Schneider H. Biogeography, ecology, and phylogeny of Pteridaceae (Filicatae) in Malesia-Taenitidoideae and Cheilanthoideae. In: Saw L.G., Chua L.S.L., and Khoo K.C. (Eds). Taxonomy: the Cornerstone of Biodiversity. Proceedings of the Fourth International Flora Malesiana Symposium 1998 (2001), Forest Research Institute Malaysia, Kepong
41. Schneider H., Schuettpelz E., Pryer K.M., Cranfill R., Magallón S., and Lupia R. Ferns diversified in the shadow of angiosperms. Nature 428 (2004) 553-557
42. Schuettpelz E., Korall P., and Pryer K.M. Plastid atpA data provide improved support for deep relationships among ferns. Taxon 55 (2006) 897-906
43. Smith A.R., and Cranfill R.B. Intrafamilial relationships of the thelypteridoid ferns (Thelypteridaceae). Am. Fern J. 92 (2002) 131-149
44. Smith A.R., Pryer K.M., Schuettpelz E., Korall P., Schneider H., and Wolf P.G. A classification for extant ferns. Taxon 55 (2006) 705-731
45. Stevenson D.W., and Loconte H. Ordinal and familial relationships of pteridophyte genera. In: Camus J.M., Gibby M., and Johns R.J. (Eds). Pteridology in Perspective (1996), Royal Botanic Gardens, Kew, UK 435-467
46. Tryon A.F., and Lugardon B. Spores of the Pteridophyta: surface, wall structure, and diversity based on electron microscope studies (1991), Springer-Verlag, New York
47. Tryon R.M., Tryon A.F., and Kramer K.U. Pteridaceae. In: Kramer K.U., and Green P.S. (Eds). The Families and Genera of Vascular Plants. Vol. 1. Pteridophytes and Gymnosperms (1990), Springer-Verlag, Berlin 230-256
48. Tsutsumi C., and Kato M. Molecular phylogenetic study on Davalliaceae. Fern Gaz. 17 (2005) 147-162
49. Windham M.D. Argyrochosma, a new genus of cheilanthoid ferns. Am. Fern J. 77 (1987) 37-41
50. Wolf P.G. Phylogenetic analyses of rbcL and nuclear ribosomal RNA gene sequences in Dennstaedtiaceae. Am. Fern J. 85 (1995) 306-327
51. Wolf P.G. Evaluation of atpB nucleotide sequences for phylogenetic studies of ferns and other pteridophytes. Am. J. Bot. 84 (1997) 1429-1440
52. Wolf P.G., Rowe C.A., Sinclair R.B., and Hasebe M. Complete nucleotide sequence of the chloroplast genome from a leptosporangiate fern, Adiantum capillus-veneris L. DNA Res. 10 (2003) 59-65
53. Wolf P.G., Soltis P.S., and Soltis D.E. Phylogenetic relationships of dennstaedtioid ferns: evidence from rbcL sequences. Mol. Phylogenet. Evol. 3 (1994) 383-392
54. Yatskievych G., Windham M.D., and Wollenweber E. A reconsideration of the genus Pityrogramma (Adiantaceae) in western North America. Am. Fern J. 80 (1990) 9-17
55. Yesilyurt, J., 2004. A systematic revision of the genus Doryopteris J. Sm. (Pteridaceae: Cheilanthoideae). Ph.D. Thesis, University of Reading, UK.
56. Zhang G., Zhang X., and Chen Z. Phylogeny of cryptogrammoid ferns and related taxa based on rbcL sequences. Nord. J. Bot. 23 (2005) 485-493