Systematics, biogeography, and character evolution of the legume tribe Fabeae with special focus on the middle-Atlantic island lineages
详细信息 查看全文
- 作者：Hanno Schaefer (1)
Paulina Hechenleitner (2)
Arnoldo Santos-Guerra (3)
Miguel Menezes de Sequeira (4)
R Toby Pennington (2)
Gregory Kenicer (2)
Mark A Carine (5) - 关键词：Lathyrus ; Legumes ; Lentil ; Long ; distance dispersal ; Macaronesia ; Pea ; Pisum ; Vicia
- 刊名：BMC Evolutionary Biology
- 出版年：2012
- 出版时间：December 2012
- 年：2012
- 卷：12
- 期：1
- 全文大小：5695KB
- 参考文献：1. Graham PH, Vance CP: Legumes: importance and constraints to greater use. / Plant Physiol 2003, 131:872-77. CrossRef
2. Lock JM, Maxted N: Tribe Fabeae. In / Legumes of the world: 505-10. Edited by: Lewis G, Schrire B, Mackinder B, Lock M. Kew, The Royal Botanic Gardens.; 2005.
3. ILDIS: / International Legume Database and information Service. 2010. Available at http://www.ildis.org/
4. Zohary D: / The mode of domestication of the founder crops of southwest Asian agriculture. UCL Press, London; 1996. [ / Harris DR (ed) The origins and spread of agriculture and pastoralism in Eurasia]
5. Zohary D, Hopf M: Domestication of Pulses in the Old World - Legumes were companions of wheat and barley when agriculture began in the Near East. / Science 1973, 182:887-94. CrossRef
6. Zohary D, Hopf M: / Domestication of plants in the Old world. 3rd edition. Oxford University Press, New York; 2002.
7. Kupicha FC: The infrageneric structure of Vicia. / Notes Roy Bot Gard Edinburgh 1976, 34:287-26.
8. Kupicha FC: The infrageneric structure of Lathyrus. / Notes Roy Bot Gard Edinburgh 1983, 41:209-44.
9. Lassetter JS, Gunn CR: Vicia menziesii Sprengel (Fabaceae) rediscovered: its taxonomic relationships. / Pac Sci 1979, 33:85-01.
10. Oskoueiyan R, Kazempour Osaloo S, Maassoumi AA, Nejadsattari T, Mozaffarian V: Phylogenetic status of Vavilovia formosa (Fabaceae-Fabeae) based on nrDNA ITS and cpDNA sequences. / Biochem Syst Ecol 2010, 38:313-19. CrossRef
11. Alefeld F: über Vicieen. / Bonplandia 1861, 9:66-2. 99-05, 116-31, 139-53
12. Asmussen CB, Liston A: Chloroplast DNA characters, phylogeny, and classification of Lathyrus (Fabaceae). / Amer J Bot 1998, 85:387-01. CrossRef
13. Kenicer GJ, Kajita T, Pennington RT, Murata J: Systematics and biogeography of Lathyrus (Leguminosae) based on internal transcribed spacer and cpDNA sequence data. / Amer J Bot 2005, 92:1199-209. CrossRef
14. Maxted N: / An Ecogeographical Study of Vicia subgenus Vicia. International Plant Genetic Resources Institute, Rome; 1995. [ / Systematic and Ecogeographic Studies on Crop Genepools8]
15. Kupicha FC: Studies in the Vicieae I: the new genus Anatropostylia. / Notes Roy Bot Gard Edinburgh 1973, 32:247-50.
16. Gunn CR, Kluve J: Androecium and pistil characters for tribe Vicieae (Fabaceae). / Taxon 1976, 25:563-75. CrossRef
17. van de WTG V, Duncan N, Ramsay G, Phillips M, Powell W, Waugh R: Taxonomic relationships between V. faba and its relations based on nuclear and mitochondrial RFLPs and PCR analysis. / Theor Appl Genet 1993, 86:71-0.
18. Fennell SR, Powell W, Wright F, Ramsay G, Wangh R: Phylogenetic relationships between Vicia faba (Fabaceae) and related species inferred from chloroplast trnL sequences. / Plant Syst Evol 1998, 212:247-59. CrossRef
19. Potokina E, Tomooka N, Vaughan DA, Alexandrova T, Xu R: Phylogeny of Vicia subgenus Vicia (Fabaceae) based on analyis of RAPDs and RFLP of PCR-amplified chloroplast genes. / Genet Res Crop Evol 1999, 46:149-61. CrossRef
20. Jaaska V: Isozyme variation and phylogenetic relationships in Vicia subgenus Cracca (Fabaceae). / Ann Bot 2005, 96:1085-096. CrossRef
21. Choi B, Seok D, Endo Y, Ohashi H: Phylogenetic significance of stylar features in genusVicia(Leguminosae): an analysis with molecular phylogeny. / J Plant Res 2006, 119:513-23. CrossRef
22. Endo Y, Choi BH, Ohashi H, Delgado-Salinas A: Phylogenetic relationships of New World Vicia (Leguminosae) inferred from nrDNA Internal Transcribed Spacer sequences and floral characters. / Syst Bot 2008, 33:356-63. CrossRef
23. Endo Y, Choi B, Kakinuma D, Kenicer G, Zhu X-Y, Ohashi H: Molecular phylogeny of Vicia sect. Amurense (Leguminosae). / J Jpn Bot 2010, 85:337-49.
24. Croft AM, Pang PCK, Taylor PWJ: Molecular analysis of Lathyrus sativus L. (grasspea) and related Lathyrus species. / Euphytica 1999, 107:167-76. CrossRef
25. Badr A, El Shazly H, El Rabey H, Watson LE: Systematic relationships in Lathyrus sect. Lathyrus (Fabaceae) based on amplified fragment length polymorphism (AFLP) data. / Canad J Bot 2002, 80:962-69. CrossRef
26. Ben Brahim N, Salhi A, Chtourou N, Combes D, Marrakchi M: Isozymic polymporphism and phylogeny of 10 Lathyrus species. / Gen Res Crop Evol 2002, 49:427-36. CrossRef
27. Mayer MS, Soltis PS: Chloroplast DNA phylogeny of Lens (Leguminosae): origin and diversity of the cultivated lentil. / Theor Appl Genet 1994, 87:773-81. CrossRef
28. Mayer MS, Bagga SK: The phylogeny of Lens (Leguminosae): new insight from ITS sequence analysis. / Plant Syst Evol 2002, 232:145-54. CrossRef
29. Sonnante GI, Galasso I, Pignone D: ITS sequence analysis and phylogenetic inference in the genus Lens Mill. / Ann Bot 2003, 91:49-4. CrossRef
30. Polans NO, Saar DE: ITS sequence variation in wild species and cultivars of pea. / Pisum Genetics 2002, 34:9-3.
31. Kosterin OE, Bogdanova VS: Relationship of wild and cultivated forms of Pisum L. as inferred from an analysis of three markers, of the plastid, mitochondrial and nuclear genomes. / Genet Res Crop Evol 2008, 55:735-55. CrossRef
32. Kosterin OE, Zaytseva OO, Bogdanova VS, Ambrose M: New data on three molecular markers from different cellular genomes in Mediterranean accessions reveal new insights into phylogeography of Pisum sativum L. subsp. elatius (Bieb.) Schmalh. / Genet Res Crop Evol 2010, 57:733-39. CrossRef
33. Smykal P, Kenicer G, Flavell AJ, Corander J, Kosterin O, Redden RJ, Ford R, Coyne CJ, Maxted N, Ambrose MJ, Ellis NTH: Phylogeny, phylogeography and genetic diversity of the Pisum genus. / Plant Genetic Resources: Characterization and Utilization 2011, 9:4-8. CrossRef
34. Magee AM, Aspinall S, Rice DW, Cusack BP, Semon M, Perry AS, Stefanovic S, Milbourne D, Barth S, Palmer JD, Gray JC, Kavanagh TA, Wolfe KH: Localized hypermutation and associated gene losses in legume chloroplast genomes. / Genome Res 2010, 20:1700-710. CrossRef
35. Wojciechowski MF, Sanderson MJ, Steele KP, Liston A: Molecular phylogeny of the “Temperate Herbaceous Tribes-of papilionoid legumes: a supertree approach. In / Advances in Legume Systematics 9: 277-98. Edited by: Herendeen PS, Bruneau A. Kew, Royal Botanic Gardens; 2000.
36. Steele KP, Wojciechowski MF: Phylogenetic analyses of tribes Trifolieae and Vicieae, based on sequences of the plastid gene matK (Papilionoideae: Leguminosae). In / Advances in Legume Systematics 10. Edited by: Klitgaard BB, Bruneau A. The Royal Botanic Gardens, Kew; 2003:355-70.
37. Wojciechowski MF, Lavin M, Sanderson MJ: A phylogeny of legumes (Leguminosae) based on analysis of the plastid matK gene resolves many well-supported subclades within the family. / Amer J Bot 2004, 91:1845-861. CrossRef
38. Lavin M, Herendeen PS, Wojciechowski MF: Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the Tertiary. / Syst Biol 2005, 54:575-94. CrossRef
39. Simon MF, Grether R, de Queiroz LP, Skema C, Pennington RT, Hughes CE: Recent assembly of the Cerrado, a neotropical plant diversity hotspot, by in situ evolution of adaptations to fire. / PNAS 2009, 106:20359-0364. CrossRef
40. Simola LK: Comparative studies on number of leaflets, venation and epidermal structure in the genus Lathyrus. / Canad J Bot 1968, 46:71-4. CrossRef
41. Burkart A: Revision de las especias de Lathyrus de la Republica Argentina. / Revista de la Faculdad de Agronomia y Veterinaria 1935, 8:1-49.
42. Axelrod DI: Evolution and biogeography of Madrean-Tethyan sclerophyll vegetation. / Ann Mo Bot Gard 1975, 62:280-34. CrossRef
43. Fernández-Palacios JM, de Nascimento L, Otto R, Delgado JD, García-del-Rey E, Arévalo JR, Whittaker RJ: A reconstruction of Palaeo-Macaronesia, with particular reference to the long-term biogeography of the Atlantic island laurel forests. / J Biogeo 2011, 38:226-46. CrossRef
44. Stefánsson S: / Flóra íslands. 3 ed edition. Prentverk Odds Bj?rnssonar, Akureyri; 1948.
45. Schaefer H: / Chorology and diversity of the Azorean flora. J. Cramer, Stuttgart (Germany); 2003. [ / Dissertationes Botanicae 374]
46. Silva L, Moura M, Schaefer H, Rumsey F, Dias EF: Vascular plants (Tracheobionta). In / A list of the terrestrial and marine biota from the Azores. Edited by: Borges PAV, Costa A, Cunha R, Gabriel R, Gon?alves V, Martins AF, Melo I, Parente M, Raposeiro P, Rodrigues P, Santos RS, Silva L, Vieira P, Vieira V. Princípia, Cascais (Portugal); 2010:117-46.
47. Watson HC: Botany of the Azores. In / Natural history of the Azores or Western Islands. Edited by: Cane Godman F. J. Van Voorst, London; 1870:113-88.
48. Hooker JD: Vicia dennesiana. / Curtis’s Bot Mag 1887, 43:6967.
49. Jardim R, Menezes De Sequeira M: Lista das plantas vasculares (Pteridophyta and Spermatophyta). In / A list of the terrestrial fungi, flora and fauna of Madeira and Selvagens archipelagos. Edited by: Borges PAV, Abreu C, Aguiar AMF, Carvalho P, Jardim R, Melo I, Oliveira P, Sérgio C, Serrano ARM, Vieira P. Direc??o Regional do Ambiente da Madeira and Universidade dos A?ores, Funchal and Angra do Heroísmo, Portugal; 2008:440. Pp. 179-08
50. Izquierdo I, Martín JL, Zurita N, Arechavaleta M: / Lista de especies silvestres de Canarias (hongos, plantas, y animales terrestres). Gobierno de Canarias, La Laguna (Spain); 2004.
51. Robeson DJ, Harborne JB: A chemical dichotomy in Phytoalexin induction within the tribe Vicieae of the Leguminosae. / Phytochemistry 1980, 19:2359-365. CrossRef
52. Dunkel F-G: Vicia chaetocalyx Webb & Berthel. on Gran Canaria - A Canarian endemic plant rediscovered. / Bot Macaronesica 2008, 27:107-13.
53. Johnson JA, Watson RT, Mindell DP: Prioritizing species conservation: does the Cape Verde kite exist? / Proc Roy Soc B 2005, 272:1365-371. CrossRef
54. Schaefer H, Heibl C, Renner SS: Gourds afloat: a dated phylogeny reveals an Asian origin of the gourd family (Cucurbitaceae) and numerous oversea dispersal events. / Proc Roy Soc B 2009, 276:843-51. CrossRef
55. Tiffney BH: The Eocene North Atlantic land bridge: its importance in Tertiary and modern phylogeography of the Northern Hemisphere. / J Arnold Arb 1985, 66:243-73.
56. Carine MA: Spatio-temporal relationships of the Macaronesian endemic flora: a relictual series or window of opportunity? / Taxon 2005, 54:895-03. CrossRef
57. Gladenkov AY, Oleinik AE, Marincovich L, Barinov KB: A refined age for the earliest opening of Bering Strait. / Palaeogeography Palaeoclimatology Palaeoecology 2002, 183:321-28. CrossRef
58. Anderson JP: Plants used by the Eskimo of the northern Bering Sea and arctic regions of Alaska. / Amer J Bot 1939, 26:714-16. CrossRef
59. Hanelt P, Mettin D: Biosystematics of the genus Vicia L. / Annu Rev Ecol Syst 1989, 20:199-23.
60. Cubero JI: Taxonomy, distribution and evolution of the faba bean and its wild relatives. In / Genetic resources and their exploitation - chickpeas, faba beans and lentils. Edited by: Witcombe JR, Erskine W. Junk Publishers, Hague, Martinus Nijhoff/Dr W; 1984:131-44. CrossRef
61. Jaaska V: Isoenzyme diversity and phylogenetic affinities in Vicia subgenus Vicia (Fabaceae). / Gen Res Crop Evol 1997, 44:557-74. CrossRef
62. Zohary D, Plitmann U: Chromosome polymorphism, hybridization and colonization in the Vicia sativa group (Fabaceae). / Plant Syst Evol 1979, 131:143-56. CrossRef
63. Potokina E, Blattner FR, Alexandrova T, Bachmann K: AFLP diversity in the common vetch (Vicia sativa L.) on the world scale. / Theor Appl Genet 2002, 105:58-7. doi:10.1007/s00122-002-0866-8. CrossRef
64. Olmstead RG, Michaels HJ, Scott KM, Palmer JD: Monophyly of the Asteridae and identification of their major lineages inferred from DNA sequences of rbcL. / Ann Mo Bot Gard 1992, 79:249-65. CrossRef
65. Sang T, Crawford DJ, Stuessy TF: Chloroplast DNA phylogeny, reticulate evolution and biogeography of Paeonia (Paeoniaceae). / Am J Bot 1997, 84:1120-136. CrossRef
66. Drummond AJ, Ashton B, Buxton S, Cheung M, Cooper A, Heled J, Kearse M, Moir R, Stones-Havas S, Sturrock S, Thierer T, Wilson A: / Geneious, version 5.0.4. 2010. http://www.geneious.com
67. Katoh K, Kuma K, Toh H, Miyata T: MAFFT vs. 5: Improvement in accuracy of multiple sequence alignment. / Nucleic Acids Res 2005, 33:511-18. CrossRef
68. Maddison DR, Maddison WP: / MacClade 4.08. Sinauer Associates, Sunderland, MA; 2005.
69. Simmons MP, Ochoterena H: Gaps as characters in sequence-based phylogenetic analyses. / Syst Biol 2000, 49:369-81. CrossRef
70. Felsenstein J: Maximum likelihood and minimum-steps methods for estimating evolutionary trees from data on discrete characters. / Syst Zool 1973, 22:240-49. CrossRef
71. Felsenstein J: Confidence limits on phylogenies: an approach using the bootstrap. / Evolution 1985, 39:783-91. CrossRef
72. Stamatakis A, Hoover P, Rougemont J: A rapid bootstrap algorithm for the RAxML web-servers. / Syst Biol 2008, 75:758-71. CrossRef
73. Akaike H: A new look at the statistical model identification. / IEEE Trans. Automat Control 1974, 19:716-23. CrossRef
74. Posada D: jModelTest: Phylogenetic model averaging. / Molec Biol Evol 2008, 25:1253-256. CrossRef
75. Yang Z, Rannala B: Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo method. / Molec Biol Evol 1997, 14:717-24. CrossRef
76. Huelsenbeck JP, Ronquist F: MRBAYES: Bayesian inference of phylogeny. / Bioinformatics 2001, 17:754-55. CrossRef
77. Rambaut A, Drummond AJ: / Tracer 1.5.0. MCMC Trace Analysis Tool. 2009. Available at: http://beast.bio.ed.ac.uk/Tracer
78. Drummond AJ, Rambaut A: BEAST: Bayesian evolutionary analysis by sampling trees. / BMC Evol Biol 2007, 7:214. CrossRef
79. Lemey P, Rambaut A, Drummond AJ, Suchard MA: Bayesian phylogeography finds its roots. / PLoS Comput Biol 2009, 5:e1000520. CrossRef
80. Endo Y, Ohashi H: The morphology of styles and stigmas in Vicia (Leguminosae), and its systematic implications. / J Plant Res 1995, 108:17-4. CrossRef
81. Endo Y, Ohashi H: The morphology and anatomy of styles in Vicieae (Leguminosae). / J Jpn Bot 1997, 72:9-8.
82. Maddison WP, Maddison DR: / Mesquite: a modular system for evolutionary analysis. Version 2.75. 2011. Available from: http://mesquiteproject.org
83. Lewis PO: A likelihood approach to estimating phylogeny from discrete morphological character data. / Syst Biol 2001, 50:913-25. CrossRef - 作者单位：Hanno Schaefer (1)
Paulina Hechenleitner (2)
Arnoldo Santos-Guerra (3)
Miguel Menezes de Sequeira (4)
R Toby Pennington (2)
Gregory Kenicer (2)
Mark A Carine (5)
1. Plant Biodiversity Research, Technische Universit?t München, Maximus-von-Imhof Forum 2, Freising, D-85354, Germany
2. Royal Botanic Garden Edinburgh, 20A Inverleith Row, Edinburgh, EH3 5LR, United Kingdom
3. Unidad de Botánica (ICIA), C/Retama, 2, Puerto de La Cruz, 38400, Tenerife, Islas, Canarias, Spain
4. Universidade da Madeira, Centro de Ciências da Vida, Funchal, Madeira, Portugal
5. Plants Division, Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, United Kingdom
文摘
Background Tribe Fabeae comprises about 380 legume species, including some of the most ancient and important crops like lentil, pea, and broad bean. Breeding efforts in legume crops rely on a detailed knowledge of closest wild relatives and geographic origin. Relationships within the tribe, however, are incompletely known and previous molecular results conflicted with the traditional morphology-based classification. Here we analyse the systematics, biogeography, and character evolution in the tribe based on plastid and nuclear DNA sequences. Results Phylogenetic analyses including c. 70% of the species in the tribe show that the genera Vicia and Lathyrus in their current circumscription are not monophyletic: Pisum and Vavilovia are nested in Lathyrus, the genus Lens is nested in Vicia. A small, well-supported clade including Vicia hirsuta, V. sylvatica, and some Mediterranean endemics, is the sister group to all remaining species in the tribe. Fabeae originated in the East Mediterranean region in the Miocene (23-6 million years ago (Ma)) and spread at least 39 times into Eurasia, seven times to the Americas, twice to tropical Africa and four times to Macaronesia. Broad bean (V. faba) and its sister V. paucijuga originated in Asia and might be sister to V. oroboides. Lentil (Lens culinaris ssp. culinaris) is of Mediterranean origin and together with eight very close relatives forms a clade that is nested in the core Vicia, where it evolved c. 14 Ma. The Pisum clade is nested in Lathyrus in a grade with the Mediterranean L. gloeosperma, L. neurolobus, and L. nissolia. The extinct Azorean endemic V. dennesiana belongs in section Cracca and is nested among Mediterranean species. According to our ancestral character state reconstruction results, ancestors of Fabeae had a basic chromosome number of 2n=14, an annual life form, and evenly hairy, dorsiventrally compressed styles. Conclusions Fabeae evolved in the Eastern Mediterranean in the middle Miocene and spread from there across Eurasia, into Tropical Africa, and at least seven times to the Americas. The middle-Atlantic islands were colonized four times but apparently did not serve as stepping-stones for Atlantic crossings. Long-distance dispersal events are relatively common in Fabeae (seven per ten million years). Current generic and infrageneric circumscriptions in Fabeae do not reflect monophyletic groups and should be revised. Suggestions for generic level delimitation are offered.