Geographical diversification of the genus Cicer (Leguminosae: Papilionoideae) inferred from molecular phylogenetic analyses of chloroplast and nuclear DNA sequences

Botanical Journal of the Linnean Society

Volumn 154, Issue 2, 2007, Pages 175-186

  Javadi, Firouzeh ^a   Wojciechowski, Martin F ^b   Yamaguchi, Hirofumi ^a  

^a Osaka Prefecture University   (Japan)

^b ARIZONA STATE UNIVERSITY   (United States)

Author keywords

Chloroplast DNA; Distribution; External transcribed spacer; Fabaceae; Internal transcribed spacer

Indexed keywords

BIOGEOGRAPHY; CHLOROPLAST; DISPERSAL; DIVERGENCE; DNA; ENVIRONMENTAL CHANGE; GEOGRAPHICAL DISTRIBUTION; LEGUME; MIOCENE; MOLECULAR ANALYSIS; OROGENY; PHYLOGENETICS; PLASTID;

CICER; CICER ARIETINUM; FABACEAE; PAPILIONOIDEAE;

EID: 34250375175     PISSN: 00244074     EISSN: 10958339     Source Type: Journal    
DOI: 10.1111/j.1095-8339.2007.00649.x     Document Type: Article

References (47)

1. Ahmad F. 1999. Random amplified polymorphic DNA (RAPD) analysis reveals genetic relationships among the annual Cicer species. Theoretical and Applied Genetics 98 : 657 663.
2. Ahmad F, Gaur PM, Slinkard AE. 1992. Isozyme polymorphism and phylogenetic interpretations in the genus Cicer L. Theoretical and Applied Genetics 83 : 620 627.
3. Avise JC. 2000. Phylogeography: the history and formation of species. Cambridge, MA : Harvard University Press.
4. Baldwin BG, Markos S. 1998. Phylogenetic utility of external transcribed spacer (ETS) of 18S-26S rDNA: congruence of ETS and ITS trees of Calycadenia (Compositae). Molecular Phylogenetics and Evolution 10 : 449 463.
5. Bena G, Jubier MF, Olivieri I, Lejeune B. 1998. Ribosomal external and internal transcribed spacers: combined use in the phylogenetic analysis of Medicago (Leguminosae). Journal of Molecular Evolution 46 : 299 306.
6. Blondel J, Aronson J. 1999. Biology and wildlife of the Mediterranean region. Oxford : Oxford University Press.
7. Choumane W, Winter P, Weigand F, Kahl G. 2000. Conservation and variability of sequence-tagged microsatellite sites (STMSs) from chickpea (Cicer arietinum L.) within the genus Cicer. Theoretical and Applied Genetics 101 : 269 278.
8. Cracraft J. 1986. Origin and evolution of continental biotas: speciation and historical congruence within the Australian avifauna. Evolution 40 : 977 996.
9. Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19 : 11 15.
10. Farris JS, Kallersjo M, Kluge AG, Bult C. 1994. Testing significance of incongruence. Cladistics 10 : 315 319.
11. Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 : 783 791.
12. Felsenstein J. 1988. Phylogenies from molecular sequences: inference and reliability. Annual Review of Genetics 22 : 521 565.
13. Fitch WM. 1971. Towards defining the course of evolution: minimum change for a specified tree topology. Systematic Zoology 20 : 406 416.
14. Frediani M, Caputo P. 2005. Phylogenetic relationships among annual and perennial species of the genus Cicer as inferred from ITS sequences of nuclear ribosomal DNA. Biologia Plantarum 49 : 47 52.
15. Hellwig FH. 2004. Centaureinae (Asteraceae) in the Mediterranean-history of ecogeographical radiations. Plant Systematics and Evolution 246 : 137 162.
16. Hu JM, Lavin M, Wojciechowski MF, Sanderson MJ. 2000. Phylogenetic systematics of the tribe Millettieae (Leguminosae) based on chloroplast trnK/matK sequences and its implications for evolutionary patterns in Papilionoideae. American Journal of Botany 87 : 418 430.
17. Huelsenbeck JP, Ronquist FR. 2002. MrBayes: Bayesian inference of phylogeny. Bioinformatics 17 : 754 755.
18. Huelsenbeck JP, Ronquist FR, Nielson R, Bollback JP. 2001. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294 : 2310 2314.
19. Iruela M, Rubio J, Cubero JI, Gil J, Millan T. 2002. Phylogenetic analyses in the genus Cicer and cultivated chickpea using RAPD and ISSR markers. Theoretical and Applied Genetics 104 : 643 651.
20. Javadi F, Yamaguchi H. 2004a. Interspecific relationships of the genus Cicer L. (Fabaceae) based on trnT-F sequences. Theoretical and Applied Genetics 109 : 317 322.
21. Javadi F, Yamaguchi H. 2004b. RAPD and seed coat morphology variation in annual and perennial species of the genus Cicer L. Genetic Resources and Crop Evolution 51 : 783 794.
22. Kazan K, Muehlbauer FJ. 1991. Allozyme variation and phylogeny in annual species of Cicer (Leguminosae). Plant Systematics and Evolution 175 : 11 21.
23. Lavin M, Herendeen PS, Wojciechowski MF. 2005. Evolutionary rates analysis of Leguminosae implicates a rapid diversification of lineages during the Tertiary. Systematic Biology 54 : 530 549.
24. Lee J, Baldwin BG, Gottlieb LD. 2002. Phylogeny of Stephanomeria and related genera (Compositae-Lactuceae) based on analysis of 18S-26S nuclear rDNA ITS and ETS sequences. American Journal of Botany 89 : 160 168.
25. Meulenkamp JE, Sissingh W. 2003. Tertiary palaeogeography and tectonostratigraphic evolution of the Northern and Southern Peri-Tethys platforms and the intermediate domains of the African-Eurasian convergent plate boundary zone. Palaeogeography, Palaeoclimatology, Palaeoecology 196 : 209 228.
26. Polhill RM. 1981. Papilionoideae. In : Polhill RM, Raven PH, eds. Advances in legume systematics, Part 1. Kew : Royal Botanic Gardens, 191 208.
27. Popov MG. 1929. The genus Cicer and its species. Bulletin of Applied Botany, Genetic and Plant Breeding 21 : 1 254.
28. Posada D, Crandall KA. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14 : 817 818.
29. Rajesh PN, Sant VJ, Gupta VS, Muehlbauer FJ, Ranjekar PK. 2003. Genetic relationships among annual and perennial wild species of Cicer using inter simple sequence repeat (ISSR) polymorphism. Euphytica 129 : 15 23.
30. Sanderson MJ. 2002. Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach. Molecular Biology and Evolution 19 : 101 109.
31. Sanderson MJ. 2003. r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock. Bioinformatics 19 : 301 302.
32. Sethy NK, Choudhary S, Shokeen B, Bhatia S. 2006. Identification of microsatellite markers from Cicer reticulatum: molecular variation and phylogenetic analysis. Theoretical and Applied Genetics 112 : 347 357.
33. Steele KP, Wojciechowski MF. 2003. Phylogenetic analyses of tribes Trifolieae and Vicieae based on sequences of the plastid gene matK (Papilionaceae: Leguminosae). In : Klitgaard BB, Bruneau A, eds. Advances in legume systematics. Kew : Royal Botanic Gardens, 355 370.
34. Suc JP. 1984. Origin and evolution of the Mediterranean vegetation and climate in Europe. Nature 307 : 429 432.
35. Sudupak MA, Akkaya MS, Kence A. 2002. Analysis of genetic relationships among perennial and annual Cicer species growing in Turkey using RAPD markers. Theoretical and Applied Genetics 105 : 1220 1228.
36. Sudupak MA, Akkaya MS, Kence A. 2004. Genetic relationships among perennial and annual Cicer species growing in Turkey assessed by AFLP. Theoretical and Applied Genetics 108 : 937 944.
37. Swofford DL. 2002. PAUP*: phylogenetic analysis using parsimony (*and other methods), Version 4.0b10. Sunderland, MA : Sinauer.
38. Swofford DL, Olsen GJ. 1990. Phylogeny reconstruction. In : Hillis DM, Moritz C, eds. Molecular systematics. Sunderland, MA : Sinauer, 411 501.
39. Tayyar RI, Waines JG. 1996. Genetic relationships among annual species of Cicer (Fabaceae) using isozyme variation. Theoretical and Applied Genetics 92 : 245 254.
40. Van der Maesen LJG. 1972. Cicer L.: a monograph of the genus, with special reference to the chickpea (Cicer arietinum L.), its ecology and cultivation. Wageningen : Mededelingen Landbouwhogeschool.
41. Van der Maesen LJG. 1987. Origin, history and taxonomy of chickpea. In : Saxena MC, Singh KB, eds. The chickpea. Wallingford, UK : CABI, 11 34.
42. Vander Stappen J, Marant S, Volckaert G. 2003. Molecular characterization and phylogenetic utility of the rDNA external transcribed spacer region in Stylosanthes (Fabaceae). Theoretical and Applied Genetics 107 : 291 298.
43. White TJ, Bruns T, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In : Innis MA, Gelfand DH, Sninsky JJ, White JT, eds. PCR protocols: a guide to methods and applications. San Diego, CA : Academic Press, 315 322.
44. Wojciechowski MF. 2003. Reconstructing the phylogeny of legumes (Fabaceae): an early 21st century perspective. In : Klitgaard BB, Bruneau A, eds. Advances in legume systematics, Part 10. Kew : Royal Botanical Gardens, 5 35.
45. Wojciechowski MF, Lavin M, Sanderson MJ. 2004. A phylogeny of legumes (Leguminosae) based on analysis of the plastid matK gene resolves many well-supported subclades within the family. American Journal of Botany 91 : 1846 1862.
46. Wojciechowski MF, Sanderson MJ, Steele KP, Liston A. 2000. Molecular phylogeny of the temperate herbaceous tribes of papilionoid legumes: a supertree approach. In : Herendeen PS, Bruneau A, eds. Advances in legume systematics, Part 9. Kew : Royal Botanic Gardens, 277 298.
47. Xu DH, Abe J, Sakai M, Kanazawa A, Shimamoto Y. 2000. Sequence variation of non-coding regions of chloroplast DNA of soybean and related wild species and its implications for the evolution of different chloroplast haplotypes. Theoretical and Applied Genetics 101 : 724 732.