A broad phylogenetic analysis of boraginaceae: Implications for the relationships of Mertensia

Systematic Botany

Volumn 37, Issue 3, 2012, Pages 758-783

  Nazaire, Mare ^a   Hufford, Larry ^a  

^a WASHINGTON STATE UNIVERSITY   (United States)

Author keywords

Asteridae; Boraginaceae; Boraginoideae; maximum likelihood; Mertensia; molecular phylogenetics

Indexed keywords

ASPERUGO; ASTERIDS; BORAGINACEAE; CODON (ANGIOSPERM); LENNOA; MERTENSIA (ANGIOSPERM); PHOLISMA;

EID: 84863943833     PISSN: 03636445     EISSN: 15482324     Source Type: Journal    
DOI: 10.1600/036364412X648715     Document Type: Article

References (130)

1. Al-Shehbaz, I. 1991. The genera of Boraginaceae in the southeastern United States. Journal of the Arnold Arboretum. Supplemental Series 1: 1-169.
2. Albach, D. C., P. S. Soltis, D. E. Soltis, and R. G. Olmstead. 2001. Phylogenetic analysis of asterids based on sequences of four genes. Annals of the Missouri Botanical Garden 88: 163-212. (Pubitemid 32643979)
3. Albert, V. A., S. E. Williams, and M. W. Chase. 1992. Carnivorous plants - phylogeny and structural evolution. Science 257: 1491-1495.
4. Andersson, L. and A. Antonelli. 2005. Phylogeny of the tribe Cinchoneae (Rubiaceae), its position in Cinchonoideae, and description of a new genus, Ciliosemina. Taxon 54: 17-28. (Pubitemid 40440893)
5. APG. 2003. An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG II. Botanical Journal of the Linnean Society 141: 399-436.
6. APG. 2009. An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG III. Botanical Journal of the Linnean Society 161: 105-121.
7. Baillon, H. 1890. Boraginacées. Pp. 343-402 in Histoire des Plantes ed. H. Baillon. Paris: Librairie Hatchette and Cie.
8. Bentham, G. 1876. Boragineae. Pp. 832-865 in Genera Plantarum vol. 2, eds. G. Bentham and J. D. Hooker. London: L. Reeve and Co.
9. Bigazzi, M., H. H. Hilger, and F. Selvi. 2002. Evidence from nuclear and chloroplast DNA for the placement of Anchusa macedonica in the genus Gastrocotyle (Boraginaceae). Webbia 57: 173-180.
10. Böhle, U. R., H. H. Hilger, R. Cerff, and W. F. Martin. 1994. Non-coding chloroplast DNA for plant molecular systematics at the infrageneric level. Molecular Ecology and Evolution: Approaches and Applications 69: 391-403.
11. Böhle, U. R., H. H. Hilger, and W. F. Martin. 1996. Island colonization of the insular woody habit in Echium L. (Boraginaceae). Proceedings of the National Academy of Sciences USA 93: 11740-11745. (Pubitemid 26347193)
12. Bohs, L. and R. G. Olmstead. 1997. Phylogenetic relationships in Solanum (Solanaceae) based on ndhF sequences. Systematic Botany 22: 5-17. (Pubitemid 27354262)
13. Bremer, B., K. Bremer, N. Heidari, P. Erixon, R. G. Olmstead, A. A. Anderberg, M. Källersjö, and E. Barkhordarian. 2002. Phylogenetics of asterids based on 3 coding and 3 non-coding chloroplast DNA markers and the utility of non-coding DNA at higher taxonomic levels. Molecular Phylogenetics and Evolution 24: 274-301. (Pubitemid 34995919)
14. Bremer, K., E. M. Friis, and B. Bremer. 2004. Molecular phylogenetic dating of asterid flowering plants shows early Cretaceous diversification. Systematic Biology 53: 496-505. (Pubitemid 38946910)
15. Buckley, T. R. 2002. Misspecification and probabilistic tests of topology: evidence from empirical data sets. Systematic Biology 51: 509-523. (Pubitemid 35180701)
16. Cecchi, L. and F. Selvi. 2009. Phylogenetic relationships of the monotypic genera Halacsya and Paramoltkia and the origins of serpentine adaptation in circum-mediterranean Lithospermeae (Boraginaceae): insights from ITS and matK DNA sequences. Taxon 58: 700-714.
17. Chase, M. W., D. E. Soltis, R. G. Olmstead, D. Morgan, D. H. Les, B. D. Mishler, M. R. Duvall, R. A. Price, H. G. Hills, Y.-L. Qiu, K. A. Kron, J. H. Rettig, E. Conti, J. D. Palmer, J. R. Manhart, K. J. Sytsma, H. J. Michaels, W. J. Kress, K. G. Karol, W. D. Clark, M. Hedrén, B. S. Gaut, R. K. Jansen, K.-J. Kim, C. F. Wimpee, J. F. Smith, G. R. Furnier, S. H. Strauss, Q.-Y. Xiang, G. M. Plunkett, P. S. Soltis, S. M. Swensen, S. E. Williams, P. A. Gadek, C. J. Quinn, L. E. Eguiarte, E. Golenberg, G. H. Learn, S. W. Graham, S. C. H. Barrett, S. Dayanandan, and V. A. Albert. 1993. Phylogenetics of seed plants: an analysis of nucleotide sequences from the plastid gene rbcL. Annals of the Missouri Botanical Garden 80: 528-580.
18. Chen, S., H. Yao, J. Han, C. Liu, J. Song, L. Shi, Y. Zhu, X. Ma, T. Gao, X. Pang, K. Luo, Y. Li, X. Li, X. Jia, Y. Lin, and C. Leon. 2010. Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species. PLoS ONE 5: e8613.
19. Clark, C. B. 1883. Mertensia. Pp. 169-171 in Flora of British India vol. 4, ed. J. D. Hooker. London: L. Reeve and Co.
20. Clarkson, J. J., S. Knapp, V. F. Garcia, R. G. Olmstead, A. R. Leitch, and M. W. Chase. 2004. Phylogenetic relationships in Nicotiana (Solanaceae) inferred from multiple plastid DNA regions. Molecular Phylogenetics and Evolution 33: 75-90. (Pubitemid 39138738)
21. Cohen, J. I. and J. I. Davis. 2009. Nomenclatural changes in Lithospermum (Boraginaceae) and related taxa following a reassessment of phylogenetic relationships. Brittonia 61: 101-111.
22. Craven, L. A. 2005. Malesian and Australian Tournefortia transferred to Heliotropium and notes on delimitation of Boraginaceae. Blumea 50: 375-381. (Pubitemid 41026648)
23. Cronquist, A. 1981. An integrated system of classification of flowering plants. New York: Columbia University Press.
24. Cullings, K. W. 1992. Design and testing of a plant-specific PCR primer for ecological and evolutionary studies. Molecular Ecology 1: 233-240.
25. Decaisne, J. 1844. Lithospermum (Oreocharis). Pp. 119-123 in Voyage dans l'Inde vol. 4, ed. V. Jacquemont. Paris: Firmin Didot Frères. DeCandolle, A. 1846. Prodromous Systematis Naturalis Regni Vegetablis vol. 10. Paris: Masson.
26. Diane, N., H. Förther, and H. H. Hilger. 2002. A systematic analysis of Heliotropium, Tournefortia, and allied taxa of the Heliotropiaceae (Boraginales) based on ITS1 sequences and morphological data. American Journal of Botany 89: 287-295. (Pubitemid 34191029)
27. Don, G. 1838. A general history of the dichlamydeous plants comprising complete descriptions of the different orders vol. 4. London: Gilbert and Rivington.
28. Doyle, J. J. and J. L. Doyle. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
29. Edgar, R. C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32: 1792-1797. (Pubitemid 38832724)
30. Farris, J. S., M. Källersjö, A. G. Kluge, and C. Bult. 1995. Constructing a significance test for incongruence. Systematic Biology 44: 570-572.
31. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
32. Ferguson, D. M. 1999. Phylogenetic analysis and relationships in Hydrophyllaceae based on ndhF sequence data. Systematic Botany 23: 253-268.
33. Ferrero, V., J. Arroyo, P. Vargas, J. D. Thompson, and L. Navarro. 2009. Evolutionary transitions of style polymorphisms in Lithodora (Boraginaceae). Perspectives in Plant Ecology, Evolution and Systematics 11: 111-125.
34. Ferri, G., M. Alu, B. Corradini, and G. Beduschi. 2009. Forensic botany: species identification of botanical trace evidence using a multigene barcoding approach. International Journal of Legal Medicine 123: 395-401.
35. Forest, F., R Grenyer, M. Rouget, T. J. Davies, R. M. Cowling, D. P. Faith, A. Balmford, J. C. Manning, S. Proches, M. van der Bank, G. Reeves, T. A. J. Hedderson, and V. Savolainen. 2007. Preserving the evolutionary potential of floras in biodiversity hotspots. Nature 445: 757-760. (Pubitemid 46279719)
36. Galtier, N. and V. Daubin. 2008. Dealing with incongruence in phylogenomic analyses. Philosophical Transactions of the Royal Society B-Biological Sciences 363: 3977-3984.
37. Gottschling, M. and H. H. Hilger. 2001. Phylogenetic analysis and character evolution of Ehretia and Bourreria (Ehretiaceae, Boraginales) and their allies based on ITS1 sequences. Botanische Jahrbücher für Systematik 123: 249-268.
38. Gottschling, M. and H. H. Hilger. 2004. Characterisation of a novel fruit type found in Ehretia (Ehretiaceae, Boraginales). Blumea 49: 145-153. (Pubitemid 38587752)
39. Gottschling, M., N. Diane, H. H. Hilger, and M. Weigend. 2004. Testing hypotheses on disjunctions present in the primarily woody Boraginales: Ehretiaceae, Cordiaceae, and Heliotropiaceae, inferred from ITS1 sequence data. International Journal of Plant Sciences 165: S123-S135. (Pubitemid 39320854)
40. Gottschling, M., H. H. Hilger, M. Wolf, and N. Diane. 2001. Secondary structure of the ITS1 transcript and its application in a reconstruction of the phylogeny of Boraginales. Plant Biology 3: 629-636. (Pubitemid 34103065)
41. Gottschling, M., J. S. Miller, M. Weigend, and H. H. Hilger. 2005. Congruence of a phylogeny of Cordiaceae (Boraginales) inferred from ITS1 sequence data with morphology, ecology, and biogeography. Annals of the Missouri Botanical Garden 92: 425-437. (Pubitemid 41546303)
42. Guindon, S. and O. Gascuel. 2003. A simple, fast and accurate method to estimate large phylogenies by maximum likelihood. Systematic Biology 52: 696-704. (Pubitemid 37365050)
43. Gürke, M. 1897. Boraginaceae (Asperifoliaceae). Pp. 71-131 in Die natürlichen Pflanzenfamilien vol. 4, 3a eds. A. Engler and K. Prantl. Leipzig: Englemann.
44. Hansen, D. R., G. S. Spicer, and R. Patterson. 2009. Phylogenetic relationships between and within Phacelia sections Whitlavia and Gymnobythus (Boraginaceae). Systematic Botany 34: 737-746.
45. Heywood, V. 1993. Flowering plants of the world. London: B. T. Batsford. Hilger, H. H. 1985. Ontogenie, morphologie und systematichse bedeutung geflüegelter und glochidientragender Cynoglosseae- und Eritricheaefru chte (Boraginaceae). Botanische Jahrbücher für Systematik 105: 323-378.
46. Hilger, H. H. and U. R. Böhle. 2000. Pontechium: a new genus distinct from Echium and Lobostemon (Boraginaceae). Taxon 49: 737-746. (Pubitemid 32003684)
47. Hilger, H. H. and N. Diane. 2003. A systematic analysis of Heliotropiaceae (Boraginales) based on trnL and ITS1 sequence data. Botanische Jahrbücher für Systematik 125: 19-51.
48. Hilger, H. H., F. Selvi, A. Papini, and M. Bigazzi. 2004. Molecular systematics of Boraginaceae tribe Boragineae based on ITS1 and trnL sequences, with special reference to Anchusa s. l. Annals of Botany 94: 201-212. (Pubitemid 41301668)
49. Hooker, W. J. 1844. Pholisma arenarium. Icones Plantarum 7: tab. 626.
50. Huelsenbeck, J. P. and F. Ronquist. 2001. MrBayes: Bayesian analysis of phylogeny ver. 3.0B4. San Diego: Section of Ecology, Behavior and Evolution, Division of Biological Sciences, University of California. Hutchinson, J. 1969. Evolution and phylogeny of flowering plants. London: Academic Press.
51. Ionta, G. M. and W. S. Judd. 2007. Phylogenetic relationships in Periplocoideae (Apocynaceae s. l.) and insights into the origin of pollinia. Annals of the Missouri Botanical Garden 94: 360-375. (Pubitemid 47221693)
52. Johnson, L. A. and D. E. Soltis. 1994. matK DNA sequences and phylogenetic reconstruction in Saxifragaceae s. str. Systematic Botany 19: 143-156. (Pubitemid 2062338)
53. Johnston, I. M. 1924a. Studies in the Boraginaceae, II. Contributions from the Gray Herbarium of Harvard University 70: 3-61.
54. Johnston, I. M. 1924b. Studies in the Boraginaceae, III. Contributions from the Gray Herbarium of Harvard University 73: 42-78.
55. Khoshsokhan, M., S. Kazempour Osaloo, S. Saadatmand, and F. Attar. 2010. Molecular phylogeny of Rochelia (Boraginaceae) based on nrDNA ITS and cpDNA trnL-F sequences. Iranian Journal of Botany 16: 22-29.
56. Kress, J. W., K. J. Wurdack, E. A. Zimmer, L. A. Weigt, and D. H. Janzen. 2005. Use of DNA barcodes to identify flowering plants. Proceedings of the National Academy of Sciences USA 102: 8369-8374. (Pubitemid 40803501)
57. Kunnimalaiyaan, M. and B. L. Nielsen. 1997. Fine mapping of replicate origins (oriA and oriB) in Nicotiana tabacum chloroplast DNA. Nucleic Acids Research 25: 3681-3686.
58. La?ngström, E. and M. W. Chase. 2002. Tribes of Boraginoideae (Boraginaceae) and placement of Antiphytum, Echiochilon, Ogastemma and Sericostoma: a phylogenetic analysis based on atpB plastid DNA sequence data. Plant Systematics and Evolution 234: 137-153.
59. La?ngström, E. and B. Oxelman. 2003. Phylogeny of Echiochilon (Echiochileae, Boraginaceae) based on ITS sequences and morphology. Taxon 52: 725-735. (Pubitemid 37514821)
60. Li, M., J. Wunder, G. Bissoli, E. Scarponi, S. Gazzani, E. Barbaro, H. Saedler, and C. Varotto. 2008. Development of COS genes as universally amplifiable markers for phylogenetic reconstructions of closely related plant species. Cladistics 24: 727-745.
61. Lindley, J. 1853. The vegetable kingdom, 3rd ed. London: Bradbury and Evans.
62. Linnaeus, C. 1753. Species Plantarum. London: Ray Society
63. Livshultz, T. D., J. Middleton, M. E. Endress, and J. K. Williams. 2007. Phylogeny of Apocynoideae and the APSA clade (Apocynaceae s. l.). Annals of the Missouri Botanical Garden 94: 324-359. (Pubitemid 47221692)
64. Luebert, F. and J. Wen. 2008. Phylogenetic analysis and evolutionary diversification of Heliotropium Sect. Cochranea (Heliotropiaceae) in the Atacama Desert. Systematic Botany 33: 390-402.
65. Manns, U. and B. Bremer. 2010. Towards a better understanding of intertribal relationships and stable tribal delimitations within Cinchonoideae s. s. (Rubiaceae). Molecular Phylogenetics and Evolution 56: 21-39.
66. Mansion, G., F. Selvi, A. Guggisberg, and E. Conti. 2009. Origin of Mediterranean insular endemics in the Boraginales: integrative evidence from molecular dating and ancestral area reconstruction. Journal of Biogeography 36: 1282-1296.
67. Marshall, J. A., S. Knapp, M. R. Davey, J. B. Power, E. C. Cocking, M. D. Bennett, and A. V. Cox. 2001. Molecular systematics of Solanum section Lycopersicum (Lycopersicon) using the nuclear ITS rDNA region. Theoretical and Applied Genetics 103: 1216-1222.
68. Mart?'nez-Milla'n, M. 2010. Fossil record and age of the asteridae. Botanical Review 76: 83-135.
69. McDade, L. A., T. F. Daniel, C. A. Kiel, and K. Vollesen. 2005. Phylogenetic relationships among Acantheae (Acanthaceae): major lineages present contrasting patterns of molecular evolution and morphological differentiation. Systematic Botany 30: 834-862. (Pubitemid 43181302)
70. Morgan, D. R. and D. E. Soltis. 1993. Phylogenetic relationships among members of Saxifragaceae sensu-lato based on rbcL sequence data. Annals of the Missouri Botanical Garden 80: 631-660.
71. Moore, M. J. and R. K. Jansen. 2006. Molecular evidence for the age, origin, and evolutionary history of the American desert plant genus Tiquilia (Boraginaceae). Molecular Phylogenetics and Evolution 39: 668-687.
72. Müller, K., T. Borsch, L. Lengendre, S. Porembski, I. Theisen, and W. Barthlott. 2004. Evolution of carnivory in Lentibulariaceae and the Lamiales. Plant Biology 6: 477-490. (Pubitemid 38947008)
73. Nasir, Y. J. 2006. Anoplocaryum. Pp. 114 in Flora of Pakistan vol. 191, eds. E. Nasir and S. I. Ali. Karachi: University of Karachi.
74. Nova'k, F. A. 1943. Wellstediaceae. P. 530 in Rostlinopsis vol. 9, ed. S Pra' t. Prague, Czeck Republic: Kronberg.
75. O'Leary, N., Y.-W. Yuan, A. Chemisquy, and R. G. Olmstead. 2009. Reassignment of species of paraphyletic Junellia s. l. to the new genus Mulguraea (Verbenaceae) and new circumscription of genus Junellia: molecular and morphological congruence. Systematic Botany 34: 777-786.
76. Olmstead, R. G. and D. Ferguson. 2001. A molecular phylogeny of the Boraginaceae/Hydrophyllaceae. [abstract] Botany 2001 Conference Plants and People Available at http://2001.botanyconference.org/section12/abstracts/167. shtml.
77. Olmstead, R. G. and J. A. Sweere. 1994. Combining data in phylogenetic systematics: an empirical approach using three molecular data sets in the Solanaceae. Systematic Biology 43: 467-481. (Pubitemid 24987229)
78. Olmstead, R. G., B. Bremer, K. M. Scott, and J. D. Palmer. 1993a. A parsimony analysis of the asteridae sensu lato based on rbcL sequences. Annals of the Missouri Botanical Garden 80: 700-722.
79. Olmstead, R. G., K.-J. Kim, R. K. Jansen, and S. J. Wagstaff. 2000. The phylogeny of the asteridae sensu lato based on chloroplast ndhF gene sequences. Molecular Phylogenetics and Evolution 16: 96-112. (Pubitemid 30466880)
80. Olmstead, R. G., H. J. Michaels, K. M. Scott, and J. D. Palmer. 1992. Monophyly of the asteridae of their major lineages inferred from DNA sequences of rbcL. Annals of the Missouri Botanical Garden 79: 249-265.
81. Olmstead, R. G., J. A. Sweere, and K. H. Wolfe. 1993b. Ninety extra nucleotide in ndhF gene of tobacco chloroplast DNA - a summary of revisions to the 1986 genome sequence. Plant Molecular Biology 22: 1191-1193.
82. Plunkett, G. M., D. E. Soltis, and P. S. Soltis. 1996. Evolutionary patterns in Apiaceae: inferences based on matK sequence data. Systematic Botany 21: 477-495.
83. Popov, M. G. 1953a. De generis Mertensiae Roth (Boraginaceae) systemate et evolutione comparatis speciebus Americanus et Asiatcis adnotationes. Notulae Systematicae Herbaria Institute. Botanical Materials of the herbarium of Botanical Institute in name of V.L. Kamarov of the Academy of Sciences of the USSR 15: 248-266. [Translated from Russian by the United States Department of Agriculture, Forest Service, Washington D.C.].
84. Popov, M. G. 1953b. Boraginaceae. Pp. 73-508 in Flora of the USSR vol. 19, ed. B. K. Shishkin. Moskva, Leningrad: Izdatel'stvo Akademii Nauk SSSR.
85. Posada, D. 2008. jModelTest: Phylogenetic model averaging. Molecular Biology and Evolution 25: 1253-1256.
86. Posada, D. and K. A. Crandall. 2001. Selecting the best-fit model of nucleotide substitution. Systematic Biology 50: 580-601.
87. Rambaut, A. 1996. Se-Al: Sequence Alignment Editor. Available at http://tree.bio.ed.ac.uk/software/seal/. Edinburgh: University of Edinburgh.
88. Rambaut, A. and A. Drummond. 2009. Tracer ver. 1.5.0. Available at http://tree.bio.ed.ac.uk/software/tracer/. Edinburgh: University of Edinburgh.
89. Retief, E. and A. E. Van Wyk. 2005. Codonoideae, a new subfamily based on Codon. Bothalia 35: 78-80. (Pubitemid 41557087)
90. Riedl, H. 1967. Boraginaceae. Pp. 1-281 in Flora Iranica Lfg. 48 ed. K. H. Rechinger. Graz: Akademische Druck- und Verlagsanstalt.
91. Riedl, H. 1968. Die neue Tribus Trigonotideae und das System der Boraginoideae. O sterreichische Botanische Zeitschrift 115: 291-321.
92. Riedl, H. 1997. Boraginaceae. Pp. 43-144 in Flora Malesiana Ser. I. I. vol 13, eds. P. Baas, R. W. J. M. van der Ham, R. Hegnauer, and N. Spitteler. Leiden: Publications Department Rijksherbarium.
93. Ronquist, H. and J. P. Huelsenbeck. 2003. MrBayes: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574. (Pubitemid 37038874)
94. Sanderson, M. J., D. Boss, D. Chen, K. A. Cranston, and A. Wehe. 2008. The PhyLoTA Browser: processing GenBank for molecular phylogenetics research. Systematic Biology 57: 335-346. (Pubitemid 351882201)
95. Sanderson, M. J., M. M. McMahon, and M. Steel. 2010. Phylogenomics with incomplete taxon coverage: the limits to inference. BMC Evolutionary Biology 10: 155.
96. Savolainen, V., M. W. Chase, S. B. Hoot, C. M. Morton, D. E. Soltis, C. Bayer, M. F. Fay, A. Y. de Bruijn, S. Sullivan, and Y.-L. Qiu. 2000. Phylogenetics of flowering plants based on combined analysis of plastid atpB and rbcL gene sequences. Systematic Biology 49: 306-362.
97. Selvi, F., M. Bigazzi, H. H. Hilger, and A. Papini. 2006a. Molecular phylogeny, morphology and taxonomic re-circumscription of the generic complex Nonea/Elizadia/Pulmonaria/Paraskevia (Boraginaceae-Boragineae). Taxon 55: 907-918. (Pubitemid 46153624)
98. Selvi, F., L. Cecchi, and A. Coppi. 2009. Phylogeny, karyotype evolution and taxonomy of Cerinthe L. (Boraginaceae). Taxon 58: 1307-1325.
99. Selvi, F., A. Coppi, and M. Bigazzi. 2006b. Karyotype variation, evolution and phylogeny in Borago (Boraginaceae), with emphasis on subgenus Buglossites in the Corso-Sardinian system. Annals of Botany 98: 857-868. (Pubitemid 44545501)
100. Selvi, F., A. Papini, H. H. Hilger, M. Bigazzi, and E. Nardi. 2004. The phylogenetic relationships of Cynoglottis (Boraginaceae-Boragineae) inferred from ITS, 5.8S and trnL sequences. Plant Systematics and Evolution 246: 195-209. (Pubitemid 39059070)
101. Sennblad, B. and B. Bremer. 1996. The familial and subfamilial relationships of Apocynaceae and Asclepiadaceae evaluated with rbcL data. Plant Systematics and Evolution 202: 153-175. (Pubitemid 26381045)
102. Sennblad, B. and B. Bremer. 2002. Classification of Apocynaceae s. l. according to a new approach combining Linnaean and phylogenetic taxonomy. Systematic Biology 51: 389-409. (Pubitemid 35180696)
103. Shimodaira, H. 2002. An approximately unbiased test of phylogenetic tree selection. Systematic Biology 51: 492-508. (Pubitemid 35180700)
104. Shimodaira, H. and M. Hasegawa. 1999. Multiple comparisons of loglikelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16: 1114-1116. (Pubitemid 29368141)
105. Shimodaira, H. and M. Hasegawa. 2001. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17: 1246-1247. (Pubitemid 33735360)
106. Shinozaki, K. and M. Sugiura. 1982. Sequence of the intercistronic region between the ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit and the coupling factor beta-subunit gene. Nucleic Acids Research 10: 4923-4934.
107. Simo es, A. O., T. Livshultz, E. Conti, and M. E. Endress. 2007. Phylogeny and systematics of the Rauvolfioideae (Apocynaceae) based on molecular and morphological evidence. Annals of the Missouri Botanical Garden 94: 268-297. (Pubitemid 47221690)
108. Smith, S. A. and M. J. Donoghue. 2008. Rates of molecular evolution are linked to life history in flowering plants. Science 322: 86-89.
109. Smith, S. A. and C. W. Dunn. 2008. Phyutility: a phyloinformatics tool for trees, alignments, and molecular data. Bioinformatics 24: 715-716. (Pubitemid 351321218)
110. Smith, S. A., J. M. Beaulieu, A. Stamatakis, and M. J. Donoghue. 2011. Understanding angiosperm diversification using small and large phylogenetic trees. American Journal of Botany 98: 404-414.
111. Soininen, E. M., A. Valentini, E. Coissac, C. Miquel, L. Gielly, C. Brochmann, A. K. Brysting, J. H. Sonstebo, R. A. Ims, N. G. Yoccoz, and P. Taberlet. 2009. Analysing diet of small herbivores: the efficiency of DNA barcoding coupled with high-throughput pyrosequencing for deciphering the composition of complex plant mixtures. Frontiers in Zoology 6: 16.
112. Solms-Laubach, H. M. C. L. F. z. 1870. Die familie der Lennoaceen. Abhandlungen der Naturforschenden Gesellschaft zu Halle 11: 121-178.
113. Soltis, D. E., P. S. Soltis, M. T. Clegg, and M. Durbin. 1990. rbcL sequence divergence and phylogenetic relationships in Saxifragaceae sensu lato. Proceedings of the National Academy of Sciences USA 87: 4640-4644.
114. Stamatakis, A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690. (Pubitemid 44642609)
115. Stamatakis, A., P. Hoover, and J. Rougemont. 2008. A fast bootstrapping algorithm for the RAxML web-servers. Systematic Biology 57: 758-771.
116. Sudarmo, H. O. 2008. Genetic differentiations among the populations of Salvia japonica (Lamiaceae) and its related species. Hayati Journal of Biosciences 15: 18-26.
117. Swofford, D. L. 2002. PAUP. Phylogenetic analysis using parsimony (and other methods), v. 4.0 beta 10. Sunderland: Sinauer Associates.
118. Taberlet, P., L. Gielly, G. Pautou, and J. Bouvet. 1991. Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Molecular Biology 17: 1105-1109.
119. Takhtajan, A. 1997. Diversity and classification of flowering plants. New York: Columbia University Press.
120. Tank, D. and M. J. Donoghue. 2010. Phylogeny and phylogenetic nomenclature of the Campanulidae based on an expanded sample of genes and taxa. Systematic Botany 35: 425-441.
121. Thomas, D. C., M. Weigend, and H. H. Hilger. 2007. Phylogeny and systematics of Lithodora (Boraginaceae-Lithospermeae) and its affinities to the monotypic genera Mairetis, Halacsya and Paramoltkia based on ITS1 and trnLUAA-sequence data and morphology. Taxon 57: 79-97. (Pubitemid 351449763)
122. Wagstaff, S. J. and R. G. Olmstead. 1997. Phylogeny of Labiatae and Verbenaceae inferred from rbcL sequences. Systematic Botany 22: 165-179. (Pubitemid 27354271)
123. Wagstaff, S. J., L. Hickerson, R. Spangler, P. A. Reeves, and R. G. Olmstead. 1998. Phylogeny in Labiatae s. l., inferred from cpDNA sequences. Plant Systematics and Evolution 209: 265-274. (Pubitemid 28137988)
124. Weigend, M. and H. H. Hilger. 2010. Codonaceae-a newly required family name in Boraginales. Phytotaxa 10: 26-30.
125. Weigend, M., M. Gottschling, F. Selvi, and H. H. Hilger. 2009. Marbleseeds are gromwells - systematics and evolution of Lithospermum and allies (Boraginaceae tribe Lithospermeae) based on molecular and morphological data. Molecular Phylogenetics and Evolution 52: 755-768.
126. Weigend, M., M. Gottschling, F. Selvi, and H. H. Hilger. 2010. Fossil and extant Western Hemisphere Boragineae, and the polyphyly of " Trigonotideae" Riedl (Boraginaceae: Boraginoideae). Systematic Botany 35: 409-419.
127. Wen, J. and E. A. Zimmer. 1996. Phylogeny and biogeography of Panax L. (the ginseng genus, Araliaceae): inferences from ITS sequences of nuclear ribosomal DNA. Molecular Phylogenetics and Evolution 6: 167-177. (Pubitemid 126320613)
128. Williams, L. O. 1937. A monograph of the genus Mertensia in North America. Annals of the Missouri Botanical Garden 24: 17-159.
129. Winkworth, R. C., J. Grau, A. W. Robertson, and P. J. Lockhart. 2002. The origins and evolution of the genus Myosotis L. (Boraginaceae). Molecular Phylogenetics and Evolution 24: 180-193. (Pubitemid 34995912)
130. Yatskievych, G. and C. T. Mason Jr. 1986. A revision of the Lennoaceae. Systematic Botany 11: 531-548.