Historical linguistics as a sequence optimization problem: The evolution and biogeography of Uto-Aztecan languages

Cladistics

Volumn 31, Issue 2, 2015, Pages 113-125

  Wheeler, Ward C ^a   Whiteley, Peter M ^a  

^a DIVISION OF INVERTEBRATE ZOOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOGEOGRAPHY; DNA; EVOLUTION; LANGUAGE; OPTIMIZATION; RECONSTRUCTION;

EID: 84924703668     PISSN: 07483007     EISSN: 10960031     Source Type: Journal    
DOI: 10.1111/cla.12078     Document Type: Article

References (77)

1. Beekman, C., Christensen, A., 2003. Controlling for doubt and uncertainty through multiple lines of evidence: a new look at the Mesoamerican Nahua migrations. J. Archaeol. Method Th. 10, 111-164.
2. Bitocchi, E., Nanni, L., Bellucci, E., Rossi, M., Giardini, A., Zeuli, P.S., Logozzo, G., Stougaard, J., McClean, P., Attene, G., Papa, R., 2012. Mesoamerican origin of the common bean (Phaseolus vulgaris L.) is revealed by sequence data. Proc. Natl Acad. Sci. USA 109, E788-E796.
3. Bremer, K., 1994. Branch support and tree stability. Cladistics 10, 295-304.
4. Brinton, D., 1891. The American Race: A Linguistic Classification and Ethnographic Description of the Native Tribes of North and South America. N.D.C. Hodges, New York, NY.
5. Caballero, G., 2011. Behind the Mexican mountains: recent developments and new directions in research on Uto-Aztecan languages. Lang. Linguist. Compass 5, 485-504.
6. Campbell, L., 1997. American Indian Languages: The Historical Linguistics of Native America. Oxford University Press, New York, NY.
7. Campbell, L., 2004. Historical Linguistics: An Introduction. MIT Press, Cambridge, MA.
8. Campbell, L., Langacker, R., 1978. Proto-Aztecan vowels. Int. J. Am. Linguist. 44, 85-102, 197-210, 262-279.
9. Campbell, L., Poser, W., 2008. Language Classification: History and Method. Cambridge University Press, New York, NY.
10. Cortina-Borja, M., Valiñas-Coalla, L., 1989. Some remarks on Uto-Aztecan classification. Int. J. Am. Linguist. 55, 214-239.
11. Davis, I., 1989. A new look at Aztec-Tanoan. In: Key, M., Hoenigswald, H. (Eds.), General and Amerindian Ethnolinguistics: In Remembrance of Stanley Newman. Mouton de Gruyter, Berlin, pp. 365-379.
12. Davletshin, A., 2012. Proto-Uto-Aztecans on their way to the Proto-Aztecan homeland: linguistic evidence. J. Lang. Relationship 8, 75-92.
13. Ferguson, T., Colwell-Chanthaphonh, C., 2006. History is in the Land: Multivocal Tribal Traditions in Arizona's San Pedro Valley. University of Arizona Press, Tucson.
14. Forster, P., Renfrew, C. (Eds.) 2006. Phylogenetic Methods and the Prehistory of Languages. MIT Press, Cambridge, MA.
15. Fortson, B., 2010. Indo-European Language and Culture: An Introduction, 2nd edn. Blackwell, Malden, MA.
16. Fowler, C., 1983. Lexical clues to Uto-Aztecan prehistory. Int. J. Am. Linguist. 49, 224-257.
17. Goddard, I., 1996. Handbook of North American Indians, Vol. 6, Languages. Smithsonian Institution, Washington, DC.
18. Goddard, I., 1999. Native Languages and Language Families of North America (Map). University of Nebraska Press, Lincoln, NE, revised and enlarged edition.
19. Goloboff, P.A., 1999. NONA (No Name) ver. 2. Published by the author, Tucumán, Argentina.
20. Goodman, M., Olson, C.B., Beeber, J.E., Czelusniak, J., 1982. New perspectives in the molecular biological analysis of mammalian phylogeny. Acta Zoologica Fennica 169, 19-35.
21. Greenhill, S., Currie, T., Gray, R., 2009. Does horizontal transmission invalidate cultural phylogenies? Proc. Biol. Sci. 276, 2299-2306.
22. Hale, K., 1958. Internal diversity in Uto-Aztecan. Int. J. Am. Linguist. 24, 101-107.
23. Heath, J., 1977. Uto-Aztecan morphophonemics. Int. J. Am. Linguist. 43, 27-36.
24. Hill, J., 2001a. Proto-Uto-Aztecan: a community of cultivators in Central Mexico? Am. Anthropol. 103, 913-934.
25. Hill, K.C., 2001b. Comments on Hopi and comparative Uto-Aztecan. In: Zamarrón, J., Hill, J. (Eds.), Avances y balances de lenguas yutoaztecas. Instituto Nacional de Antropología e Historia, Mexico City, pp. 313-343.
26. Hill, J., 2002. Toward a linguistic prehistory of the Southwest: "Azteco-Tanoan" and the arrival of maize cultivation. J. Anthropol. Res. 58, 457-475.
27. Hill, J., 2008. Northern Uto-Aztecan and Kiowa-Tanoan: evidence of contact between the proto-languages? Int. J. Am. Linguist. 74, 155-188.
28. Hill, J., 2011a. Subgrouping in Uto-Aztecan. Lang. Dyn. Change 1, 241-278.
29. Hill, K.C., 2011b. Wick Miller's Uto-Aztecan cognate sets, revised and expanded by Kenneth C. Hill.
30. Hill, J., 2012. Proto-Uto-Aztecan as a Mesoamerican language. Ancient Mesoamerica 23, 57-68.
31. Holland, J.H. (Ed.) 1975. Adaptation in Natural and Artificial Systems. University of Michigan Press, Ann Arbor, MI.
32. Holman, E., Brown, C., Wichmann, S., Müller, A., Velupillai, V., Hammarström, H., Sauppe, S., Jung, H., Bakker, D., Brown, P., Belyaev, O., Urban, M., Mailhammer, R., List, J., Egorov, D., 2011. Automated dating of the world's language families based on lexical similarity. Curr. Anthropol. 52, 841-875.
33. Janies, D., Hill, A.W., Guralnick, R., Habib, F., Waltari, E., Wheeler, W.C., 2007. Genomic analysis and geographic visualization of the spread of avian influenza (h5n1). Syst. Biol. 56, 321-329.
34. Kaufman, T., 2001. The History of the Nawa Language Group from the Earliest Times to the 16th Century: Some Initial Results. http://www.albany.edu/pdlma/Nawa.pdf.
35. Kemp, B., González-Oliver, A., Malhi, R., Monroe, C., Schroeder, K., McDonough, J., Rhett, G., Resendéz, A., Peñaloza-Espinosa, R., Buentello-Malo, L., Gorodesky, C., Smith, D., 2010. Ultraconserved words point to deep language ancestry across Eurasia. Proc. Natl Acad. Sci. 107, 6759-6764.
36. Kroeber, A.L., 1907. Shoshonean dialects of California. Univ. Calif. Publ. Am. Archaeol. Ethnol. 4, 66-165.
37. Lamb, S., 1964. The classification of the Uto-Aztecan languages: a historical survey. In: Bright, W. (Ed.), Studies in California Linguistics, University of California Publications in Linguistics 34. University of California Press, Berkeley, CA, pp. 106-125.
38. Madsden, D., 1989. Exploring the Fremont. Utah Museum of Natural History, Salt Lake City, UT.
39. Merrill, W., 2012. The historical linguistics of Uto-Aztecan agriculture. Anthropol. Linguist. 54, 203-260.
40. Merrill, W., 2013. The genetic unity of southern Uto-Aztecan. Lang. Dyn. Change 3, 68-104.
41. Merrill, W., Hard, R., Mabry, J., Fritz, G., Adams, K., Roney, J., MacWilliams, A., 2009. The diffusion of maize to the Southwestern United States and its impact. Proc. Natl Acad. Sci. 106, 21019-21026.
42. Miller, W.R., 1967. Uto-Aztecan Cognate Sets. Number 48 in University of California Publications in Linguistics. University of California Press, Berkeley, CA.
43. Miller, W., 1983. Uto-Aztecan languages. In: Ortiz, A. (Ed.), Handbook of North American Indians. Smithsonian Institution, Washington, DC, Vol. 10, pp. 113-124.
44. Miller, W., 1984. The classification of the Uto-Aztecan languages based on lexical evidence. Int. J. Am. Linguist. 50, 1-24.
45. Miller, W., 1988. Computerized Data Base for Uto-Aztecan Cognate Sets. Department of Linguistics, University of Utah, Salt Lake City, UT.
46. Mithun, M., 1999. The Languages of Native North America. Cambridge University Press, Cambridge.
47. Moilanen, A., 1999. Searching for most parsimonious trees with simulated evolutionary optimization. Cladistics 15, 39-50.
48. Ramer, A.M., 1992a. A Northern Uto-Aztecan sound law: *-c→-y-. Int. J. Am. Linguist. 58, 251-268.
49. Ramer, A.M., 1992b. Tubatulabal 'Man' and the subclassification of Uto-Aztecan. Calif. Linguist. Notes 23, 30-31.
50. Ranere, A., Piperno, D., Holst, I., Dickau, R., Iriarte, J., 2009. The cultural and chronological context of early Holocene maize and squash domestication in the Central Balsas River Valley, Mexico. Proc. Natl Acad. Sci. USA 106, 5014-5018.
51. Rei, F., 2004. Tipa Manual, Version 1.3. Graduate School of Humanities and Sociology, University of Tokyo, Tokyo.
52. Robillard, T., Legendre, F., Desutter-Grandcolas, L., Grandcolas, P., 2006. Phylogenetic analysis and alignment of behavioral sequences by direct optimization. Cladistics 22, 602-633.
53. Sankoff, D.M., 1975. Minimal mutation trees of sequences. SIAM J. Appl. Math. 28, 35-42.
54. Schuh, R.T., Weirauch, C., Wheeler, W., 2009. Phylogenetic analysis of family-group relationships in the Cimicomorpha (Hemiptera). Syst. Entomol. 34, 15-48.
55. Schulmeister, S., Wheeler, W.C., 2004. Comparative and phylogenetic analysis of developmental sequences. Evol. Dev. 6, 50-57.
56. Smith, M.E., 2012. The Aztecs, 3rd edn. Wiley-Blackwell, Hoboken, NJ.
57. Spicer, E.M., 1969. Northwest Mexico: introduction. In: Vogt, E.Z. (Ed.), Handbook of Middle American Indians. University of Texas Press, Austin, TX, Vol. 8, pp. 777-791.
58. Stubbs, B., 2011. Uto-Aztecan: A Comparative Vocabulary. Shumway Family History Services, Flower Mound, TX.
59. Swadesh, M., 1971. The Origin and Diversification of Language. Aldine, Chicago, IL.
60. Varón, A., Wheeler, W.C., 2012. The tree-alignment problem. BMC Bioinformatics 13, 293.
61. Varón, A., Wheeler, W.C., 2013. Local search for the generalized tree alignment problem. BMC Bioinformatics 14, 66.
62. Varón, A., Vinh, L.S., Wheeler, W.C., 2010. POY version 4: phylogenetic analysis using dynamic homologies. Cladistics 26, 72-85.
63. Voegelin, C., Voegelin, F., Hale, K., 1962. Typological and Comparative Grammar of Uto-Aztecan: I (Phonology). International Journal of American Linguistics Memoirs, 17, Bloomington, IN.
64. WALS, 2013. World Atlas of Language Structures. http://wals.info/.
65. Wang, L., Jiang, T., 1994. On the complexity of multiple sequence alignment. J. Comput. Biol. 1, 337-348.
66. Watson, J., 2010. The introduction of agriculture and the foundation of biological diversity in the southern Southwest. In: Auerbach, B. (Ed.), Human Variation in the Americas. Center for Archaeological Investigations, Southern Illinois University, Occasional Paper 38, Carbondale, IL, pp. 135-171.
67. Wheeler, W.C., 1993. The triangle inequality and character analysis. Mol. Biol. Evol. 10, 707-712.
68. Wheeler, W.C., 1995. Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data. Syst. Biol. 44, 321-331.
69. Wheeler, W.C., 1996. Optimization alignment: the end of multiple sequence alignment in phylogenetics? Cladistics 12, 1-9.
70. Wheeler, W.C., 1999. Fixed character states and the optimization of molecular sequence data. Cladistics 15, 379-385.
71. Wheeler, W.C., 2003. Iterative pass optimization. Cladistics 19, 254-260.
72. Wheeler, W.C., Hayashi, C.Y., 1998. The phylogeny of the extant chelicerate orders. Cladistics 14, 173-192.
73. Wheeler, W.C., Ramírez, M.J., Aagesen, L., Schulmeister, S., 2006. Partition-free congruence analysis: implications for sensitivity analysis. Cladistics 22, 256-263.
74. Wheeler, W.C., Lucaroni, N., Hong, L., Crowley, L., Varón, A., 2013. Poy 5.0. American Museum of Natural History. http://research.amnh.org/scicomp/projects/poy.php.
75. Whiteley, P.M., 2011. Hopi place value: translating a landscape. In: Swann, B. (Ed.), Born in the Blood: On Native American Translation. University of Nebraska Press, Lincoln, NE, pp. 84-108.
76. Whorf, B., 1935. The comparative linguistics of Uto-Aztecan. Am. Anthropol. 37, 600-608.
77. Wichmann, S., Müller, A., Velupillai, V., 2010. Homelands of the world's language families: a quantitative approach. Diachronica 27, 247-276.