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2009 (61 articles)

  1. Mecke S, Doughty P, DONNELLAN SC. (2009). A new species of Eremiascincus (Reptilia: Squamata: Scincidae) from the Great Sandy Desert and Pilbara Coast, Western Australia and reassignment of eight species from Glaphyromorphus to Eremiascincus. Zootaxa 2246, 1-20
  2. Roeding, F., Borner, J., Kube, M., Klages, S., Reinhardt, R., and Burmester, T. (2009) A 454 pyrosequencing approach for phylogenomic analysis of the Arthropoda. Mol. Phylogenet. Evol. 53, 826–834.
  3. Thoma, B.P., Schubart, C.D. and Felder, D.L. (2009) "Molecular phylogeny of the western Atlantic representatives of the genus Hexapanopeus (Decapoda: Brachyura: Panopeidae)." In: Martin, J.W., K.A. Crandall, and D.L. Felder (eds.) Decapod Crustacean Phylogenetics. Crustacean Issues. Koenemann, S. (series ed.) Vol. 18.
  4. Xu, S., L. Chen, K. Zhou, G. Yang. (2009) "Sequence polymorphism and evolution of three cetacean MHC genes." Journal of Molecular Evolution 69: 260-275.
  5. Xiong Y., M. C. Brandley, S. Xu, K. Zhou, and G. Yang. (2009) "Seven new dolphin mitochondrial genomes and a time-calibrated phylogeny of whales." BMC Evolutionary Biology, 9: 20.
  6. Fuselier, L., Davison, P.G., Clements, M., Shaw, B., Devos, N., Heinrichs, J., Hentschel, J., Sabovljevic, M., Szövényi, P., Schuette, S., Hofbaurer, W., and Shaw., A. J. (2009) "Phylogeographic analyses reveal distinct lineages of Metzgeria furcata (L.) Dumort. and M. conjugata Lindb. (Metzgeriaceae) in Europe and North America." Biological Journal of the Linnean Society 98:745-756.
  7. Buerki, S., Forest, F., Acevedo-Rodríguez, P., Callmander, M.W., Nylander, J.A.A., Harrington, M., Sanmartín, I., Küpfer, P., Alvarez, N. (2009) "Plastid and nuclear DNA markers reveal intricate relationships at subfamilial and tribal levels in the soapberry family (Sapindaceae)." Molecular Phylogenetics and Evolution 51: 238-258.
  8. Chesser, R. T., Claramunt, S., Derryberry, E.P. and Brumfield, R.T. (2009) "Geocerthia, a new genus of terrestrial ovenbird (Aves: Passeriformes: Furnariidae)." Zootaxa 2213: 64–68.
  9. Eliáš, M., and Neustupa, J. (2009) "Pseudomarvania gen. nov. (Chlorophyta, Trebouxiophyceae), a new genus for the “budding” subaerial green algae Marvania aerophytica Neustupa & Šejnohová and Stichococcus ampulliformis Handa." Fottea 9:169-177.
  10. Ali, F. and Meier, R. (2009) "Primate home range and GRIN2A, a receptor gene involved in neuronal plasticity: implications for the evolution of spatial memory." Genes, Brain and Behavior, 8: 435-441.
  11. Pie, M.R., Baggio, R.A., Boeger, W.A., Patella, L. A., Ostrensky, A., Vitule, J. R. S., and Abilhoa, V. (2009) "Molecular data reveal a diverse species complex in the upper Iguaçu River." Journal of Fish Biology 75:2357-2362.
  12. Townsend, T.M., Vieites, D.R., Glaw, F., Vences, M. (2009) "Testing species-level diversification hypotheses in Madagascar: The case of microendemic Brookesia leaf chameleons." Systematic Biology 58, 641-656.
  13. Zhang, Y., Schoch, C.L., Fournier, J., Crous, P.W., de Gruyter, J., Woudenberg, J.H., Hirayama, K., Tanaka, K., Pointing, S.B., Spatafora, J.W. and Hyde, K.D. (2009) "Multi-locus phylogeny of Pleosporales: a taxonomic, ecological and evolutionary re-evaluation." Stud Mycol. 64: 85-102S5.
  14. Hea, M., Fengb, J-C., Liuc, S.-Y., Guod, P., Zhao, E-M. (2009) "The phylogenetic position of Thermophis (Serpentes: Colubridae), an endemic snake from the Qinghai-Xizang Plateau." China.Journal of Natural History 43: 479-488.
  15. Hayes, K.A., Cowie, R.H., and Thiengo, S.C. (2009) "A global phylogeny of apple snails: Gondwanan origin, generic relationships and the influence of outgroup choice (Caenogastropoda: Ampullariidae)." Biological Journal of the Linnean Society 98:61-76.
  16. Hayes, K.A. (2009) "Evolution, molecular systematics and invasion biology of Ampullariidae." Ph.d. Dissertation. University of Hawaii, Department of Zoology. Honolulu, HI.
  17. Crews, S.C., Puente-Rolon, A.R., Rutstein, E., Gillespie, R.G. (2009) "A comparison of populations of island and adjacent mainland species of Caribbean Selenops (Araneae: Selenopidae) spiders." Molecular Phylogenetics and Evolution 54: 970-983.
  18. Rosauer, D., Laffan, S.W., Crisp, M.D., Donnellan, S.C., and Cook, L.G. (2009) "Phylogenetic endemism: a new approach for identifying geographical concentrations of evolutionary history." Molecular Ecology 18:4061-4072.
  19. Kuzmina, M., Johnson, K., Barron, H., and Hebert, P. (2009) "A DNA Barcode Reference Library for the Vascular Plants of Churchill, Manitoba." Oral presentation at CBA ABC meeting in Ottawa.
  20. Bracken, H.D., Toon, A., Felder, D., Martin, J., Finley, M., Rasmussen, J., Palero, F., and Crandall, K.A. (2009) "The Decapod Tree of Life: Compiling the data and moving toward a consensus of decapod evolution." Arthropod Phylogenetics and Systematics 67 (1) 99-116.
  21. Bracken, H.D., De Grave, S., and Felder, D.L. (2009) "Phylogeny of the infraorder Caridea based on mitochondrial and nuclear genes (Crustacea: Decapoda)." In: J. MARTIN, K.A. CRANDALL, D.L. FELDER (eds.). Decapod Crustacean Phylogenetics (Crustacean Issues), Taylor and Francis/CRC Press, Bocan Raton. Pp. 281-305.
  22. Wong, M.K.S., and Takei, Y. (2009) "Cyclostome and chondrichthyan adrenomedullins reveal ancestral features of the adrenomedullin family." Comp Biochem Physiol B 154:317-325.
  23. Foltz, D. W. and Mah, C. L. (2009) "Recent relaxation of purifying selection on the tandem-repetitive early-stage histone H3 gene in brooding sea stars" Marine Genomics 2:113-118. [abstract]
  24. Schoch, C. L., Crous, P.W., Groenewald, J.Z., Boehm, E.W.A., Burgess, T.I., De Gruyter, J., de Hoog, G.S., Dixon, L.J., Grube, M., Gueidan, C., Harada, Y., Hatakeyama, S., Hirayama, S., Hosoya, T., Hyde, K.D., Jones, E.B.G., Kohlmeyer, J., Kruys, Å., Lücking, R., Lumbsch, H.T., Lutzoni, F., Marvanová, L., McVay, A.H., Mbatchou, J.S., Miller, A.N. , Mugambi, G.K., Muggia, L., Nelsen, M.P., Nelson, P., Owensby, C A., Li, Y.M.,. Phillips, A.J.L, Phongpaichit, S., Pointing, S.B., Pujade-Renaud, V., Raja, H.A., Rivas Plata, E., Robbertse, B., Ruibal, C., Sakayaroj, J., Sano, T., Selbmann, L., Shearer, C.A., Shirouzu, T., Slippers, B., Suetrong, S., Tanaka, K., Volkmann-Kohlmeyer, B., Wingfield, M.J., Wood, A.R., Woudenberg, J.H.C., Yonezawa, H., Zhang, Y., Spatafora, J.W. (2009) "A class-wide phylogenetic assessment of Dothideomycetes." Studies in Mycology 64:1–15. [abstract]
  25. Shearer, C.A., Raja, H.A., Miller, A.N., Nelson, P., Tanaka, K. Hirayama, K., Marvanová, L., Hyde, K. D. and Zhang Y. (2009) "The molecular phylogeny of freshwater Dothideomycetes". Studies in Mycology: 64:145–153. [abstract]
  26. Boehm, E.W.A., Mugambi, G.K., Miller, A.N. Huhndorf, S.M., Marincowitz, S., Spatafora, J.W., and Schoch, C.L. (2009) "A molecular phylogenetic reappraisal of the Hysteriaceae, Mytilinidiaceae and Gloniaceae (Pleosporomycetidae, Dothideomycetes) with keys to world species." Studies in Mycology 64:49–83. [pdf]
  27. Kress W.J., D.L. Erickson, N. A. Swensen, F.A. Jones, O. Sanjur, and E. Bermingham. (2009) "Plant DNA Barcodes and a Community Phylogeny of a Tropical Forest Dynamics Plot in Panama." Proceedings of the National Academy of Sciences, 106: 18621-18626. {article]
  28. Taylor, D. J. and Bruenn, J. (2009) "The evolution of novel fungal genes from non-retroviral RNA viruses." BMC Biology 7:88 [pdf]
  29. Stockinger H, Walker C, Schüßler A (2009) "Glomus intraradices DAOM197198', a model fungus in arbuscular mycorrhiza research, is not Glomus intraradices."
    New Phytologist 183:1176-1187. [pdf]
  30. Parks, M., Cronn, R., and Liston, A. (2009) "Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes." BMC Biology 7:84 [pdf]
  31. Ruibal, C., Gueidan, C., Selbmann, L., Gorbushina, A.A., Crous, P.W., Groenewald, J.Z., Muggia, L., Grube, M., Isola, D., Schoch, C.L., Staley, J.T., Lutzoni, F., De Hoog, G.S. (2009) Phylogeny of rock-inhabiting fungi related to Dothideomycetes. Studies in Mycology 64:123-133. [pdf]
  32. Pang, P.S., Planet, P.J., and Glenn, J.S. (2009) "The Evolution of the Major Hepatitis C Genotypes Correlates with Clinical Response to Interferon Therapy" PLoS ONE 4(8): e6579. [citation] [pdf]
  33. McKenna, D.D., Sequeira, A.S., Marvaldi, A.E., and Farrell, B.D. (2009). "Temporal lags and overlap in the diversification of weevils and flowering plants." PNAS. 106(17):7083-7088. [citation] [abstract]
  34. Van der Merwe, M.M., Kinnear, M.W., Barrett, L.G., Dodds, P.N., Ericson, L., Thrall, P.H., and Burdon, J.J., "Positive selection in AvrP4 avirulence gene homologues across the genus Melampsora" Proc. R. Soc. B 276:2913-2922. [citation] [abstract]
  35. Zimkus, B.M. (2009) "Patterns of speciation and diversity among African frogs (genus Phrynobatrachus)." Ph.D. dissertation, Harvard University.
  36. Toon, A., Finley, M., Staples, J., and Crandall, K.A. (2009) "Decapod phylogenetics and molecular evolution" in Decapod Crustacean Phylogenetics (Crustacean Issues) (J. Martin, D. L. Felder, and K. A. Crandall, eds.). CRC Press, Bocan Raton. pp.15-30.
  37. Felder DL, Robles R. (2009) "Molecular Phylogeny of Callianassidae." in Decapod Crustacean Phylogenetics (Crustacean Issues) (J. Martin, D. L. Felder, and K. A. Crandall, eds.). CRC Press, Bocan Raton. pp. 327-342.
  38. Robles R, Tudge CC, Dworschak PC, Poore GCB, Felder DL. "Molecular phylogeny of the Thalassinidea based on nuclear and mitochondrial genes." in Decapod Crustacean Phylogenetics (Crustacean Issues) (J. Martin, D. L. Felder, and K. A. Crandall, eds.). CRC Press, Bocan Raton. pp. 309-326.
  39. Dolapsakis, N. and Economou-Amilli, A. (2009) "A new marine species of Amphidinium (Dinophyceae) from Thermaikos Gulf, Greece." Acta Protozoologica 48(2):91-190. [abstract]
  40. Klassen, J.L. (2009) "Carotenoid diversity in novel Hymenobacter strains isolated from Victoria Upper Glacier, Antarctica, and implications for the evolution of microbial carotenoid biosynthesis." PhD thesis, University of Alberta, Edmonton, Canada.
  41. Klassen, J.L. (2009) "Pathway evolution by horizontal transfer and positive selection is accommodated by relaxed negative selection upon upstream pathway genes in purple bacterial carotenoid biosynthesis." J. Bacteriol. 191: 7500-7508 . [citation] [abstract]
  42. Spinks, P.Q. and Shaffer, H.B. (2009). "Conflicting mitochondrial and nuclear phylogenies for the widely disjunct Emys (Testudines: Emydidae) species complex, and what they tell us about biogeography and hybridization." Syst. Biol. 58(1):1–20. [citation] [abstract]
  43. Spinks, P.Q., Thomson, R.C., Lovely, G.A. and Shaffer, H.B. (2009) "Assessing what is needed to resolve a molecular phylogeny: simulations and empirical data from emydid turtles." BMC Evolutionary Biology 9:56. doi:10.1186/1471-2148-9-56. [citation] [abstract] [pdf]
  44. Hibbett, D.S. and Matheny, P.B. (2009) "The relative ages of ectomycorrhizal mushrooms and their plant hosts estimated using Bayesian relaxed molecular clock analyses." BMC Biology 7:13 doi:10.1186/1741-7007-7-13. [citation] [abstract] [pdf]
  45. Elias M. and Archibald J. M. (2009) "The RJL family of small GTPases is an ancient eukaryotic invention probably functionally associated with the flagellar apparatus." Gene 442(1-2):63-72. Epub 2009 Apr 22. doi:10.1016/j.gene.2009.04.011 [abstract] [publication]
  46. Gile, G.H., Novis, P.M., Cragg D.S., Zuccarello G.C., Keeling P.J. (2009) "The distribution of EF-1alpha, EFL, and a non-canonical genetic code in the Ulvophyceae: Discrete genetic characters support a consistent phylogenetic framework." J. Eukaryot. Microbiol. 56(4):367-372. [citation] [abstract]
  47. Weirauch, C. and Munro, J. (2009) "Molecular phylogeny of the assassin bugs (Hemiptera: Reduviidae), based on mitochondrial and nuclear ribosomal genes." Molecular Phylogenetics & Evolution 53:287-299. doi:10.1016/j.ympev.2009.05.039 [abstract]
  48. Wilson, N. G., Rouse, G. W., and Giribet, G. (2009) "Assessing the molluscan hypothesis Serialia (Monoplacophora + Polyplacophora) using novel molecular data." Mol Phylogenet Evol. Jul 30. [Epub ahead of print]. doi:10.1016/j.ympev.2009.07.028 [abstract]
  49. Segade, F. (2009) "Functional evolution of the microfibril-associated glycoproteins." Gene 439:43–54. [abstract]
  50. Welsh, A.K., Dawson, J.O., Gottfried, G.J., and Hahn, D. "Diversity of Frankia in root nodules of geographically isolated Arizona alder in central Arizona (USA)." Appl. Env. Microbiol.. 75(21): 6913-6918. [citation] [abstract]
  51. Mirza, B.S., Welsh, A.K., and Hahn, D. (2009) "Growth of Frankia strains in leaf litter-amended soil and the rhizosphere of a nonactinorhizal plant." FEMS Microbiology Ecology 70:132-141 Epub 2009 Jul 21. [citation] [abstract]
  52. Welsh, A.K, B.S. Mirza, J.P. Rieder, M.W. Paschke, D. Hahn. (2009) "Diversity of frankiae in nodules of Morella pensylvanica grown in soils from five continents." Systematic and Applied Microbiology 32: 201-210. doi:10.1016/j.syapm.2009.01.002  [abstract]
  53. Mirza, B.S., A.K. Welsh, G. Rasul, J.P. Rieder, M.W. Paschke, D. Hahn. (2009) "Variation in Frankia populations of the Elaeagnus host infection group in nodules of six host plant species after inoculation with soil." Microbial Ecology 58:384-393. doi:10.1007/s00248-009-9513-0 [abstract]
  54. Li, J-t., Che, J., Murphy, R.W., Zhao, H., Zhao, E.-m., Rao, D.-q., and Zhang, Y.-p. (2009) "New insights to the molecular phylogenetics and generic assessment in the Rhacophoridae (Amphibia: Anura) based on five nuclear and three mitochondrial genes, with comments on the evolution of reproduction." Molecular Phylogenetics and Evolution 53:509–522. doi:10.1016/j.ympev.2009.06.023 [abstract]
  55. Murienne, J., Karaman, I., and Giribet, G. (2009) "Explosive evolution of an ancient group of Cyphophthalmi (Arachnida: Opiliones) in the Balkan Peninsula." J. Biogeography Published online, Oct 14, 2009 [citation] [abstract]
  56. Schulte II, J.A., and Cartwright, E.M. (2009) Phylogenetic relationships among iguanian lizards using alternative partitioning methods and TSHZ1: A new phylogenetic marker for reptiles. Molecular Phylogenetics and Evolution 50:391-396. doi:10.1016/j.ympev.2008.10.018 [abstract]
  57. Armbruster, W.S., Leed,J., and Baldwind, B.G. (2009) "Macroevolutionary patterns of defense and pollination in Dalechampia vines: Adaptation, exaptation, and evolutionary novelty" Proc. Natl. Acad. Sci USA. Oct 19 e-pub ahead of publication. [abstract]
  58. Zimkus, B.M., Rödel, M.-C., and Hillers, A. (2009) Complex patterns of continental speciation: molecular phylogenetics and biogeography of sub-Saharan puddle frogs (Phrynobatrachus) manuscript submitted.
  59. Chen, W.-J., Lheknim, V. and Mayden, R. L. (2009). "Molecular phylogeny of the Cobitoidea (Teleostei: Cypriniformes) revisited: position of enigmatic loach Ellopostoma Vaillant resolved with six nuclear genes." Journal of Fish Biology 75(9):2197-208.
  60. Chen, W.-J. and Mayden, R. L. (2009). Molecular systematics of the Cyprinoidea (Teleostei: Cypriniformes), the world’s largest clade of freshwater fishes: Further evidence from six nuclear genes. Molecular Phylogenetics and Evolution 52, 544-549. doi:10.1016/j.ympev.2009.01.006   
  61. Mayden, R. L., Chen, W.-J., Bart, H. L., Doosey, M. H., Simons, A. M., Tang, K. L., Wood, R. M., Agnew, M. K., Yang, L., Hirt, M. V., Clements, M. D., Saitoh, K., Sado, T., Miya, M. and Nishida, M. (2009). "Reconstructing the phylogenetic relationships of the Earth’s most diverse clade of freshwater fishes — Order Cypriniformes (Actinopterygii: Ostariophysi): a case study using multiple nuclear loci and the mitochondrial genome." Molecular Phylogenetics and Evolution 51, 500-514. doi:10.1016/j.ympev.2008.12.015    

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