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Results: 1 to 20 of 51

1.

The advantages of going large: genome-wide SNPs clarify the complex population history and systematics of the threatened western pond turtle.

Spinks PQ, Thomson RC, Shaffer HB.

Mol Ecol. 2014 May;23(9):2228-41. doi: 10.1111/mec.12736. Epub 2014 Apr 18.

PMID:
24673803
[PubMed - indexed for MEDLINE]
2.

Delayed life history effects, multilevel selection, and evolutionary trade-offs in the California tiger salamander.

Searcy CA, Gray LN, Trenham PC, Shaffer HB.

Ecology. 2014 Jan;95(1):68-77.

PMID:
24649647
[PubMed - indexed for MEDLINE]
3.

Misleading phylogenetic inferences based on single-exemplar sampling in the turtle genus Pseudemys.

Spinks PQ, Thomson RC, Pauly GB, Newman CE, Mount G, Shaffer HB.

Mol Phylogenet Evol. 2013 Aug;68(2):269-81. doi: 10.1016/j.ympev.2013.03.031. Epub 2013 Apr 12.

PMID:
23583419
[PubMed - indexed for MEDLINE]
4.

The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage.

Shaffer HB, Minx P, Warren DE, Shedlock AM, Thomson RC, Valenzuela N, Abramyan J, Amemiya CT, Badenhorst D, Biggar KK, Borchert GM, Botka CW, Bowden RM, Braun EL, Bronikowski AM, Bruneau BG, Buck LT, Capel B, Castoe TA, Czerwinski M, Delehaunty KD, Edwards SV, Fronick CC, Fujita MK, Fulton L, Graves TA, Green RE, Haerty W, Hariharan R, Hernandez O, Hillier LW, Holloway AK, Janes D, Janzen FJ, Kandoth C, Kong L, de Koning AP, Li Y, Literman R, McGaugh SE, Mork L, O'Laughlin M, Paitz RT, Pollock DD, Ponting CP, Radhakrishnan S, Raney BJ, Richman JM, St John J, Schwartz T, Sethuraman A, Spinks PQ, Storey KB, Thane N, Vinar T, Zimmerman LM, Warren WC, Mardis ER, Wilson RK.

Genome Biol. 2013 Mar 28;14(3):R28. doi: 10.1186/gb-2013-14-3-r28.

PMID:
23537068
[PubMed - in process]
Free PMC Article
5.

Lethal effects of water quality on threatened California salamanders but not on co-occurring hybrid salamanders.

Ryan ME, Johnson JR, Fitzpatrick BM, Lowenstine LJ, Picco AM, Shaffer HB.

Conserv Biol. 2013 Feb;27(1):95-102. doi: 10.1111/j.1523-1739.2012.01955.x. Epub 2012 Nov 9.

PMID:
23140535
[PubMed - indexed for MEDLINE]
6.

Parallel tagged amplicon sequencing reveals major lineages and phylogenetic structure in the North American tiger salamander (Ambystoma tigrinum) species complex.

O'Neill EM, Schwartz R, Bullock CT, Williams JS, Shaffer HB, Aguilar-Miguel X, Parra-Olea G, Weisrock DW.

Mol Ecol. 2013 Jan;22(1):111-29. doi: 10.1111/mec.12049. Epub 2012 Oct 12.

PMID:
23062080
[PubMed - indexed for MEDLINE]
7.

Thyroid hormone responsive QTL and the evolution of paedomorphic salamanders.

Voss SR, Kump DK, Walker JA, Shaffer HB, Voss GJ.

Heredity (Edinb). 2012 Nov;109(5):293-8. doi: 10.1038/hdy.2012.41. Epub 2012 Aug 1.

PMID:
22850698
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Species boundaries and phylogenetic relationships in the critically endangered Asian box turtle genus Cuora.

Spinks PQ, Thomson RC, Zhang Y, Che J, Wu Y, Shaffer HB.

Mol Phylogenet Evol. 2012 Jun;63(3):656-67.

PMID:
22649793
[PubMed - indexed for MEDLINE]
9.

A new species of leopard frog (Anura: Ranidae) from the urban northeastern US.

Newman CE, Feinberg JA, Rissler LJ, Burger J, Shaffer HB.

Mol Phylogenet Evol. 2012 May;63(2):445-55. doi: 10.1016/j.ympev.2012.01.021. Epub 2012 Feb 2.

PMID:
22321689
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Landscape genetics of alpine Sierra Nevada salamanders reveal extreme population subdivision in space and time.

Savage WK, Fremier AK, Shaffer HB.

Mol Ecol. 2010 Aug;19(16):3301-14. doi: 10.1111/j.1365-294X.2010.04718.x.

PMID:
20701683
[PubMed - indexed for MEDLINE]
11.

Sparse supermatrices for phylogenetic inference: taxonomy, alignment, rogue taxa, and the phylogeny of living turtles.

Thomson RC, Shaffer HB.

Syst Biol. 2010 Jan;59(1):42-58. doi: 10.1093/sysbio/syp075. Epub 2009 Nov 11.

PMID:
20525619
[PubMed - indexed for MEDLINE]
12.

Retention of low-fitness genotypes over six decades of admixture between native and introduced tiger salamanders.

Johnson JR, Fitzpatrick BM, Shaffer HB.

BMC Evol Biol. 2010 May 18;10:147. doi: 10.1186/1471-2148-10-147.

PMID:
20482794
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Rapid progress on the vertebrate tree of life.

Thomson RC, Shaffer HB.

BMC Biol. 2010 Mar 8;8:19. doi: 10.1186/1741-7007-8-19.

PMID:
20211001
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Rapid spread of invasive genes into a threatened native species.

Fitzpatrick BM, Johnson JR, Kump DK, Smith JJ, Voss SR, Shaffer HB.

Proc Natl Acad Sci U S A. 2010 Feb 23;107(8):3606-10. doi: 10.1073/pnas.0911802107. Epub 2010 Feb 2.

PMID:
20133596
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Nuclear gene phylogeography reveals the historical legacy of an ancient inland sea on lineages of the western pond turtle, Emys marmorata in California.

Spinks PQ, Thomson RC, Shaffer HB.

Mol Ecol. 2010 Feb;19(3):542-56. doi: 10.1111/j.1365-294X.2009.04451.x. Epub 2009 Dec 30.

PMID:
20051011
[PubMed - indexed for MEDLINE]
16.

Fourteen nuclear genes provide phylogenetic resolution for difficult nodes in the turtle tree of life.

Barley AJ, Spinks PQ, Thomson RC, Shaffer HB.

Mol Phylogenet Evol. 2010 Jun;55(3):1189-94. doi: 10.1016/j.ympev.2009.11.005. Epub 2009 Nov 12.

PMID:
19913628
[PubMed - indexed for MEDLINE]
17.

Rapid fixation of non-native alleles revealed by genome-wide SNP analysis of hybrid tiger salamanders.

Fitzpatrick BM, Johnson JR, Kump DK, Shaffer HB, Smith JJ, Voss SR.

BMC Evol Biol. 2009 Jul 24;9:176. doi: 10.1186/1471-2148-9-176.

PMID:
19630983
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Landscape genetics and least-cost path analysis reveal unexpected dispersal routes in the California tiger salamander (Ambystoma californiense).

Wang IJ, Savage WK, Shaffer HB.

Mol Ecol. 2009 Apr;18(7):1365-74. doi: 10.1111/j.1365-294X.2009.04122.x.

PMID:
19368644
[PubMed - indexed for MEDLINE]
19.

Assessing what is needed to resolve a molecular phylogeny: simulations and empirical data from emydid turtles.

Spinks PQ, Thomson RC, Lovely GA, Shaffer HB.

BMC Evol Biol. 2009 Mar 12;9:56. doi: 10.1186/1471-2148-9-56.

PMID:
19284630
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Conflicting mitochondrial and nuclear phylogenies for the widely disjunct Emys (Testudines: Emydidae) species complex, and what they tell us about biogeography and hybridization.

Spinks PQ, Shaffer HB.

Syst Biol. 2009 Feb;58(1):1-20. doi: 10.1093/sysbio/syp005. Epub 2009 May 28.

PMID:
20525565
[PubMed - indexed for MEDLINE]

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