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Males, Outcrossing, and Sexual Selection in Caenorhabditis Nematodes.

Cutter AD, Morran LT, Phillips PC.

Genetics. 2019 Sep;213(1):27-57. doi: 10.1534/genetics.119.300244.


Molecular evolution across developmental time reveals rapid divergence in early embryogenesis.

Cutter AD, Garrett RH, Mark S, Wang W, Sun L.

Evol Lett. 2019 Jun 19;3(4):359-373. doi: 10.1002/evl3.122. eCollection 2019 Aug.


Reproductive transitions in plants and animals: selfing syndrome, sexual selection and speciation.

Cutter AD.

New Phytol. 2019 Jul 23. doi: 10.1111/nph.16075. [Epub ahead of print]


Genome structure predicts modular transcriptome responses to genetic and environmental conditions.

Mark S, Weiss J, Sharma E, Liu T, Wang W, Claycomb JM, Cutter AD.

Mol Ecol. 2019 Aug;28(16):3681-3697. doi: 10.1111/mec.15185. Epub 2019 Aug 5.


Neuro-genetic plasticity of Caenorhabditis elegans behavioral thermal tolerance.

Stegeman GW, Medina D, Cutter AD, Ryu WS.

BMC Neurosci. 2019 Jun 10;20(1):26. doi: 10.1186/s12868-019-0510-z.


Genetically Distinct Behavioral Modules Underlie Natural Variation in Thermal Performance Curves.

Stegeman GW, Baird SE, Ryu WS, Cutter AD.

G3 (Bethesda). 2019 Jul 9;9(7):2135-2151. doi: 10.1534/g3.119.400043.


Plasminogen Activator Inhibitor 1 (PAI1) Promotes Actin Cytoskeleton Reorganization and Glycolytic Metabolism in Triple-Negative Breast Cancer.

Humphries BA, Buschhaus JM, Chen YC, Haley HR, Qyli T, Chiang B, Shen N, Rajendran S, Cutter A, Cheng YH, Chen YT, Cong J, Spinosa PC, Yoon E, Luker KE, Luker GD.

Mol Cancer Res. 2019 May;17(5):1142-1154. doi: 10.1158/1541-7786.MCR-18-0836. Epub 2019 Feb 4.


Demographic consequences of reproductive interference in multi-species communities.

Ting JJ, Cutter AD.

BMC Ecol. 2018 Nov 6;18(1):46. doi: 10.1186/s12898-018-0201-0.


Genetic Contributions to Ectopic Sperm Cell Migration in Caenorhabditis Nematodes.

Ting JJ, Tsai CN, Schalkowski R, Cutter AD.

G3 (Bethesda). 2018 Dec 10;8(12):3891-3902. doi: 10.1534/g3.118.200785.


Genetic basis to hybrid inviability is more complex than hybrid male sterility in Caenorhabditis nematodes.

Bundus JD, Wang D, Cutter AD.

Heredity (Edinb). 2018 Aug;121(2):169-182. doi: 10.1038/s41437-018-0069-y. Epub 2018 Apr 7.


Rapid genome shrinkage in a self-fertile nematode reveals sperm competition proteins.

Yin D, Schwarz EM, Thomas CG, Felde RL, Korf IF, Cutter AD, Schartner CM, Ralston EJ, Meyer BJ, Haag ES.

Science. 2018 Jan 5;359(6371):55-61. doi: 10.1126/science.aao0827.


Ephemeral-habitat colonization and neotropical species richness of Caenorhabditis nematodes.

Ferrari C, Salle R, Callemeyn-Torre N, Jovelin R, Cutter AD, Braendle C.

BMC Ecol. 2017 Dec 19;17(1):43. doi: 10.1186/s12898-017-0150-z.


X exceptionalism in Caenorhabditis speciation.

Cutter AD.

Mol Ecol. 2018 Oct;27(19):3925-3934. doi: 10.1111/mec.14423. Epub 2017 Dec 9.


HMGN1 and 2 remodel core and linker histone tail domains within chromatin.

Murphy KJ, Cutter AR, Fang H, Postnikov YV, Bustin M, Hayes JJ.

Nucleic Acids Res. 2017 Sep 29;45(17):9917-9930. doi: 10.1093/nar/gkx579.


Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1.

Bednar J, Garcia-Saez I, Boopathi R, Cutter AR, Papai G, Reymer A, Syed SH, Lone IN, Tonchev O, Crucifix C, Menoni H, Papin C, Skoufias DA, Kurumizaka H, Lavery R, Hamiche A, Hayes JJ, Schultz P, Angelov D, Petosa C, Dimitrov S.

Mol Cell. 2017 Jun 1;66(5):729. doi: 10.1016/j.molcel.2017.05.018. No abstract available.


Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1.

Bednar J, Garcia-Saez I, Boopathi R, Cutter AR, Papai G, Reymer A, Syed SH, Lone IN, Tonchev O, Crucifix C, Menoni H, Papin C, Skoufias DA, Kurumizaka H, Lavery R, Hamiche A, Hayes JJ, Schultz P, Angelov D, Petosa C, Dimitrov S.

Mol Cell. 2017 May 4;66(3):384-397.e8. doi: 10.1016/j.molcel.2017.04.012. Erratum in: Mol Cell. 2017 Jun 1;66(5):729.


Linker histones: novel insights into structure-specific recognition of the nucleosome.

Cutter AR, Hayes JJ.

Biochem Cell Biol. 2017 Apr;95(2):171-178. doi: 10.1139/bcb-2016-0097. Epub 2016 Jun 29. Review.


Convergent evolution of sperm gigantism and the developmental origins of sperm size variability in Caenorhabditis nematodes.

Vielle A, Callemeyn-Torre N, Gimond C, Poullet N, Gray JC, Cutter AD, Braendle C.

Evolution. 2016 Nov;70(11):2485-2503. doi: 10.1111/evo.13043. Epub 2016 Sep 14.


Ephemeral ecological speciation and the latitudinal biodiversity gradient.

Cutter AD, Gray JC.

Evolution. 2016 Oct;70(10):2171-2185. doi: 10.1111/evo.13030. Epub 2016 Aug 23.


Hitting two birds with one stone: The unforeseen consequences of nested gene knockouts in Caenorhabditis elegans.

Jovelin R, Cutter AD.

Worm. 2016 Apr 6;5(2):e1156835. doi: 10.1080/21624054.2016.1156835. eCollection 2016 Apr-Jun.


Comparative genomic analysis of upstream miRNA regulatory motifs in Caenorhabditis.

Jovelin R, Krizus A, Taghizada B, Gray JC, Phillips PC, Claycomb JM, Cutter AD.

RNA. 2016 Jul;22(7):968-78. doi: 10.1261/rna.055392.115. Epub 2016 May 2.


When natural selection gives gene function the cold shoulder.

Cutter AD, Jovelin R.

Bioessays. 2015 Nov;37(11):1169-73. doi: 10.1002/bies.201500083. Epub 2015 Sep 28. Review.


Correction: Reproductive Mode and the Evolution of Genome Size and Structure in Caenorhabditis Nematodes.

Fierst JL, Willis JH, Thomas CG, Wang W, Reynolds RM, Ahearne TE, Cutter AD, Phillips PC.

PLoS Genet. 2015 Sep 22;11(9):e1005497. doi: 10.1371/journal.pgen.1005497. eCollection 2015 Sep. No abstract available.


Caenorhabditis evolution in the wild.

Cutter AD.

Bioessays. 2015 Sep;37(9):983-95. doi: 10.1002/bies.201500053. Epub 2015 Jun 30. Review.


Reproductive Mode and the Evolution of Genome Size and Structure in Caenorhabditis Nematodes.

Fierst JL, Willis JH, Thomas CG, Wang W, Reynolds RM, Ahearne TE, Cutter AD, Phillips PC.

PLoS Genet. 2015 Jun 26;11(6):e1005323. doi: 10.1371/journal.pgen.1005323. eCollection 2015 Jun. Erratum in: PLoS Genet. 2015 Sep;11(9):e1005497.


Gametic selection, developmental trajectories, and extrinsic heterogeneity in Haldane's rule.

Bundus JD, Alaei R, Cutter AD.

Evolution. 2015 Aug;69(8):2005-17. doi: 10.1111/evo.12708. Epub 2015 Jul 17.


A brief review of nucleosome structure.

Cutter AR, Hayes JJ.

FEBS Lett. 2015 Oct 7;589(20 Pt A):2914-22. doi: 10.1016/j.febslet.2015.05.016. Epub 2015 May 14. Review.


Repeatability, ephemerality and inconvenient truths in the speciation process.

Cutter AD.

Mol Ecol. 2015 Apr;24(8):1643-4. doi: 10.1111/mec.13163.


Full-genome evolutionary histories of selfing, splitting, and selection in Caenorhabditis.

Thomas CG, Wang W, Jovelin R, Ghosh R, Lomasko T, Trinh Q, Kruglyak L, Stein LD, Cutter AD.

Genome Res. 2015 May;25(5):667-78. doi: 10.1101/gr.187237.114. Epub 2015 Mar 17.


Comparative functional characterization of the CSR-1 22G-RNA pathway in Caenorhabditis nematodes.

Tu S, Wu MZ, Wang J, Cutter AD, Weng Z, Claycomb JM.

Nucleic Acids Res. 2015 Jan;43(1):208-24. doi: 10.1093/nar/gku1308. Epub 2014 Dec 15.


Microevolution of nematode miRNAs reveals diverse modes of selection.

Jovelin R, Cutter AD.

Genome Biol Evol. 2014 Oct 28;6(11):3049-63. doi: 10.1093/gbe/evu239.


Gonad morphogenesis defects drive hybrid male sterility in asymmetric hybrid breakdown of Caenorhabditis nematodes.

Dey A, Jin Q, Chen YC, Cutter AD.

Evol Dev. 2014 Nov-Dec;16(6):362-72. doi: 10.1111/ede.12097. Epub 2014 Sep 8.


Intense sperm-mediated sexual conflict promotes reproductive isolation in Caenorhabditis nematodes.

Ting JJ, Woodruff GC, Leung G, Shin NR, Cutter AD, Haag ES.

PLoS Biol. 2014 Jul 29;12(7):e1001915. doi: 10.1371/journal.pbio.1001915. eCollection 2014 Jul.


Mapping the putative G protein-coupled receptor (GPCR) docking site on GPCR kinase 2: insights from intact cell phosphorylation and recruitment assays.

Beautrait A, Michalski KR, Lopez TS, Mannix KM, McDonald DJ, Cutter AR, Medina CB, Hebert AM, Francis CJ, Bouvier M, Tesmer JJ, Sterne-Marr R.

J Biol Chem. 2014 Sep 5;289(36):25262-75. doi: 10.1074/jbc.M114.593178. Epub 2014 Jul 21.


Comparative validation of the D. melanogaster modENCODE transcriptome annotation.

Chen ZX, Sturgill D, Qu J, Jiang H, Park S, Boley N, Suzuki AM, Fletcher AR, Plachetzki DC, FitzGerald PC, Artieri CG, Atallah J, Barmina O, Brown JB, Blankenburg KP, Clough E, Dasgupta A, Gubbala S, Han Y, Jayaseelan JC, Kalra D, Kim YA, Kovar CL, Lee SL, Li M, Malley JD, Malone JH, Mathew T, Mattiuzzo NR, Munidasa M, Muzny DM, Ongeri F, Perales L, Przytycka TM, Pu LL, Robinson G, Thornton RL, Saada N, Scherer SE, Smith HE, Vinson C, Warner CB, Worley KC, Wu YQ, Zou X, Cherbas P, Kellis M, Eisen MB, Piano F, Kionte K, Fitch DH, Sternberg PW, Cutter AD, Duff MO, Hoskins RA, Graveley BR, Gibbs RA, Bickel PJ, Kopp A, Carninci P, Celniker SE, Oliver B, Richards S.

Genome Res. 2014 Jul;24(7):1209-23. doi: 10.1101/gr.159384.113.


A streamlined system for species diagnosis in Caenorhabditis (Nematoda: Rhabditidae) with name designations for 15 distinct biological species.

Félix MA, Braendle C, Cutter AD.

PLoS One. 2014 Apr 11;9(4):e94723. doi: 10.1371/journal.pone.0094723. eCollection 2014. Erratum in: PLoS One. 2015;10(3):e0118327.


A recent global selective sweep on the age-1 phosphatidylinositol 3-OH kinase regulator of the insulin-like signaling pathway within Caenorhabditis remanei.

Jovelin R, Comstock JS, Cutter AD, Phillips PC.

G3 (Bethesda). 2014 Apr 11;4(6):1123-33. doi: 10.1534/g3.114.010629.


Mainstreaming Caenorhabditis elegans in experimental evolution.

Gray JC, Cutter AD.

Proc Biol Sci. 2014 Jan 15;281(1778):20133055. doi: 10.1098/rspb.2013.3055. Print 2014 Mar 7. Review.


Specialist versus generalist life histories and nucleotide diversity in Caenorhabditis nematodes.

Li S, Jovelin R, Yoshiga T, Tanaka R, Cutter AD.

Proc Biol Sci. 2014 Jan 8;281(1777):20132858. doi: 10.1098/rspb.2013.2858. Print 2014 Feb 22.


Outbreeding depression with low genetic variation in selfing Caenorhabditis nematodes.

Gimond C, Jovelin R, Han S, Ferrari C, Cutter AD, Braendle C.

Evolution. 2013 Nov;67(11):3087-101. doi: 10.1111/evo.12203. Epub 2013 Jul 24.


Integrating phylogenetics, phylogeography and population genetics through genomes and evolutionary theory.

Cutter AD.

Mol Phylogenet Evol. 2013 Dec;69(3):1172-85. doi: 10.1016/j.ympev.2013.06.006. Epub 2013 Jun 22.


Molecular hyperdiversity defines populations of the nematode Caenorhabditis brenneri.

Dey A, Chan CK, Thomas CG, Cutter AD.

Proc Natl Acad Sci U S A. 2013 Jul 2;110(27):11056-60. doi: 10.1073/pnas.1303057110. Epub 2013 Jun 17.


Fine-scale signatures of molecular evolution reconcile models of indel-associated mutation.

Jovelin R, Cutter AD.

Genome Biol Evol. 2013;5(5):978-86. doi: 10.1093/gbe/evt051.


Molecular hyperdiversity and evolution in very large populations.

Cutter AD, Jovelin R, Dey A.

Mol Ecol. 2013 Apr;22(8):2074-95. doi: 10.1111/mec.12281. Epub 2013 Mar 18.


Genomic signatures of selection at linked sites: unifying the disparity among species.

Cutter AD, Payseur BA.

Nat Rev Genet. 2013 Apr;14(4):262-74. doi: 10.1038/nrg3425. Epub 2013 Mar 12. Review.


Species richness, distribution and genetic diversity of Caenorhabditis nematodes in a remote tropical rainforest.

Félix MA, Jovelin R, Ferrari C, Han S, Cho YR, Andersen EC, Cutter AD, Braendle C.

BMC Evol Biol. 2013 Jan 12;13:10. doi: 10.1186/1471-2148-13-10.


Temperature-dependent behaviours are genetically variable in the nematode Caenorhabditis briggsae.

Stegeman GW, de Mesquita MB, Ryu WS, Cutter AD.

J Exp Biol. 2013 Mar 1;216(Pt 5):850-8. doi: 10.1242/jeb.075408. Epub 2012 Nov 15.


Global population genetic structure of Caenorhabditis remanei reveals incipient speciation.

Dey A, Jeon Y, Wang GX, Cutter AD.

Genetics. 2012 Aug;191(4):1257-69. doi: 10.1534/genetics.112.140418. Epub 2012 May 29.


Gene duplication in the evolution of sexual dimorphism.

Wyman MJ, Cutter AD, Rowe L.

Evolution. 2012 May;66(5):1556-66. doi: 10.1111/j.1558-5646.2011.01525.x. Epub 2012 Jan 12.


Genetic variation for postzygotic reproductive isolation between Caenorhabditis briggsae and Caenorhabditis sp. 9.

Kozlowska JL, Ahmad AR, Jahesh E, Cutter AD.

Evolution. 2012 Apr;66(4):1180-95. doi: 10.1111/j.1558-5646.2011.01514.x. Epub 2011 Dec 12.


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