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Genetic Determinants of RNA Editing Levels of ADAR Targets in Drosophila melanogaster.

Kurmangaliyev YZ, Ali S, Nuzhdin SV.

G3 (Bethesda). 2015 Dec 12;6(2):391-6. doi: 10.1534/g3.115.024471.


Postmating reproductive barriers contribute to the incipient sexual isolation of the United States and Caribbean Drosophila melanogaster.

Kao JY, Lymer S, Hwang SH, Sung A, Nuzhdin SV.

Ecol Evol. 2015 Aug;5(15):3171-82. doi: 10.1002/ece3.1596. Epub 2015 Jul 14.


The wright stuff: reimagining path analysis reveals novel components of the sex determination hierarchy in Drosophila melanogaster.

Fear JM, Arbeitman MN, Salomon MP, Dalton JE, Tower J, Nuzhdin SV, McIntyre LM.

BMC Syst Biol. 2015 Sep 4;9:53. doi: 10.1186/s12918-015-0200-0.


28 GBshape: a genome browser database for DNA shape annotations.

Chiu TP, Yang L, Zhou T, Main BJ, Parker SC, Nuzhdin SV, Tullius TD, Rohs R.

J Biomol Struct Dyn. 2015;33 Suppl 1:16. doi: 10.1080/07391102.2015.1032568. No abstract available.


Evolutionary genomics of Culex pipiens: global and local adaptations associated with climate, life-history traits and anthropogenic factors.

Asgharian H, Chang PL, Lysenkov S, Scobeyeva VA, Reisen WK, Nuzhdin SV.

Proc Biol Sci. 2015 Jul 7;282(1810). pii: 20150728. doi: 10.1098/rspb.2015.0728.


A Bayesian Approach to Social Structure Uncovers Cryptic Regulation of Group Dynamics in Drosophila melanogaster.

Foley BR, Saltz JB, Nuzhdin SV, Marjoram P.

Am Nat. 2015 Jun;185(6):797-808. doi: 10.1086/681084. Epub 2015 Apr 16.


Natural variation of gene models in Drosophila melanogaster.

Kurmangaliyev YZ, Favorov AV, Osman NM, Lehmann KV, Campo D, Salomon MP, Tower J, Gelfand MS, Nuzhdin SV.

BMC Genomics. 2015 Mar 17;16:198. doi: 10.1186/s12864-015-1415-6.


Population genomic analysis uncovers African and European admixture in Drosophila melanogaster populations from the south-eastern United States and Caribbean Islands.

Kao JY, Zubair A, Salomon MP, Nuzhdin SV, Campo D.

Mol Ecol. 2015 Apr;24(7):1499-509. doi: 10.1111/mec.13137.


The ecological genomic basis of salinity adaptation in Tunisian Medicago truncatula.

Friesen ML, von Wettberg EJ, Badri M, Moriuchi KS, Barhoumi F, Chang PL, Cuellar-Ortiz S, Cordeiro MA, Vu WT, Arraouadi S, Djébali N, Zribi K, Badri Y, Porter SS, Aouani ME, Cook DR, Strauss SY, Nuzhdin SV.

BMC Genomics. 2014 Dec 22;15:1160. doi: 10.1186/1471-2164-15-1160.


GBshape: a genome browser database for DNA shape annotations.

Chiu TP, Yang L, Zhou T, Main BJ, Parker SC, Nuzhdin SV, Tullius TD, Rohs R.

Nucleic Acids Res. 2015 Jan;43(Database issue):D103-9. doi: 10.1093/nar/gku977. Epub 2014 Oct 17.


Genetic variation in niche construction and its implications: response to Shuker.

Saltz JB, Nuzhdin SV.

Trends Ecol Evol. 2014 Jun;29(6):304-5. doi: 10.1016/j.tree.2014.03.009. Epub 2014 Apr 13. No abstract available.


What the X has to do with it: differences in regulatory variability between the sexes in Drosophila simulans.

Graze RM, McIntyre LM, Morse AM, Boyd BM, Nuzhdin SV, Wayne ML.

Genome Biol Evol. 2014 Apr;6(4):818-29. doi: 10.1093/gbe/evu060.


Population differentiation for germination and early seedling root growth traits under saline conditions in the annual legume Medicago truncatula (Fabaceae).

Cordeiro MA, Moriuchi KS, Fotinos TD, Miller KE, Nuzhdin SV, von Wettberg EJ, Cook DR.

Am J Bot. 2014 Mar;101(3):488-98. doi: 10.3732/ajb.1300285. Epub 2014 Mar 17.


Paternally transmitted mitochondria express a new gene of potential viral origin.

Milani L, Ghiselli F, Maurizii MG, Nuzhdin SV, Passamonti M.

Genome Biol Evol. 2014 Feb;6(2):391-405. doi: 10.1093/gbe/evu021.


Genomic changes under rapid evolution: selection for parasitoid resistance.

Jalvingh KM, Chang PL, Nuzhdin SV, Wertheim B.

Proc Biol Sci. 2014 Feb 5;281(1779):20132303. doi: 10.1098/rspb.2013.2303. Print 2014 Mar 22.


Promises and limitations of hitchhiking mapping.

Nuzhdin SV, Turner TL.

Curr Opin Genet Dev. 2013 Dec;23(6):694-9. doi: 10.1016/j.gde.2013.10.002. Epub 2013 Nov 12. Review.


Genetic variation in niche construction: implications for development and evolutionary genetics.

Saltz JB, Nuzhdin SV.

Trends Ecol Evol. 2014 Jan;29(1):8-14. doi: 10.1016/j.tree.2013.09.011. Epub 2013 Oct 11.


Whole-genome sequencing of two North American Drosophila melanogaster populations reveals genetic differentiation and positive selection.

Campo D, Lehmann K, Fjeldsted C, Souaiaia T, Kao J, Nuzhdin SV.

Mol Ecol. 2013 Oct;22(20):5084-97. doi: 10.1111/mec.12468. Epub 2013 Sep 19.


Structure, transcription, and variability of metazoan mitochondrial genome: perspectives from an unusual mitochondrial inheritance system.

Ghiselli F, Milani L, Guerra D, Chang PL, Breton S, Nuzhdin SV, Passamonti M.

Genome Biol Evol. 2013;5(8):1535-54. doi: 10.1093/gbe/evt112.


Nuclear genes with sex bias in Ruditapes philippinarum (Bivalvia, veneridae): Mitochondrial inheritance and sex determination in DUI species.

Milani L, Ghiselli F, Nuzhdin SV, Passamonti M.

J Exp Zool B Mol Dev Evol. 2013 Nov;320(7):442-54. doi: 10.1002/jez.b.22520. Epub 2013 Jul 19.

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