Justin Borevitz' Publications

Centre Publications for Justin Borevitz

Previous Publications by Justin Borevitz

Li Y, Cheng R, Spokas KA, Palmer AA, Borevitz JO(2014)Genetic variation for life history sensitivity to seasonal warming in Arabidopsis thaliana.Genetics196(2):569-77[PUBMED][DOI online source]
Donoghue MT, Fort A, Clifton R, Zhang X, McKeown PC, Voigt-Zielinksi ML, Borevitz JO, Spillane C(2014)C(m)CGG methylation-independent parent-of-origin effects on genome-wide transcript levels in isogenic reciprocal F1 triploid plants.DNA Res.21(2):141-51[PUBMED][DOI online source]
Cheng R, Borevitz J, Doerge RW(2013)Selecting informative traits for multivariate quantitative trait locus mapping helps to gain optimal power.Genetics195(3):683-91[PUBMED][DOI online source]
Eichten S, Borevitz J(2013)Epigenomics: Methylation's mark on inheritance.Nature495(7440):181-2[PUBMED][DOI online source]
Brown T, Zimmermann C, Panneton W, Noah N, Borevitz J(2012)High-resolution, time-lapse imaging for ecosystem-scale phenotyping in the field.Methods Mol. Biol.918:71-96[PUBMED][DOI online source]
Zhang X, Hause RJ, Borevitz JO(2012)Natural Genetic Variation for Growth and Development Revealed by High-Throughput Phenotyping in Arabidopsis thaliana.G3 (Bethesda)2(1):29-34[PUBMED][DOI online source]
He F, Zhang X, Hu JY, Turck F, Dong X, Goebel U, Borevitz JO, de Meaux J(2012)Widespread interspecific divergence in cis-regulation of transposable elements in the Arabidopsis genus.Mol. Biol. Evol.29(3):1081-91[PUBMED][DOI online source]
He F, Zhang X, Hu J, Turck F, Dong X, Goebel U, Borevitz J, de Meaux J(2012)Genome-wide analysis of cis-regulatory divergence between species in the Arabidopsis genus.Mol. Biol. Evol.29(11):3385-95[PUBMED][DOI online source]
Horton MW, Hancock AM, Huang YS, Toomajian C, Atwell S, Auton A, Muliyati NW, Platt A, Sperone FG, Vilhjálmsson BJ, Nordborg M, Borevitz JO, Bergelson J(2012)Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel.Nat. Genet.44(2):212-6[PUBMED][DOI online source]
Morris GP, Grabowski PP, Borevitz JO(2011)Genomic diversity in switchgrass (Panicum virgatum): from the continental scale to a dune landscape.Mol. Ecol.20(23):4938-52[PUBMED][DOI online source]
Huang YS, Horton M, Vilhjálmsson BJ, Seren U, Meng D, Meyer C, Ali Amer M, Borevitz JO, Bergelson J, Nordborg M(2011)Analysis and visualization of Arabidopsis thaliana GWAS using web 2.0 technologies.Database (Oxford)2011:bar014[PUBMED][DOI online source]
Zhang X, Cal AJ, Borevitz JO(2011)Genetic architecture of regulatory variation in Arabidopsis thaliana.Genome Res.21(5):725-33[PUBMED][DOI online source]
Brachi B, Morris GP, Borevitz JO(2011)Genome-wide association studies in plants: the missing heritability is in the field.Genome Biol.12(10):232[PUBMED][DOI online source]
Anastasio AE, Platt A, Horton M, Grotewold E, Scholl R, Borevitz JO, Nordborg M, Bergelson J(2011)Source verification of mis-identified Arabidopsis thaliana accessions.Plant J.67(3):554-66[PUBMED][DOI online source]
Baxter I, Brazelton JN, Yu D, Huang YS, Lahner B, Yakubova E, Li Y, Bergelson J, Borevitz JO, Nordborg M, Vitek O, Salt DE(2010)A coastal cline in sodium accumulation in Arabidopsis thaliana is driven by natural variation of the sodium transporter AtHKT1;1.PLoS Genet.6(11):e1001193[PUBMED][DOI online source]
Sanchez SE, Petrillo E, Beckwith EJ, Zhang X, Rugnone ML, Hernando CE, Cuevas JC, Godoy Herz MA, Depetris-Chauvin A, Simpson CG, Brown JW, Cerdán PD, Borevitz JO, Mas P, Ceriani MF, Kornblihtt AR, Yanovsky MJ(2010)A methyl transferase links the circadian clock to the regulation of alternative splicing.Nature468(7320):112-6[PUBMED][DOI online source]
Voelckel C, Borevitz JO, Kramer EM, Hodges SA(2010)Within and between whorls: comparative transcriptional profiling of Aquilegia and Arabidopsis.PLoS ONE5(3):e9735[PUBMED][DOI online source]
Platt A, Horton M, Huang YS, Li Y, Anastasio AE, Mulyati NW, Agren J, Bossdorf O, Byers D, Donohue K, Dunning M, Holub EB, Hudson A, Le Corre V, Loudet O, Roux F, Warthmann N, Weigel D, Rivero L, Scholl R, Nordborg M, Bergelson J, Borevitz JO(2010)The scale of population structure in Arabidopsis thaliana.PLoS Genet.6(2):e1000843[PUBMED][DOI online source]
Li Y, Huang Y, Bergelson J, Nordborg M, Borevitz JO(2010)Association mapping of local climate-sensitive quantitative trait loci in Arabidopsis thaliana.Proc. Natl. Acad. Sci. U.S.A.107(49):21199-204[PUBMED][DOI online source]
Atwell S, Huang YS, Vilhjálmsson BJ, Willems G, Horton M, Li Y, Meng D, Platt A, Tarone AM, Hu TT, Jiang R, Muliyati NW, Zhang X, Amer MA, Baxter I, Brachi B, Chory J, Dean C, Debieu M, de Meaux J, Ecker JR, Faure N, Kniskern JM, Jones JD, Michael T, Nemri A, Roux F, Salt DE, Tang C, Todesco M, Traw MB, Weigel D, Marjoram P, Borevitz JO, Bergelson J, Nordborg M(2010)Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines.Nature465(7298):627-31[PUBMED][DOI online source]
Todesco M, Balasubramanian S, Hu TT, Traw MB, Horton M, Epple P, Kuhns C, Sureshkumar S, Schwartz C, Lanz C, Laitinen RA, Huang Y, Chory J, Lipka V, Borevitz JO, Dangl JL, Bergelson J, Nordborg M, Weigel D(2010)Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana.Nature465(7298):632-6[PUBMED][DOI online source]
Schwartz C, Balasubramanian S, Warthmann N, Michael TP, Lempe J, Sureshkumar S, Kobayashi Y, Maloof JN, Borevitz JO, Chory J, Weigel D(2009)Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arabidopsis thaliana.Genetics183(2):723-32, 1SI-7SI[PUBMED][DOI online source]
Baxter I, Hosmani PS, Rus A, Lahner B, Borevitz JO, Muthukumar B, Mickelbart MV, Schreiber L, Franke RB, Salt DE(2009)Root suberin forms an extracellular barrier that affects water relations and mineral nutrition in Arabidopsis.PLoS Genet.5(5):e1000492[PUBMED][DOI online source]
Hazen SP, Naef F, Quisel T, Gendron JM, Chen H, Ecker JR, Borevitz JO, Kay SA(2009)Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays.Genome Biol.10(2):R17[PUBMED][DOI online source]
Zhang X, Borevitz JO(2009)Global analysis of allele-specific expression in Arabidopsis thaliana.Genetics182(4):943-54[PUBMED][DOI online source]
Balasubramanian S, Schwartz C, Singh A, Warthmann N, Kim MC, Maloof JN, Loudet O, Trainer GT, Dabi T, Borevitz JO, Chory J, Weigel D(2009)QTL mapping in new Arabidopsis thaliana advanced intercross-recombinant inbred lines.PLoS ONE4(2):e4318[PUBMED][DOI online source]
Williams R, Lim JE, Harr B, Wing C, Walters R, Distler MG, Teschke M, Wu C, Wiltshire T, Su AI, Sokoloff G, Tarantino LM, Borevitz JO, Palmer AA(2009)A common and unstable copy number variant is associated with differences in Glo1 expression and anxiety-like behavior.PLoS ONE4(3):e4649[PUBMED][DOI online source]
Zhang X, Byrnes JK, Gal TS, Li WH, Borevitz JO(2008)Whole genome transcriptome polymorphisms in Arabidopsis thaliana.Genome Biol.9(11):R165[PUBMED][DOI online source]
Emerson JJ, Cardoso-Moreira M, Borevitz JO, Long M(2008)Natural selection shapes genome-wide patterns of copy-number polymorphism in Drosophila melanogaster.Science320(5883):1629-31[PUBMED][DOI online source]
Filiault DL, Wessinger CA, Dinneny JR, Lutes J, Borevitz JO, Weigel D, Chory J, Maloof JN(2008)Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light.Proc. Natl. Acad. Sci. U.S.A.105(8):3157-62[PUBMED][DOI online source]
Bender J, Benfey P, Bergmann D, Borevitz J, Coruzzi G, Dangl J, Dean C, Ecker J, Estelle M, Glazebrook J, Grant S, Guerinot ML, Gutierrez R, Long J, Nordborg M, Poethig S, Raikhel N, Schmitt J, Schnittger A, Vidal M(2008)2020 vision for biology: the role of plants in addressing grand challenges in biology.Mol Plant1(4):561-3[PUBMED][DOI online source]
Borevitz J, Neff M(2008)Phenotypic analysis of Arabidopsis mutants: hypocotyl length.CSH Protoc2008:pdb.prot4962[PUBMED][DOI online source]
Zhang X, Shiu SH, Shiu S, Cal A, Borevitz JO(2008)Global analysis of genetic, epigenetic and transcriptional polymorphisms in Arabidopsis thaliana using whole genome tiling arrays.PLoS Genet.4(3):e1000032[PUBMED][DOI online source]
Jones-Rhoades MW, Borevitz JO, Preuss D(2007)Genome-wide expression profiling of the Arabidopsis female gametophyte identifies families of small, secreted proteins.PLoS Genet.3(10):1848-61[PUBMED][DOI online source]
Hanada K, Zhang X, Borevitz JO, Li WH, Shiu SH(2007)A large number of novel coding small open reading frames in the intergenic regions of the Arabidopsis thaliana genome are transcribed and/or under purifying selection.Genome Res.17(5):632-40[PUBMED][DOI online source]
Zhang X, Richards EJ, Borevitz JO(2007)Genetic and epigenetic dissection of cis regulatory variation.Curr. Opin. Plant Biol.10(2):142-8[PUBMED][DOI online source]
Borevitz JO, Hazen SP, Michael TP, Morris GP, Baxter IR, Hu TT, Chen H, Werner JD, Nordborg M, Salt DE, Kay SA, Chory J, Weigel D, Jones JD, Ecker JR(2007)Genome-wide patterns of single-feature polymorphism in Arabidopsis thaliana.Proc. Natl. Acad. Sci. U.S.A.104(29):12057-62[PUBMED][DOI online source]
Smemo S, Borevitz JO(2007)Redundancy in genotyping arrays.PLoS ONE2(3):e287[PUBMED][DOI online source]
Li Y, Roycewicz P, Smith E, Borevitz JO(2006)Genetics of local adaptation in the laboratory: flowering time quantitative trait loci under geographic and seasonal conditions in Arabidopsis.PLoS ONE1:e105[PUBMED][DOI online source]
Baxter IR, Borevitz JO(2006)Mapping a plant's chemical vocabulary.Nat. Genet.38(7):737-8[PUBMED][DOI online source]
Borevitz J(2006)Genotyping and mapping with high-density oligonucleotide arrays.Methods Mol. Biol.323:137-45[PUBMED][DOI online source]
Kim SK, Borevitz J(2006)Mining the HapMap to dissect complex traits.Genome Biol.7(3):310[PUBMED][DOI online source]
Gilad Y, Borevitz J(2006)Using DNA microarrays to study natural variation.Curr. Opin. Genet. Dev.16(6):553-8[PUBMED][DOI online source]
Jiang R, Marjoram P, Borevitz JO, Tavaré S(2006)Inferring population parameters from single-feature polymorphism data.Genetics173(4):2257-67[PUBMED][DOI online source]
Kidgell C, Volkman SK, Daily J, Borevitz JO, Plouffe D, Zhou Y, Johnson JR, Le Roch K, Sarr O, Ndir O, Mboup S, Batalov S, Wirth DF, Winzeler EA(2006)A systematic map of genetic variation in Plasmodium falciparum.PLoS Pathog.2(6):e57[PUBMED][DOI online source]
Kim S, Zhao K, Jiang R, Molitor J, Borevitz JO, Nordborg M, Marjoram P(2006)Association mapping with single-feature polymorphisms.Genetics173(2):1125-33[PUBMED][DOI online source]
Hazen SP, Schultz TF, Pruneda-Paz JL, Borevitz JO, Ecker JR, Kay SA(2005)LUX ARRHYTHMO encodes a Myb domain protein essential for circadian rhythms.Proc. Natl. Acad. Sci. U.S.A.102(29):10387-92[PUBMED][DOI online source]
Werner JD, Borevitz JO, Uhlenhaut NH, Ecker JR, Chory J, Weigel D(2005)FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions.Genetics170(3):1197-207[PUBMED][DOI online source]
Werner JD, Borevitz JO, Warthmann N, Trainer GT, Ecker JR, Chory J, Weigel D(2005)Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation.Proc. Natl. Acad. Sci. U.S.A.102(7):2460-5[PUBMED][DOI online source]
Rostoks N, Borevitz JO, Hedley PE, Russell J, Mudie S, Morris J, Cardle L, Marshall DF, Waugh R(2005)Single-feature polymorphism discovery in the barley transcriptome.Genome Biol.6(6):R54[PUBMED][DOI online source]
Hazen SP, Borevitz JO, Harmon FG, Pruneda-Paz JL, Schultz TF, Yanovsky MJ, Liljegren SJ, Ecker JR, Kay SA(2005)Rapid array mapping of circadian clock and developmental mutations in Arabidopsis.Plant Physiol.138(2):990-7[PUBMED][DOI online source]
Borevitz JO, Ecker JR(2004)Plant genomics: the third wave.Annu Rev Genomics Hum Genet5:443-77[PUBMED][DOI online source]
Borevitz JO, Chory J(2004)Genomics tools for QTL analysis and gene discovery.Curr. Opin. Plant Biol.7(2):132-6[PUBMED][DOI online source]
Wolyn DJ, Borevitz JO, Loudet O, Schwartz C, Maloof J, Ecker JR, Berry CC, Chory J(2004)Light-response quantitative trait loci identified with composite interval and eXtreme array mapping in Arabidopsis thaliana.Genetics167(2):907-17[PUBMED][DOI online source]
Xia Y, Suzuki H, Borevitz J, Blount J, Guo Z, Patel K, Dixon RA, Lamb C(2004)An extracellular aspartic protease functions in Arabidopsis disease resistance signaling.EMBO J.23(4):980-8[PUBMED][DOI online source]
Borevitz JO, Nordborg M(2003)The impact of genomics on the study of natural variation in Arabidopsis.Plant Physiol.132(2):718-25[PUBMED][DOI online source]
Borevitz JO, Liang D, Plouffe D, Chang HS, Zhu T, Weigel D, Berry CC, Winzeler E, Chory J(2003)Large-scale identification of single-feature polymorphisms in complex genomes.Genome Res.13(3):513-23[PUBMED][DOI online source]
Borevitz JO, Maloof JN, Lutes J, Dabi T, Redfern JL, Trainer GT, Werner JD, Asami T, Berry CC, Weigel D, Chory J(2002)Quantitative trait loci controlling light and hormone response in two accessions of Arabidopsis thaliana.Genetics160(2):683-96[PUBMED][DOI online source]
Nordborg M, Borevitz JO, Bergelson J, Berry CC, Chory J, Hagenblad J, Kreitman M, Maloof JN, Noyes T, Oefner PJ, Stahl EA, Weigel D(2002)The extent of linkage disequilibrium in Arabidopsis thaliana.Nat. Genet.30(2):190-3[PUBMED][DOI online source]