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Justin Borevitz

TitleResearch Associate (Associate Professor)
InstitutionUniversity of Chicago
DepartmentEcology & Evolution
AddressChicago IL 60637
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    R01GM073822     (BOREVITZ, JUSTIN O)Mar 1, 2006 - Dec 31, 2011
    Role: Principal Investigator

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    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Ahrens CW, Murray K, Mazanec RA, Ferguson S, Jones A, Tissue DT, Byrne M, Borevitz JO, Rymer PD. Genomic determinants, architecture, and constraints in drought-related traits in Corymbia calophylla. BMC Genomics. 2024 Jun 27; 25(1):640. PMID: 38937661; PMCID: PMC11209971.
      Citations:    Fields:    
    2. Ferguson S, Jones A, Murray K, Andrew R, Schwessinger B, Borevitz JO, Ferguson S, Jones A, Murray K, Andrew R, Schwessinger B, Borevitz J. Plant genome evolution in the genus Eucalyptus is driven by structural rearrangements that promote sequence divergence. Genome Res. 2024 05 15; 34(4):606-619. PMID: 38589251; PMCID: PMC11146599.
      Citations: 1     Fields:    Translation:AnimalsCells
    3. Ferguson S, Jones A, Murray K, Andrew RL, Schwessinger B, Bothwell H, Borevitz J. Exploring the role of polymorphic interspecies structural variants in reproductive isolation and adaptive divergence in Eucalyptus. Gigascience. 2024 Jan 02; 13. PMID: 38869149; PMCID: PMC11170218.
      Citations:    Fields:    Translation:Animals
    4. Buss W, Hasemer H, Ferguson S, Borevitz J. Stabilisation of soil organic matter with rock dust partially counteracted by plants. Glob Chang Biol. 2024 Jan; 30(1):e17052. PMID: 37994295.
      Citations:    Fields:    Translation:Animals
    5. Johnson SN, Vandegeer RK, Borevitz JO, Hartley SE, Tissue DT, Hall CR. Climatic Drivers of Silicon Accumulation in a Model Grass Operate in Low- but Not High-Silicon Soils. Plants (Basel). 2023 Feb 22; 12(5). PMID: 36903856; PMCID: PMC10005694.
    6. Jones A, Stanley D, Ferguson S, Schwessinger B, Borevitz J, Warthmann N. Cost-conscious generation of multiplexed short-read DNA libraries for whole-genome sequencing. PLoS One. 2023; 18(1):e0280004. PMID: 36706059; PMCID: PMC9882895.
      Citations: 5     Fields:    
    7. Ferguson S, McLay T, Andrew RL, Bruhl JJ, Schwessinger B, Borevitz J, Jones A. Species-specific basecallers improve actual accuracy of nanopore sequencing in plants. Plant Methods. 2022 Dec 14; 18(1):137. PMID: 36517904; PMCID: PMC9749173.
      Citations: 7     
    8. Ferguson S, Jones A, Murray K, Schwessinger B, Borevitz JO. Interspecies genome divergence is predominantly due to frequent small scale rearrangements in Eucalyptus. Mol Ecol. 2023 03; 32(6):1271-1287. PMID: 35810343.
      Citations: 5     Fields:    Translation:AnimalsCells
    9. Mostert-O'Neill MM, Tate H, Reynolds SM, Mphahlele MM, van den Berg G, Verryn SD, Acosta JJ, Borevitz JO, Myburg AA. Genomic consequences of artificial selection during early domestication of a wood fibre crop. New Phytol. 2022 09; 235(5):1944-1956. PMID: 35657639; PMCID: PMC9541791.
      Citations:    Fields:    
    10. Phillips AL, Ferguson S, Watson-Haigh NS, Jones AW, Borevitz JO, Burton RA, Atwell BJ. The first long-read nuclear genome assembly of Oryza australiensis, a wild rice from northern Australia. Sci Rep. 2022 06 25; 12(1):10823. PMID: 35752642; PMCID: PMC9233661.
      Citations: 1     Fields:    Translation:AnimalsCells
    11. Meng X, Li L, Rahikainen M, Yi C, Jost R, He C, Fournier-Level A, Borevitz J, Whelan J, Berkowitz O, Pascual J, Kangasjärvi S. GWAS on multiple traits identifies mitochondrial ACONITASE3 as important for acclimation to submergence stress. Plant Physiol. 2022 03 28; 188(4):2039-2058. PMID: 35043967; PMCID: PMC8968326.
      Citations: 6     Fields:    Translation:AnimalsCells
    12. Bragg JG, van der Merwe M, Yap JS, Borevitz J, Rossetto M. Plant collections for conservation and restoration: Can they be adapted and adaptable? Mol Ecol Resour. 2022 Aug; 22(6):2171-2182. PMID: 35229464.
      Citations:    Fields:    Translation:Animals
    13. Jones A, Torkel C, Stanley D, Nasim J, Borevitz J, Schwessinger B. High-molecular weight DNA extraction, clean-up and size selection for long-read sequencing. PLoS One. 2021; 16(7):e0253830. PMID: 34264958; PMCID: PMC8282028.
      Citations: 20     Fields:    
    14. Borevitz J. Utilizing genomics to understand and respond to global climate change. Genome Biol. 2021 03 29; 22(1):91. PMID: 33781300; PMCID: PMC8006341.
      Citations: 2     Fields:    
    15. Ahrens CW, James EA, Miller AD, Scott F, Aitken NC, Jones AW, Lu-Irving P, Borevitz JO, Cantrill DJ, Rymer PD. Spatial, climate and ploidy factors drive genomic diversity and resilience in the widespread grass Themeda triandra. Mol Ecol. 2020 10; 29(20):3872-3888. PMID: 32885504.
      Citations: 5     Fields:    Translation:Animals
    16. Mostert-O'Neill MM, Reynolds SM, Acosta JJ, Lee DJ, Borevitz JO, Myburg AA. Genomic evidence of introgression and adaptation in a model subtropical tree species, Eucalyptus grandis. Mol Ecol. 2021 02; 30(3):625-638. PMID: 32881106.
      Citations: 3     Fields:    Translation:Animals
    17. Eichten SR, Srivastava A, Reddiex AJ, Ganguly DR, Heussler A, Streich JC, Wilson PB, Borevitz JO. Extending the Genotype in Brachypodium by Including DNA Methylation Reveals a Joint Contribution with Genetics on Adaptive Traits. G3 (Bethesda). 2020 05 04; 10(5):1629-1637. PMID: 32132166; PMCID: PMC7202021.
      Citations: 2     Fields:    Translation:HumansAnimalsCells
    18. Murray KD, Janes JK, Jones A, Bothwell HM, Andrew RL, Borevitz JO. Landscape drivers of genomic diversity and divergence in woodland Eucalyptus. Mol Ecol. 2019 12; 28(24):5232-5247. PMID: 31647597; PMCID: PMC7065176.
      Citations: 14     Fields:    Translation:Animals
    19. Rungrat T, Almonte AA, Cheng R, Gollan PJ, Stuart T, Aro EM, Borevitz JO, Pogson B, Wilson PB. A Genome-Wide Association Study of Non-Photochemical Quenching in response to local seasonal climates in Arabidopsis thaliana. Plant Direct. 2019 May; 3(5):e00138. PMID: 31276082; PMCID: PMC6603398.
      Citations: 9     
    20. Srivastava A, Karpievitch YV, Eichten SR, Borevitz JO, Lister R. HOME: a histogram based machine learning approach for effective identification of differentially methylated regions. BMC Bioinformatics. 2019 May 16; 20(1):253. PMID: 31096906; PMCID: PMC6521357.
      Citations: 12     Fields:    Translation:AnimalsCells
    21. von Takach Dukai B, Jack C, Borevitz J, Lindenmayer DB, Banks SC. Pervasive admixture between eucalypt species has consequences for conservation and assisted migration. Evol Appl. 2019 Apr; 12(4):845-860. PMID: 30976314; PMCID: PMC6439489.
      Citations: 9     
    22. Wilson PB, Streich JC, Murray KD, Eichten SR, Cheng R, Aitken NC, Spokas K, Warthmann N, Gordon SP, Accession Contributors, Vogel JP, Borevitz JO. Global Diversity of the Brachypodium Species Complex as a Resource for Genome-Wide Association Studies Demonstrated for Agronomic Traits in Response to Climate. Genetics. 2019 01; 211(1):317-331. PMID: 30446522; PMCID: PMC6325704.
      Citations: 8     Fields:    Translation:Animals
    23. Murray KD, Borevitz JO. Axe: rapid, competitive sequence read demultiplexing using a trie. Bioinformatics. 2018 11 15; 34(22):3924-3925. PMID: 29868827.
      Citations: 25     Fields:    
    24. Taghavi Namin S, Esmaeilzadeh M, Najafi M, Brown TB, Borevitz JO. Deep phenotyping: deep learning for temporal phenotype/genotype classification. Plant Methods. 2018; 14:66. PMID: 30087695; PMCID: PMC6076396.
      Citations: 39     
    25. Almonte AA, Borevitz JO. Adaptation genomics: The angel is in the details. Plant Cell Environ. 2018 10; 41(10):2244-2246. PMID: 29777598.
      Citations:    Fields:    Translation:Animals
    26. Supple MA, Bragg JG, Broadhurst LM, Nicotra AB, Byrne M, Andrew RL, Widdup A, Aitken NC, Borevitz JO. Landscape genomic prediction for restoration of a Eucalyptus foundation species under climate change. Elife. 2018 04 24; 7. PMID: 29685183; PMCID: PMC5951681.
      Citations: 20     Fields:    Translation:AnimalsPHPublic Health
    27. Murray KD, Webers C, Ong CS, Borevitz J, Warthmann N. kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity. PLoS Comput Biol. 2017 Sep; 13(9):e1005727. PMID: 28873405; PMCID: PMC5600398.
      Citations: 26     Fields:    Translation:Animals
    28. Crisp PA, Ganguly DR, Smith AB, Murray KD, Estavillo GM, Searle I, Ford E, Bogdanovic O, Lister R, Borevitz JO, Eichten SR, Pogson BJ. Rapid Recovery Gene Downregulation during Excess-Light Stress and Recovery in Arabidopsis. Plant Cell. 2017 Aug; 29(8):1836-1863. PMID: 28705956; PMCID: PMC5590493.
      Citations: 47     Fields:    Translation:AnimalsCells
    29. Ahrens CW, Supple MA, Aitken NC, Cantrill DJ, Borevitz JO, James EA. Genomic diversity guides conservation strategies among rare terrestrial orchid species when taxonomy remains uncertain. Ann Bot. 2017 06 01; 119(8):1267-1277. PMID: 28334284; PMCID: PMC5604565.
      Citations: 5     Fields:    Translation:AnimalsCells
    30. Prunier R, Akman M, Kremer CT, Aitken N, Chuah A, Borevitz J, Holsinger KE. Isolation by distance and isolation by environment contribute to population differentiation in Protea repens (Proteaceae L.), a widespread South African species. Am J Bot. 2017 May; 104(5):674-684. PMID: 28500229.
      Citations: 7     Fields:    Translation:Animals
    31. Cheng R, Doerge RW, Borevitz J. Novel Resampling Improves Statistical Power for Multiple-Trait QTL Mapping. G3 (Bethesda). 2017 03 10; 7(3):813-822. PMID: 28064191; PMCID: PMC5345711.
      Citations: 3     Fields:    
    32. Stuart T, Eichten SR, Cahn J, Karpievitch YV, Borevitz JO, Lister R. Population scale mapping of transposable element diversity reveals links to gene regulation and epigenomic variation. Elife. 2016 12 02; 5. PMID: 27911260; PMCID: PMC5167521.
      Citations: 100     Fields:    Translation:AnimalsCells
    33. Kantarski T, Larson S, Zhang X, DeHaan L, Borevitz J, Anderson J, Poland J. Development of the first consensus genetic map of intermediate wheatgrass (Thinopyrum intermedium) using genotyping-by-sequencing. Theor Appl Genet. 2017 Jan; 130(1):137-150. PMID: 27738715.
      Citations: 21     Fields:    Translation:Animals
    34. Rungrat T, Awlia M, Brown T, Cheng R, Sirault X, Fajkus J, Trtilek M, Furbank B, Badger M, Tester M, Pogson BJ, Borevitz JO, Wilson P. Using Phenomic Analysis of Photosynthetic Function for Abiotic Stress Response Gene Discovery. Arabidopsis Book. 2016; 14:e0185. PMID: 27695390; PMCID: PMC5042155.
      Citations: 20     
    35. Eichten SR, Stuart T, Srivastava A, Lister R, Borevitz JO. DNA methylation profiles of diverse Brachypodium distachyon align with underlying genetic diversity. Genome Res. 2016 11; 26(11):1520-1531. PMID: 27613611; PMCID: PMC5088594.
      Citations: 16     Fields:    Translation:AnimalsCells
    36. Nicotra AB, Chong C, Bragg JG, Ong CR, Aitken NC, Chuah A, Borevitz JO, Lepschi B. Population and phylogenomic decomposition via genotyping-by-sequencing in Australian Pelargonium. Mol Ecol. 2016 May; 25(9):2000-14. PMID: 26864117.
      Citations: 8     Fields:    Translation:Animals
    37. Crisp PA, Ganguly D, Eichten SR, Borevitz JO, Pogson BJ. Reconsidering plant memory: Intersections between stress recovery, RNA turnover, and epigenetics. Sci Adv. 2016 Feb; 2(2):e1501340. PMID: 26989783; PMCID: PMC4788475.
      Citations: 169     Fields:    Translation:Cells
    38. Morris GP, Hu Z, Grabowski PP, Borevitz JO, de Graaff MA, Miller RM, Jastrow JD. Genotypic diversity effects on biomass production in native perennial bioenergy cropping systems. Glob Change Biol Bioenergy. 2016 Sep; 8(5):1000-1014. PMID: 27668013; PMCID: PMC5019262.
      Citations: 2     
    39. Bragg JG, Supple MA, Andrew RL, Borevitz JO. Genomic variation across landscapes: insights and applications. New Phytol. 2015 Sep; 207(4):953-67. PMID: 25904408.
      Citations: 38     Fields:    
    40. Noutsos C, Borevitz JO, Hodges SA. Gene flow between nascent species: geographic, genotypic and phenotypic differentiation within and between Aquilegia formosa and A. pubescens. Mol Ecol. 2014 11; 23(22):5589-98. PMID: 25314338.
      Citations: 5     Fields:    Translation:Animals
    41. Wilson AW, Wickett NJ, Grabowski P, Fant J, Borevitz J, Mueller GM. Examining the efficacy of a genotyping-by-sequencing technique for population genetic analysis of the mushroom Laccaria bicolor and evaluating whether a reference genome is necessary to assess homology. Mycologia. 2015 Jan-Feb; 107(1):217-26. PMID: 25361831; PMCID: PMC4829919.
      Citations: 3     Fields:    Translation:Animals
    42. Cazzonelli CI, Nisar N, Roberts AC, Murray KD, Borevitz JO, Pogson BJ. A chromatin modifying enzyme, SDG8, is involved in morphological, gene expression, and epigenetic responses to mechanical stimulation. Front Plant Sci. 2014; 5:533. PMID: 25374573; PMCID: PMC4204441.
      Citations: 17     
    43. Grabowski PP, Morris GP, Casler MD, Borevitz JO. Population genomic variation reveals roles of history, adaptation and ploidy in switchgrass. Mol Ecol. 2014 Aug; 23(16):4059-73. PMID: 24962137; PMCID: PMC4142443.
      Citations: 22     Fields:    Translation:Animals
    44. Brown TB, Cheng R, Sirault XR, Rungrat T, Murray KD, Trtilek M, Furbank RT, Badger M, Pogson BJ, Borevitz JO. TraitCapture: genomic and environment modelling of plant phenomic data. Curr Opin Plant Biol. 2014 Apr; 18:73-9. PMID: 24646691.
      Citations: 22     Fields:    Translation:Animals
    45. Fitz Gerald JN, Carlson AL, Smith E, Maloof JN, Weigel D, Chory J, Borevitz JO, Swanson RJ. New Arabidopsis advanced intercross recombinant inbred lines reveal female control of nonrandom mating. Plant Physiol. 2014 May; 165(1):175-85. PMID: 24623850; PMCID: PMC4012578.
      Citations: 8     Fields:    Translation:Animals
    46. Li Y, Cheng R, Spokas KA, Palmer AA, Borevitz JO. Genetic variation for life history sensitivity to seasonal warming in Arabidopsis thaliana. Genetics. 2014 Feb; 196(2):569-77. PMID: 24281156; PMCID: PMC3914627.
      Citations: 20     Fields:    Translation:Animals
    47. Fort A, Clifton R, Zhang X, McKeown PC, Voigt-Zielinksi ML, Borevitz JO, Spillane C, Donoghue MT. C(m)CGG methylation-independent parent-of-origin effects on genome-wide transcript levels in isogenic reciprocal F1 triploid plants. DNA Res. 2014; 21(2):141-51. PMID: 24212467; PMCID: PMC3989486.
      Citations: 8     Fields:    Translation:AnimalsCells
    48. Cheng R, Borevitz J, Doerge RW. Selecting informative traits for multivariate quantitative trait locus mapping helps to gain optimal power. Genetics. 2013 Nov; 195(3):683-91. PMID: 23979571; PMCID: PMC3813856.
      Citations: 3     Fields:    Translation:Animals
    49. Eichten S, Borevitz J. Epigenomics: Methylation's mark on inheritance. Nature. 2013 Mar 14; 495(7440):181-2. PMID: 23467093.
      Citations: 2     Fields:    Translation:Animals
    50. Zhang X, Hu J, Turck F, Dong X, Goebel U, Borevitz J, de Meaux J, He F. Genome-wide analysis of cis-regulatory divergence between species in the Arabidopsis genus. Mol Biol Evol. 2012 Nov; 29(11):3385-95. PMID: 22641789.
      Citations: 21     Fields:    Translation:AnimalsCells
    51. Horton MW, Hancock AM, Huang YS, Toomajian C, Atwell S, Auton A, Muliyati NW, Platt A, Sperone FG, Nordborg M, Borevitz JO, Bergelson J, Vilhjálmsson BJ. Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel. Nat Genet. 2012 Jan 08; 44(2):212-6. PMID: 22231484; PMCID: PMC3267885.
      Citations: 240     Fields:    Translation:Animals
    52. Zhang X, Hause RJ, Borevitz JO. Natural Genetic Variation for Growth and Development Revealed by High-Throughput Phenotyping in Arabidopsis thaliana. G3 (Bethesda). 2012 Jan; 2(1):29-34. PMID: 22384379; PMCID: PMC3276187.
      Citations: 26     Fields:    
    53. Brown T, Zimmermann C, Panneton W, Noah N, Borevitz J. High-resolution, time-lapse imaging for ecosystem-scale phenotyping in the field. Methods Mol Biol. 2012; 918:71-96. PMID: 22893287.
      Citations: 2     Fields:    
    54. He F, Zhang X, Hu JY, Turck F, Dong X, Goebel U, Borevitz JO, de Meaux J. Widespread interspecific divergence in cis-regulation of transposable elements in the Arabidopsis genus. Mol Biol Evol. 2012 Mar; 29(3):1081-91. PMID: 22086904.
      Citations: 11     Fields:    Translation:AnimalsCells
    55. Morris GP, Grabowski PP, Borevitz JO. Genomic diversity in switchgrass (Panicum virgatum): from the continental scale to a dune landscape. Mol Ecol. 2011 Dec; 20(23):4938-52. PMID: 22060816; PMCID: PMC3383086.
      Citations: 25     Fields:    Translation:Animals
    56. Brachi B, Morris GP, Borevitz JO. Genome-wide association studies in plants: the missing heritability is in the field. Genome Biol. 2011 Oct 28; 12(10):232. PMID: 22035733; PMCID: PMC3333769.
      Citations: 221     Fields:    Translation:Animals
    57. Anastasio AE, Platt A, Horton M, Grotewold E, Scholl R, Borevitz JO, Nordborg M, Bergelson J. Source verification of mis-identified Arabidopsis thaliana accessions. Plant J. 2011 Aug; 67(3):554-66. PMID: 21481029.
      Citations: 34     Fields:    Translation:Animals
    58. Huang YS, Horton M, Seren U, Meng D, Meyer C, Ali Amer M, Borevitz JO, Bergelson J, Nordborg M, Vilhjálmsson BJ. Analysis and visualization of Arabidopsis thaliana GWAS using web 2.0 technologies. Database (Oxford). 2011; 2011:bar014. PMID: 21609965; PMCID: PMC3243604.
      Citations: 2     Fields:    Translation:Animals
    59. Zhang X, Cal AJ, Borevitz JO. Genetic architecture of regulatory variation in Arabidopsis thaliana. Genome Res. 2011 May; 21(5):725-33. PMID: 21467266; PMCID: PMC3083089.
      Citations: 45     Fields:    Translation:Animals
    60. Li Y, Huang Y, Bergelson J, Nordborg M, Borevitz JO. Association mapping of local climate-sensitive quantitative trait loci in Arabidopsis thaliana. Proc Natl Acad Sci U S A. 2010 Dec 07; 107(49):21199-204. PMID: 21078970; PMCID: PMC3000268.
      Citations: 147     Fields:    Translation:Animals
    61. Baxter I, Brazelton JN, Yu D, Huang YS, Lahner B, Yakubova E, Li Y, Bergelson J, Borevitz JO, Nordborg M, Vitek O, Salt DE. A coastal cline in sodium accumulation in Arabidopsis thaliana is driven by natural variation of the sodium transporter AtHKT1;1. PLoS Genet. 2010 Nov 11; 6(11):e1001193. PMID: 21085628; PMCID: PMC2978683.
      Citations: 149     Fields:    Translation:Animals
    62. Petrillo E, Beckwith EJ, Zhang X, Rugnone ML, Hernando CE, Cuevas JC, Godoy Herz MA, Depetris-Chauvin A, Simpson CG, Brown JW, Borevitz JO, Mas P, Ceriani MF, Kornblihtt AR, Yanovsky MJ, Sanchez SE, Cerdán PD. A methyl transferase links the circadian clock to the regulation of alternative splicing. Nature. 2010 Nov 04; 468(7320):112-6. PMID: 20962777.
      Citations: 169     Fields:    Translation:AnimalsCells
    63. Glover JD, Reganold JP, Bell LW, Borevitz J, Brummer EC, Buckler ES, Cox CM, Cox TS, Crews TE, Culman SW, DeHaan LR, Eriksson D, Gill BS, Holland J, Hu F, Hulke BS, Ibrahim AM, Jackson W, Jones SS, Murray SC, Paterson AH, Ploschuk E, Sacks EJ, Snapp S, Tao D, Van Tassel DL, Wade LJ, Wyse DL, Xu Y. Agriculture. Increased food and ecosystem security via perennial grains. Science. 2010 Jun 25; 328(5986):1638-9. PMID: 20576874.
      Citations: 67     Fields:    Translation:Animals
    64. 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, Todesco M. Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana. Nature. 2010 Jun 03; 465(7298):632-6. PMID: 20520716; PMCID: PMC3055268.
      Citations: 148     Fields:    Translation:Animals
    65. Atwell S, Huang YS, 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, Vilhjálmsson BJ. Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature. 2010 Jun 03; 465(7298):627-31. PMID: 20336072; PMCID: PMC3023908.
      Citations: 792     Fields:    Translation:Animals
    66. Voelckel C, Borevitz JO, Kramer EM, Hodges SA. Within and between whorls: comparative transcriptional profiling of Aquilegia and Arabidopsis. PLoS One. 2010 Mar 23; 5(3):e9735. PMID: 20352114; PMCID: PMC2843724.
      Citations: 13     Fields:    Translation:AnimalsCells
    67. 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, Loudet O, Roux F, Warthmann N, Weigel D, Rivero L, Scholl R, Nordborg M, Bergelson J, Borevitz JO, Le Corre V. The scale of population structure in Arabidopsis thaliana. PLoS Genet. 2010 Feb 12; 6(2):e1000843. PMID: 20169178; PMCID: PMC2820523.
      Citations: 162     Fields:    Translation:Animals
    68. Schwartz C, Balasubramanian S, Warthmann N, Michael TP, Lempe J, Sureshkumar S, Kobayashi Y, Maloof JN, Borevitz JO, Chory J, Weigel D. Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arabidopsis thaliana. Genetics. 2009 Oct; 183(2):723-32, 1SI-7SI. PMID: 19652183; PMCID: PMC2766330.
      Citations: 57     Fields:    Translation:AnimalsCells
    69. Zhang X, Borevitz JO. Global analysis of allele-specific expression in Arabidopsis thaliana. Genetics. 2009 Aug; 182(4):943-54. PMID: 19474198; PMCID: PMC2728882.
      Citations: 78     Fields:    Translation:AnimalsCells
    70. Baxter I, Hosmani PS, Rus A, Lahner B, Borevitz JO, Muthukumar B, Mickelbart MV, Schreiber L, Franke RB, Salt DE. Root suberin forms an extracellular barrier that affects water relations and mineral nutrition in Arabidopsis. PLoS Genet. 2009 May; 5(5):e1000492. PMID: 19461889; PMCID: PMC2679201.
      Citations: 125     Fields:    Translation:AnimalsCells
    71. 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. A common and unstable copy number variant is associated with differences in Glo1 expression and anxiety-like behavior. PLoS One. 2009; 4(3):e4649. PMID: 19266052; PMCID: PMC2650792.
      Citations: 56     Fields:    Translation:Animals
    72. Hazen SP, Naef F, Quisel T, Gendron JM, Chen H, Ecker JR, Borevitz JO, Kay SA. Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays. Genome Biol. 2009 Feb 11; 10(2):R17. PMID: 19210792; PMCID: PMC2688271.
      Citations: 55     Fields:    Translation:AnimalsCells
    73. Schwartz C, Singh A, Warthmann N, Kim MC, Maloof JN, Loudet O, Trainer GT, Dabi T, Borevitz JO, Chory J, Weigel D, Balasubramanian S. QTL mapping in new Arabidopsis thaliana advanced intercross-recombinant inbred lines. PLoS One. 2009; 4(2):e4318. PMID: 19183806; PMCID: PMC2629843.
      Citations: 44     Fields:    Translation:AnimalsCells
    74. Zhang X, Byrnes JK, Gal TS, Li WH, Borevitz JO. Whole genome transcriptome polymorphisms in Arabidopsis thaliana. Genome Biol. 2008; 9(11):R165. PMID: 19025653; PMCID: PMC2614497.
      Citations: 18     Fields:    Translation:AnimalsCells
    75. 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. 2020 vision for biology: the role of plants in addressing grand challenges in biology. Mol Plant. 2008 Jul; 1(4):561-3. PMID: 19825561.
      Citations: 2     Fields:    Translation:AnimalsCells
    76. Emerson JJ, Cardoso-Moreira M, Borevitz JO, Long M. Natural selection shapes genome-wide patterns of copy-number polymorphism in Drosophila melanogaster. Science. 2008 Jun 20; 320(5883):1629-31. PMID: 18535209.
      Citations: 156     Fields:    Translation:AnimalsCells
    77. Zhang X, Shiu SH, Shiu S, Cal A, Borevitz JO. Global analysis of genetic, epigenetic and transcriptional polymorphisms in Arabidopsis thaliana using whole genome tiling arrays. PLoS Genet. 2008 Mar 21; 4(3):e1000032. PMID: 18369451; PMCID: PMC2265482.
      Citations: 68     Fields:    Translation:AnimalsCells
    78. Borevitz J, Neff M. Phenotypic analysis of Arabidopsis mutants: hypocotyl length. CSH Protoc. 2008 Mar 01; 2008:pdb.prot4962. PMID: 21356787.
      Citations: 1     
    79. Filiault DL, Wessinger CA, Dinneny JR, Lutes J, Borevitz JO, Weigel D, Chory J, Maloof JN. Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light. Proc Natl Acad Sci U S A. 2008 Feb 26; 105(8):3157-62. PMID: 18287016; PMCID: PMC2268601.
      Citations: 48     Fields:    Translation:AnimalsCells
    80. Jones-Rhoades MW, Borevitz JO, Preuss D. Genome-wide expression profiling of the Arabidopsis female gametophyte identifies families of small, secreted proteins. PLoS Genet. 2007 Oct; 3(10):1848-61. PMID: 17937500; PMCID: PMC2014789.
      Citations: 79     Fields:    Translation:AnimalsCells
    81. 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. Genome-wide patterns of single-feature polymorphism in Arabidopsis thaliana. Proc Natl Acad Sci U S A. 2007 Jul 17; 104(29):12057-62. PMID: 17626786; PMCID: PMC1914337.
      Citations: 81     Fields:    Translation:AnimalsCells
    82. Hanada K, Zhang X, Borevitz JO, Li WH, Shiu SH. 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. 2007 May; 17(5):632-40. PMID: 17395691; PMCID: PMC1855179.
      Citations: 76     Fields:    Translation:AnimalsCells
    83. Smemo S, Borevitz JO. Redundancy in genotyping arrays. PLoS One. 2007 Mar 14; 2(3):e287. PMID: 17356697; PMCID: PMC1805688.
      Citations: 5     Fields:    Translation:Humans
    84. Zhang X, Richards EJ, Borevitz JO. Genetic and epigenetic dissection of cis regulatory variation. Curr Opin Plant Biol. 2007 Apr; 10(2):142-8. PMID: 17300985.
      Citations: 15     Fields:    Translation:AnimalsCells
    85. Li Y, Roycewicz P, Smith E, Borevitz JO. Genetics of local adaptation in the laboratory: flowering time quantitative trait loci under geographic and seasonal conditions in Arabidopsis. PLoS One. 2006 Dec 27; 1:e105. PMID: 17205109; PMCID: PMC1762425.
      Citations: 13     Fields:    Translation:Animals
    86. Shiu SH, Borevitz JO. The next generation of microarray research: applications in evolutionary and ecological genomics. Heredity (Edinb). 2008 Feb; 100(2):141-9. PMID: 17091126.
      Citations: 14     Fields:    
    87. Gilad Y, Borevitz J. Using DNA microarrays to study natural variation. Curr Opin Genet Dev. 2006 Dec; 16(6):553-8. PMID: 17008090.
      Citations: 25     Fields:    Translation:HumansAnimals
    88. Baxter IR, Borevitz JO. Mapping a plant's chemical vocabulary. Nat Genet. 2006 Jul; 38(7):737-8. PMID: 16804534.
      Citations: 1     Fields:    Translation:Animals
    89. 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. A systematic map of genetic variation in Plasmodium falciparum. PLoS Pathog. 2006 Jun; 2(6):e57. PMID: 16789840; PMCID: PMC1480597.
      Citations: 112     Fields:    Translation:AnimalsCells
    90. Jiang R, Marjoram P, Borevitz JO, Tavaré S. Inferring population parameters from single-feature polymorphism data. Genetics. 2006 Aug; 173(4):2257-67. PMID: 16702439; PMCID: PMC1569697.
      Citations: 5     Fields:    Translation:Animals
    91. Kim SK, Borevitz J. Mining the HapMap to dissect complex traits. Genome Biol. 2006; 7(3):310. PMID: 16569264; PMCID: PMC1557747.
      Citations: 2     Fields:    Translation:Humans
    92. Kim S, Zhao K, Jiang R, Molitor J, Borevitz JO, Nordborg M, Marjoram P. Association mapping with single-feature polymorphisms. Genetics. 2006 Jun; 173(2):1125-33. PMID: 16510789; PMCID: PMC1526505.
      Citations: 17     Fields:    Translation:Animals
    93. Borevitz J. Genotyping and mapping with high-density oligonucleotide arrays. Methods Mol Biol. 2006; 323:137-45. PMID: 16739574.
      Citations: 15     Fields:    Translation:AnimalsCells
    94. Hazen SP, Schultz TF, Pruneda-Paz JL, Borevitz JO, Ecker JR, Kay SA. LUX ARRHYTHMO encodes a Myb domain protein essential for circadian rhythms. Proc Natl Acad Sci U S A. 2005 Jul 19; 102(29):10387-92. PMID: 16006522; PMCID: PMC1177380.
      Citations: 201     Fields:    Translation:Animals
    95. Werner JD, Borevitz JO, Uhlenhaut NH, Ecker JR, Chory J, Weigel D. FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions. Genetics. 2005 Jul; 170(3):1197-207. PMID: 15911588; PMCID: PMC1451178.
      Citations: 77     Fields:    Translation:AnimalsCells
    96. Hazen SP, Borevitz JO, Harmon FG, Pruneda-Paz JL, Schultz TF, Yanovsky MJ, Liljegren SJ, Ecker JR, Kay SA. Rapid array mapping of circadian clock and developmental mutations in Arabidopsis. Plant Physiol. 2005 Jun; 138(2):990-7. PMID: 15908595; PMCID: PMC1150413.
      Citations: 47     Fields:    Translation:AnimalsCells
    97. Rostoks N, Borevitz JO, Hedley PE, Russell J, Mudie S, Morris J, Cardle L, Marshall DF, Waugh R. Single-feature polymorphism discovery in the barley transcriptome. Genome Biol. 2005; 6(6):R54. PMID: 15960806; PMCID: PMC1175974.
      Citations: 60     Fields:    Translation:AnimalsCells
    98. Werner JD, Borevitz JO, Warthmann N, Trainer GT, Ecker JR, Chory J, Weigel D. 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. 2005 Feb 15; 102(7):2460-5. PMID: 15695584; PMCID: PMC548991.
      Citations: 83     Fields:    Translation:AnimalsCells
    99. Wolyn DJ, Borevitz JO, Loudet O, Schwartz C, Maloof J, Ecker JR, Berry CC, Chory J. Light-response quantitative trait loci identified with composite interval and eXtreme array mapping in Arabidopsis thaliana. Genetics. 2004 Jun; 167(2):907-17. PMID: 15238539; PMCID: PMC1470895.
      Citations: 41     Fields:    Translation:AnimalsCells
    100. Borevitz JO, Chory J. Genomics tools for QTL analysis and gene discovery. Curr Opin Plant Biol. 2004 Apr; 7(2):132-6. PMID: 15003212.
      Citations: 38     Fields:    
    101. Xia Y, Suzuki H, Borevitz J, Blount J, Guo Z, Patel K, Dixon RA, Lamb C. An extracellular aspartic protease functions in Arabidopsis disease resistance signaling. EMBO J. 2004 Feb 25; 23(4):980-8. PMID: 14765119; PMCID: PMC380998.
      Citations: 115     Fields:    Translation:AnimalsCells
    102. Borevitz JO, Ecker JR. Plant genomics: the third wave. Annu Rev Genomics Hum Genet. 2004; 5:443-77. PMID: 15485356.
      Citations: 20     Fields:    Translation:Animals
    103. Borevitz JO, Nordborg M. The impact of genomics on the study of natural variation in Arabidopsis. Plant Physiol. 2003 Jun; 132(2):718-25. PMID: 12805600; PMCID: PMC523862.
      Citations: 43     Fields:    Translation:Animals
    104. Borevitz JO, Liang D, Plouffe D, Chang HS, Zhu T, Weigel D, Berry CC, Winzeler E, Chory J. Large-scale identification of single-feature polymorphisms in complex genomes. Genome Res. 2003 Mar; 13(3):513-23. PMID: 12618383; PMCID: PMC430246.
      Citations: 159     Fields:    Translation:AnimalsCells
    105. Borevitz JO, Maloof JN, Lutes J, Dabi T, Redfern JL, Trainer GT, Werner JD, Asami T, Berry CC, Weigel D, Chory J. Quantitative trait loci controlling light and hormone response in two accessions of Arabidopsis thaliana. Genetics. 2002 Feb; 160(2):683-96. PMID: 11861571; PMCID: PMC1461994.
      Citations: 62     Fields:    Translation:AnimalsCells
    106. Nordborg M, Borevitz JO, Bergelson J, Berry CC, Chory J, Hagenblad J, Kreitman M, Maloof JN, Noyes T, Oefner PJ, Stahl EA, Weigel D. The extent of linkage disequilibrium in Arabidopsis thaliana. Nat Genet. 2002 Feb; 30(2):190-3. PMID: 11780140.
      Citations: 178     Fields:    Translation:HumansAnimals
    107. Maloof JN, Borevitz JO, Dabi T, Lutes J, Nehring RB, Redfern JL, Trainer GT, Wilson JM, Asami T, Berry CC, Weigel D, Chory J. Natural variation in light sensitivity of Arabidopsis. Nat Genet. 2001 Dec; 29(4):441-6. PMID: 11726931.
      Citations: 95     Fields:    Translation:Animals
    108. Borevitz JO, Xia Y, Blount J, Dixon RA, Lamb C. Activation tagging identifies a conserved MYB regulator of phenylpropanoid biosynthesis. Plant Cell. 2000 Dec; 12(12):2383-2394. PMID: 11148285; PMCID: PMC102225.
      Citations: 543     Fields:    Translation:AnimalsCells
    109. Maloof JN, Borevitz JO, Weigel D, Chory J. Natural variation in phytochrome signaling. Semin Cell Dev Biol. 2000 Dec; 11(6):523-30. PMID: 11145882.
      Citations: 10     Fields:    Translation:AnimalsCells
    110. Weigel D, Ahn JH, Borevitz JO, Christensen SK, Fankhauser C, Kardailsky I, Malancharuvil EJ, Neff MM, Nguyen JT, Sato S, Wang ZY, Xia Y, Dixon RA, Harrison MJ, Lamb CJ, Yanofsky MF, Chory J, Blázquez MA, Ferrándiz C. Activation tagging in Arabidopsis. Plant Physiol. 2000 Apr; 122(4):1003-13. PMID: 10759496; PMCID: PMC1539247.
      Citations: 358     Fields:    Translation:AnimalsCells
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