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Items: 1 to 50 of 124

1.

Eco-Metabolomics and Metabolic Modeling: Making the Leap From Model Systems in the Lab to Native Populations in the Field.

Nagler M, Nägele T, Gilli C, Fragner L, Korte A, Platzer A, Farlow A, Nordborg M, Weckwerth W.

Front Plant Sci. 2018 Nov 6;9:1556. doi: 10.3389/fpls.2018.01556. eCollection 2018.

2.

Publisher Correction: Ancient hybridization and strong adaptation to viruses across African vervet monkey populations.

Svardal H, Jasinska AJ, Apetrei C, Coppola G, Huang Y, Schmitt CA, Jacquelin B, Ramensky V, Müller-Trutwin M, Antonio M, Weinstock G, Grobler JP, Dewar K, Wilson RK, Turner TR, Warren WC, Freimer NB, Nordborg M.

Nat Genet. 2018 Nov;50(11):1617. doi: 10.1038/s41588-018-0124-x.

PMID:
30327573
3.

The Aquilegia genome provides insight into adaptive radiation and reveals an extraordinarily polymorphic chromosome with a unique history.

Filiault DL, Ballerini ES, Mandáková T, Aköz G, Derieg NJ, Schmutz J, Jenkins J, Grimwood J, Shu S, Hayes RD, Hellsten U, Barry K, Yan J, Mihaltcheva S, Karafiátová M, Nizhynska V, Kramer EM, Lysak MA, Hodges SA, Nordborg M.

Elife. 2018 Oct 16;7. pii: e36426. doi: 10.7554/eLife.36426.

4.

GWAS with Heterogeneous Data: Estimating the Fraction of Phenotypic Variation Mediated by Gene Expression Data.

Sasaki E, Frommlet F, Nordborg M.

G3 (Bethesda). 2018 Aug 30;8(9):3059-3068. doi: 10.1534/g3.118.200571.

PMID:
30068524
Free PMC Article
5.

Corrigendum to "Settlement patterns of the coral Acropora millepora on sediment-laden surfaces" [Sci. Total Environ. 609 (2017) 277-288].

Ricardo GF, Jones RJ, Nordborg M, Negri AP.

Sci Total Environ. 2018 Nov 1;640-641:116. doi: 10.1016/j.scitotenv.2018.05.219. Epub 2018 May 30. No abstract available.

PMID:
29859428
6.

Phototoxic effects of PAH and UVA exposure on molecular responses and developmental success in coral larvae.

Overmans S, Nordborg M, Díaz-Rúa R, Brinkman DL, Negri AP, Agustí S.

Aquat Toxicol. 2018 May;198:165-174. doi: 10.1016/j.aquatox.2018.03.008. Epub 2018 Mar 9.

7.

The maternal environment interacts with genetic variation in regulating seed dormancy in Swedish Arabidopsis thaliana.

Kerdaffrec E, Nordborg M.

PLoS One. 2017 Dec 27;12(12):e0190242. doi: 10.1371/journal.pone.0190242. eCollection 2017.

8.

Verification of Arabidopsis stock collections using SNPmatch, a tool for genotyping high-plexed samples.

Pisupati R, Reichardt I, Seren Ü, Korte P, Nizhynska V, Kerdaffrec E, Uzunova K, Rabanal FA, Filiault DL, Nordborg M.

Sci Data. 2017 Dec 19;4:170184. doi: 10.1038/sdata.2017.184.

9.

Ancient hybridization and strong adaptation to viruses across African vervet monkey populations.

Svardal H, Jasinska AJ, Apetrei C, Coppola G, Huang Y, Schmitt CA, Jacquelin B, Ramensky V, Müller-Trutwin M, Antonio M, Weinstock G, Grobler JP, Dewar K, Wilson RK, Turner TR, Warren WC, Freimer NB, Nordborg M.

Nat Genet. 2017 Dec;49(12):1705-1713. doi: 10.1038/ng.3980. Epub 2017 Oct 30. Erratum in: Nat Genet. 2018 Nov;50(11):1617.

10.

The AraGWAS Catalog: a curated and standardized Arabidopsis thaliana GWAS catalog.

Togninalli M, Seren Ü, Meng D, Fitz J, Nordborg M, Weigel D, Borgwardt K, Korte A, Grimm DG.

Nucleic Acids Res. 2018 Jan 4;46(D1):D1150-D1156. doi: 10.1093/nar/gkx954.

11.

Settlement patterns of the coral Acropora millepora on sediment-laden surfaces.

Ricardo GF, Jones RJ, Nordborg M, Negri AP.

Sci Total Environ. 2017 Dec 31;609:277-288. doi: 10.1016/j.scitotenv.2017.07.153. Epub 2017 Jul 24. Erratum in: Sci Total Environ. 2018 Nov 1;640-641:116.

12.

Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana.

Rabanal FA, Mandáková T, Soto-Jiménez LM, Greenhalgh R, Parrott DL, Lutzmayer S, Steffen JG, Nizhynska V, Mott R, Lysak MA, Clark RM, Nordborg M.

Genome Biol. 2017 May 3;18(1):75. doi: 10.1186/s13059-017-1209-z.

13.

Patterns of Polymorphism at the Self-Incompatibility Locus in 1,083 Arabidopsis thaliana Genomes.

Tsuchimatsu T, Goubet PM, Gallina S, Holl AC, Fobis-Loisy I, Bergès H, Marande W, Prat E, Meng D, Long Q, Platzer A, Nordborg M, Vekemans X, Castric V.

Mol Biol Evol. 2017 Aug 1;34(8):1878-1889. doi: 10.1093/molbev/msx122.

14.

Bioenergy production and sustainable development: science base for policymaking remains limited.

Robledo-Abad C, Althaus HJ, Berndes G, Bolwig S, Corbera E, Creutzig F, Garcia-Ulloa J, Geddes A, Gregg JS, Haberl H, Hanger S, Harper RJ, Hunsberger C, Larsen RK, Lauk C, Leitner S, Lilliestam J, Lotze-Campen H, Muys B, Nordborg M, Ölund M, Orlowsky B, Popp A, Portugal-Pereira J, Reinhard J, Scheiffle L, Smith P.

Glob Change Biol Bioenergy. 2017 Mar;9(3):541-556. doi: 10.1111/gcbb.12338. Epub 2016 Mar 23. Review.

15.

Unstable Inheritance of 45S rRNA Genes in Arabidopsis thaliana.

Rabanal FA, Nizhynska V, Mandáková T, Novikova PY, Lysak MA, Mott R, Nordborg M.

G3 (Bethesda). 2017 Apr 3;7(4):1201-1209. doi: 10.1534/g3.117.040204.

16.

On the post-glacial spread of human commensal Arabidopsis thaliana.

Lee CR, Svardal H, Farlow A, Exposito-Alonso M, Ding W, Novikova P, Alonso-Blanco C, Weigel D, Nordborg M.

Nat Commun. 2017 Feb 9;8:14458. doi: 10.1038/ncomms14458.

17.

Genomic Rearrangements in Arabidopsis Considered as Quantitative Traits.

Imprialou M, Kahles A, Steffen JG, Osborne EJ, Gan X, Lempe J, Bhomra A, Belfield E, Visscher A, Greenhalgh R, Harberd NP, Goram R, Hein J, Robert-Seilaniantz A, Jones J, Stegle O, Kover P, Tsiantis M, Nordborg M, Rätsch G, Clark RM, Mott R.

Genetics. 2017 Apr;205(4):1425-1441. doi: 10.1534/genetics.116.192823. Epub 2017 Feb 7.

18.

Genome Sequencing Reveals the Origin of the Allotetraploid Arabidopsis suecica.

Novikova PY, Tsuchimatsu T, Simon S, Nizhynska V, Voronin V, Burns R, Fedorenko OM, Holm S, Säll T, Prat E, Marande W, Castric V, Nordborg M.

Mol Biol Evol. 2017 Apr 1;34(4):957-968. doi: 10.1093/molbev/msw299.

19.

Freshwater ecotoxicity impacts from pesticide use in animal and vegetable foods produced in Sweden.

Nordborg M, Davis J, Cederberg C, Woodhouse A.

Sci Total Environ. 2017 Mar 1;581-582:448-459. doi: 10.1016/j.scitotenv.2016.12.153. Epub 2017 Jan 9.

PMID:
28082057
20.

Multiple alleles at a single locus control seed dormancy in Swedish Arabidopsis.

Kerdaffrec E, Filiault DL, Korte A, Sasaki E, Nizhynska V, Seren Ü, Nordborg M.

Elife. 2016 Dec 14;5. pii: e22502. doi: 10.7554/eLife.22502.

21.

AraPheno: a public database for Arabidopsis thaliana phenotypes.

Seren Ü, Grimm D, Fitz J, Weigel D, Nordborg M, Borgwardt K, Korte A.

Nucleic Acids Res. 2017 Jan 4;45(D1):D1054-D1059. doi: 10.1093/nar/gkw986. Epub 2016 Oct 24.

22.

Germline replications and somatic mutation accumulation are independent of vegetative life span in Arabidopsis.

Watson JM, Platzer A, Kazda A, Akimcheva S, Valuchova S, Nizhynska V, Nordborg M, Riha K.

Proc Natl Acad Sci U S A. 2016 Oct 25;113(43):12226-12231. Epub 2016 Oct 11.

23.

The genetic architecture of freezing tolerance varies across the range of Arabidopsis thaliana.

Horton MW, Willems G, Sasaki E, Koornneef M, Nordborg M.

Plant Cell Environ. 2016 Nov;39(11):2570-2579. doi: 10.1111/pce.12812. Epub 2016 Sep 21.

PMID:
27487257
24.

Molecular, genetic and evolutionary analysis of a paracentric inversion in Arabidopsis thaliana.

Fransz P, Linc G, Lee CR, Aflitos SA, Lasky JR, Toomajian C, Ali H, Peters J, van Dam P, Ji X, Kuzak M, Gerats T, Schubert I, Schneeberger K, Colot V, Martienssen R, Koornneef M, Nordborg M, Juenger TE, de Jong H, Schranz ME.

Plant J. 2016 Oct;88(2):159-178. doi: 10.1111/tpj.13262. Epub 2016 Sep 13.

25.

Sequencing of the genus Arabidopsis identifies a complex history of nonbifurcating speciation and abundant trans-specific polymorphism.

Novikova PY, Hohmann N, Nizhynska V, Tsuchimatsu T, Ali J, Muir G, Guggisberg A, Paape T, Schmid K, Fedorenko OM, Holm S, Säll T, Schlötterer C, Marhold K, Widmer A, Sese J, Shimizu KK, Weigel D, Krämer U, Koch MA, Nordborg M.

Nat Genet. 2016 Sep;48(9):1077-82. doi: 10.1038/ng.3617. Epub 2016 Jul 18.

26.

Epigenomic Diversity in a Global Collection of Arabidopsis thaliana Accessions.

Kawakatsu T, Huang SC, Jupe F, Sasaki E, Schmitz RJ, Urich MA, Castanon R, Nery JR, Barragan C, He Y, Chen H, Dubin M, Lee CR, Wang C, Bemm F, Becker C, O'Neil R, O'Malley RC, Quarless DX; 1001 Genomes Consortium, Schork NJ, Weigel D, Nordborg M, Ecker JR.

Cell. 2016 Jul 14;166(2):492-505. doi: 10.1016/j.cell.2016.06.044.

27.

Limited Contribution of DNA Methylation Variation to Expression Regulation in Arabidopsis thaliana.

Meng D, Dubin M, Zhang P, Osborne EJ, Stegle O, Clark RM, Nordborg M.

PLoS Genet. 2016 Jul 11;12(7):e1006141. doi: 10.1371/journal.pgen.1006141. eCollection 2016 Jul.

28.

A Proposal Regarding Best Practices for Validating the Identity of Genetic Stocks and the Effects of Genetic Variants.

Bergelson J, Buckler ES, Ecker JR, Nordborg M, Weigel D.

Plant Cell. 2016 Mar;28(3):606-9. doi: 10.1105/tpc.15.00502. Epub 2016 Mar 8. No abstract available.

29.

"Missing" G x E Variation Controls Flowering Time in Arabidopsis thaliana.

Sasaki E, Zhang P, Atwell S, Meng D, Nordborg M.

PLoS Genet. 2015 Oct 16;11(10):e1005597. doi: 10.1371/journal.pgen.1005597. eCollection 2015 Oct.

30.

50 years of Arabidopsis research: highlights and future directions.

Provart NJ, Alonso J, Assmann SM, Bergmann D, Brady SM, Brkljacic J, Browse J, Chapple C, Colot V, Cutler S, Dangl J, Ehrhardt D, Friesner JD, Frommer WB, Grotewold E, Meyerowitz E, Nemhauser J, Nordborg M, Pikaard C, Shanklin J, Somerville C, Stitt M, Torii KU, Waese J, Wagner D, McCourt P.

New Phytol. 2016 Feb;209(3):921-44. doi: 10.1111/nph.13687. Epub 2015 Oct 14. Review.

31.

Population Genomics for Understanding Adaptation in Wild Plant Species.

Weigel D, Nordborg M.

Annu Rev Genet. 2015;49:315-38. doi: 10.1146/annurev-genet-120213-092110. Epub 2015 Oct 2.

PMID:
26436459
32.

The genome of the vervet (Chlorocebus aethiops sabaeus).

Warren WC, Jasinska AJ, García-Pérez R, Svardal H, Tomlinson C, Rocchi M, Archidiacono N, Capozzi O, Minx P, Montague MJ, Kyung K, Hillier LW, Kremitzki M, Graves T, Chiang C, Hughes J, Tran N, Huang Y, Ramensky V, Choi OW, Jung YJ, Schmitt CA, Juretic N, Wasserscheid J, Turner TR, Wiseman RW, Tuscher JJ, Karl JA, Schmitz JE, Zahn R, O'Connor DH, Redmond E, Nisbett A, Jacquelin B, Müller-Trutwin MC, Brenchley JM, Dione M, Antonio M, Schroth GP, Kaplan JR, Jorgensen MJ, Thomas GW, Hahn MW, Raney BJ, Aken B, Nag R, Schmitz J, Churakov G, Noll A, Stanyon R, Webb D, Thibaud-Nissen F, Nordborg M, Marques-Bonet T, Dewar K, Weinstock GM, Wilson RK, Freimer NB.

Genome Res. 2015 Dec;25(12):1921-33. doi: 10.1101/gr.192922.115. Epub 2015 Sep 16.

33.

The Spontaneous Mutation Rate in the Fission Yeast Schizosaccharomyces pombe.

Farlow A, Long H, Arnoux S, Sung W, Doak TG, Nordborg M, Lynch M.

Genetics. 2015 Oct;201(2):737-44. doi: 10.1534/genetics.115.177329. Epub 2015 Aug 10.

34.

DNA methylation in Arabidopsis has a genetic basis and shows evidence of local adaptation.

Dubin MJ, Zhang P, Meng D, Remigereau MS, Osborne EJ, Paolo Casale F, Drewe P, Kahles A, Jean G, Vilhjálmsson B, Jagoda J, Irez S, Voronin V, Song Q, Long Q, Rätsch G, Stegle O, Clark RM, Nordborg M.

Elife. 2015 May 5;4:e05255. doi: 10.7554/eLife.05255.

35.

Genetic architecture of natural variation of telomere length in Arabidopsis thaliana.

Fulcher N, Teubenbacher A, Kerdaffrec E, Farlow A, Nordborg M, Riha K.

Genetics. 2015 Feb;199(2):625-35. doi: 10.1534/genetics.114.172163. Epub 2014 Dec 8.

36.

Genome-wide association study of Arabidopsis thaliana leaf microbial community.

Horton MW, Bodenhausen N, Beilsmith K, Meng D, Muegge BD, Subramanian S, Vetter MM, Vilhjálmsson BJ, Nordborg M, Gordon JI, Bergelson J.

Nat Commun. 2014 Nov 10;5:5320. doi: 10.1038/ncomms6320.

37.

Modeling potential freshwater ecotoxicity impacts due to pesticide use in biofuel feedstock production: the cases of maize, rapeseed, salix, soybean, sugar cane, and wheat.

Nordborg M, Cederberg C, Berndes G.

Environ Sci Technol. 2014 Oct 7;48(19):11379-88. doi: 10.1021/es502497p. Epub 2014 Sep 26.

PMID:
25207789
38.

Keeping it local: evidence for positive selection in Swedish Arabidopsis thaliana.

Huber CD, Nordborg M, Hermisson J, Hellmann I.

Mol Biol Evol. 2014 Nov;31(11):3026-39. doi: 10.1093/molbev/msu247. Epub 2014 Aug 25.

39.

Multiple FLC haplotypes defined by independent cis-regulatory variation underpin life history diversity in Arabidopsis thaliana.

Li P, Filiault D, Box MS, Kerdaffrec E, van Oosterhout C, Wilczek AM, Schmitt J, McMullan M, Bergelson J, Nordborg M, Dean C.

Genes Dev. 2014 Aug 1;28(15):1635-40. doi: 10.1101/gad.245993.114. Epub 2014 Jul 17.

40.

Towards the discovery of novel genetic component involved in stress resistance in Arabidopsis thaliana.

Juraniec M, Lequeux H, Hermans C, Willems G, Nordborg M, Schneeberger K, Salis P, Vromant M, Lutts S, Verbruggen N.

New Phytol. 2014 Feb;201(3):810-24. doi: 10.1111/nph.12554. Epub 2013 Oct 18.

41.

Massive genomic variation and strong selection in Arabidopsis thaliana lines from Sweden.

Long Q, Rabanal FA, Meng D, Huber CD, Farlow A, Platzer A, Zhang Q, Vilhjálmsson BJ, Korte A, Nizhynska V, Voronin V, Korte P, Sedman L, Mandáková T, Lysak MA, Seren Ü, Hellmann I, Nordborg M.

Nat Genet. 2013 Aug;45(8):884-890. doi: 10.1038/ng.2678. Epub 2013 Jun 23.

42.

The Capsella rubella genome and the genomic consequences of rapid mating system evolution.

Slotte T, Hazzouri KM, Ågren JA, Koenig D, Maumus F, Guo YL, Steige K, Platts AE, Escobar JS, Newman LK, Wang W, Mandáková T, Vello E, Smith LM, Henz SR, Steffen J, Takuno S, Brandvain Y, Coop G, Andolfatto P, Hu TT, Blanchette M, Clark RM, Quesneville H, Nordborg M, Gaut BS, Lysak MA, Jenkins J, Grimwood J, Chapman J, Prochnik S, Shu S, Rokhsar D, Schmutz J, Weigel D, Wright SI.

Nat Genet. 2013 Jul;45(7):831-5. doi: 10.1038/ng.2669. Epub 2013 Jun 9.

PMID:
23749190
43.

Co-variation between seed dormancy, growth rate and flowering time changes with latitude in Arabidopsis thaliana.

Debieu M, Tang C, Stich B, Sikosek T, Effgen S, Josephs E, Schmitt J, Nordborg M, Koornneef M, de Meaux J.

PLoS One. 2013 May 23;8(5):e61075. doi: 10.1371/journal.pone.0061075. Print 2013.

44.

Genetic architecture of skin and eye color in an African-European admixed population.

Beleza S, Johnson NA, Candille SI, Absher DM, Coram MA, Lopes J, Campos J, Araújo II, Anderson TM, Vilhjálmsson BJ, Nordborg M, Correia E Silva A, Shriver MD, Rocha J, Barsh GS, Tang H.

PLoS Genet. 2013 Mar;9(3):e1003372. doi: 10.1371/journal.pgen.1003372. Epub 2013 Mar 21.

45.

JAWAMix5: an out-of-core HDF5-based java implementation of whole-genome association studies using mixed models.

Long Q, Zhang Q, Vilhjalmsson BJ, Forai P, Seren Ü, Nordborg M.

Bioinformatics. 2013 May 1;29(9):1220-2. doi: 10.1093/bioinformatics/btt122. Epub 2013 Mar 11.

PMID:
23479353
46.

GWAPP: a web application for genome-wide association mapping in Arabidopsis.

Seren Ü, Vilhjálmsson BJ, Horton MW, Meng D, Forai P, Huang YS, Long Q, Segura V, Nordborg M.

Plant Cell. 2012 Dec;24(12):4793-805. doi: 10.1105/tpc.112.108068. Epub 2012 Dec 31.

47.

The nature of confounding in genome-wide association studies.

Vilhjálmsson BJ, Nordborg M.

Nat Rev Genet. 2013 Jan;14(1):1-2. doi: 10.1038/nrg3382. Epub 2012 Nov 20.

PMID:
23165185
48.

Genome-wide association studies identify heavy metal ATPase3 as the primary determinant of natural variation in leaf cadmium in Arabidopsis thaliana.

Chao DY, Silva A, Baxter I, Huang YS, Nordborg M, Danku J, Lahner B, Yakubova E, Salt DE.

PLoS Genet. 2012 Sep;8(9):e1002923. doi: 10.1371/journal.pgen.1002923. Epub 2012 Sep 6.

49.

A mixed-model approach for genome-wide association studies of correlated traits in structured populations.

Korte A, Vilhjálmsson BJ, Segura V, Platt A, Long Q, Nordborg M.

Nat Genet. 2012 Sep;44(9):1066-71. doi: 10.1038/ng.2376. Epub 2012 Aug 19.

50.

An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations.

Segura V, Vilhjálmsson BJ, Platt A, Korte A, Seren Ü, Long Q, Nordborg M.

Nat Genet. 2012 Jun 17;44(7):825-30. doi: 10.1038/ng.2314.

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