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Items: 1 to 50 of 465

1.

The Earth BioGenome project: Opportunities and Challenges for Plant Genomics and Conservation.

Exposito-Alonso M, Drost HG, Burbano HA, Weigel D.

Plant J. 2019 Dec 1. doi: 10.1111/tpj.14631. [Epub ahead of print]

PMID:
31788877
2.

AraPheno and the AraGWAS Catalog 2020: a major database update including RNA-Seq and knockout mutation data for Arabidopsis thaliana.

Togninalli M, Seren Ü, Freudenthal JA, Monroe JG, Meng D, Nordborg M, Weigel D, Borgwardt K, Korte A, Grimm DG.

Nucleic Acids Res. 2019 Oct 23. pii: gkz925. doi: 10.1093/nar/gkz925. [Epub ahead of print]

PMID:
31642487
3.

Sequence and Expression Differences Underlie Functional Specialization of Arabidopsis MicroRNAs miR159 and miR319.

Palatnik JF, Wollmann H, Schommer C, Schwab R, Boisbouvier J, Rodriguez R, Warthmann N, Allen E, Dezulian T, Huson D, Carrington JC, Weigel D.

Dev Cell. 2019 Oct 7;51(1):129. doi: 10.1016/j.devcel.2019.09.016. No abstract available.

PMID:
31593649
4.

Publisher Correction: Natural selection on the Arabidopsis thaliana genome in present and future climates.

Exposito-Alonso M; 500 Genomes Field Experiment Team, Burbano HA, Bossdorf O, Nielsen R, Weigel D.

Nature. 2019 Oct;574(7778):E16. doi: 10.1038/s41586-019-1626-0.

PMID:
31570884
5.

Multiple modes of convergent adaptation in the spread of glyphosate-resistant Amaranthus tuberculatus.

Kreiner JM, Giacomini DA, Bemm F, Waithaka B, Regalado J, Lanz C, Hildebrandt J, Sikkema PH, Tranel PJ, Weigel D, Stinchcombe JR, Wright SI.

Proc Natl Acad Sci U S A. 2019 Oct 15;116(42):21076-21084. doi: 10.1073/pnas.1900870116. Epub 2019 Sep 30. Erratum in: Proc Natl Acad Sci U S A. 2019 Nov 12;116(46):23363.

6.

An Ultra High-Density Arabidopsis thaliana Crossover Map That Refines the Influences of Structural Variation and Epigenetic Features.

Rowan BA, Heavens D, Feuerborn TR, Tock AJ, Henderson IR, Weigel D.

Genetics. 2019 Nov;213(3):771-787. doi: 10.1534/genetics.119.302406. Epub 2019 Sep 16.

7.

Natural selection on the Arabidopsis thaliana genome in present and future climates.

Exposito-Alonso M; 500 Genomes Field Experiment Team, Burbano HA, Bossdorf O, Nielsen R, Weigel D.

Nature. 2019 Sep;573(7772):126-129. doi: 10.1038/s41586-019-1520-9. Epub 2019 Aug 28. Erratum in: Nature. 2019 Sep 30;:.

PMID:
31462776
8.

RST1 and RIPR connect the cytosolic RNA exosome to the Ski complex in Arabidopsis.

Lange H, Ndecky SYA, Gomez-Diaz C, Pflieger D, Butel N, Zumsteg J, Kuhn L, Piermaria C, Chicher J, Christie M, Karaaslan ES, Lang PLM, Weigel D, Vaucheret H, Hammann P, Gagliardi D.

Nat Commun. 2019 Aug 27;10(1):3871. doi: 10.1038/s41467-019-11807-4.

9.

A Species-Wide Inventory of NLR Genes and Alleles in Arabidopsis thaliana.

Van de Weyer AL, Monteiro F, Furzer OJ, Nishimura MT, Cevik V, Witek K, Jones JDG, Dangl JL, Weigel D, Bemm F.

Cell. 2019 Aug 22;178(5):1260-1272.e14. doi: 10.1016/j.cell.2019.07.038.

10.

RPW8/HR repeats control NLR activation in Arabidopsis thaliana.

Barragan CA, Wu R, Kim ST, Xi W, Habring A, Hagmann J, Van de Weyer AL, Zaidem M, Ho WWH, Wang G, Bezrukov I, Weigel D, Chae E.

PLoS Genet. 2019 Jul 25;15(7):e1008313. doi: 10.1371/journal.pgen.1008313. eCollection 2019 Jul.

11.

Phytochrome activates the plastid-encoded RNA polymerase for chloroplast biogenesis via nucleus-to-plastid signaling.

Yoo CY, Pasoreck EK, Wang H, Cao J, Blaha GM, Weigel D, Chen M.

Nat Commun. 2019 Jun 14;10(1):2629. doi: 10.1038/s41467-019-10518-0.

12.

NCP activates chloroplast transcription by controlling phytochrome-dependent dual nuclear and plastidial switches.

Yang EJ, Yoo CY, Liu J, Wang H, Cao J, Li FW, Pryer KM, Sun TP, Weigel D, Zhou P, Chen M.

Nat Commun. 2019 Jun 14;10(1):2630. doi: 10.1038/s41467-019-10517-1.

13.

Allogeneic Hematopoietic Cell Transplantation Outcomes in Patients Carrying Isocitrate Dehydrogenase Mutations.

Salhotra A, Afkhami M, Yang D, Mokhtari S, Telatar M, Gu D, Pillai RK, Weisenburger DD, Murata-Collins J, Weigel D, Aoun P, Aldoss I, Al Malki MM, Khaled S, Mei M, Ali H, Aribi A, Budde E, Sandhu K, O'Donnell M, Snyder D, Pullarkat V, Forman SJ, Marcucci G, Nakamura R, Stein A.

Clin Lymphoma Myeloma Leuk. 2019 Jul;19(7):e400-e405. doi: 10.1016/j.clml.2019.04.007. Epub 2019 Apr 26.

PMID:
31155409
14.

A two-wave study on the health and relationship consequences of experienced stigma among individuals with concealable chronic health conditions.

Shrout MR, Weigel DJ.

J Health Psychol. 2019 May 19:1359105319849637. doi: 10.1177/1359105319849637. [Epub ahead of print]

PMID:
31106588
15.

Arabidopsis FLL2 promotes liquid-liquid phase separation of polyadenylation complexes.

Fang X, Wang L, Ishikawa R, Li Y, Fiedler M, Liu F, Calder G, Rowan B, Weigel D, Li P, Dean C.

Nature. 2019 May;569(7755):265-269. doi: 10.1038/s41586-019-1165-8. Epub 2019 May 1.

16.

All in the Family: The First Whole-Genome Survey of NLR Genes.

Weigel D.

Plant Cell. 2019 Jun;31(6):1212-1213. doi: 10.1105/tpc.19.00309. Epub 2019 Apr 29. No abstract available.

17.

Nonlinear phenotypic variation uncovers the emergence of heterosis in Arabidopsis thaliana.

Vasseur F, Fouqueau L, de Vienne D, Nidelet T, Violle C, Weigel D.

PLoS Biol. 2019 Apr 24;17(4):e3000214. doi: 10.1371/journal.pbio.3000214. eCollection 2019 Apr.

18.

Long-term balancing selection drives evolution of immunity genes in Capsella.

Koenig D, Hagmann J, Li R, Bemm F, Slotte T, Neuffer B, Wright SI, Weigel D.

Elife. 2019 Feb 26;8. pii: e43606. doi: 10.7554/eLife.43606.

19.

Correction: Hyperosmotic stress memory in Arabidopsis is mediated by distinct epigenetically labile sites in the genome and is restricted in the male germline by DNA glycosylase activity.

Wibowo A, Becker C, Marconi G, Durr J, Price J, Hagmann J, Papareddy R, Putra H, Kageyama J, Becker J, Weigel D, Gutierrez-Marcos J.

Elife. 2018 Dec 21;7. pii: e44302. doi: 10.7554/eLife.44302.

20.

Assessment of water quality at the largest dam in Algeria (Beni Haroun Dam) and effects of irrigation on soil characteristics of agricultural lands.

Bouaroudj S, Menad A, Bounamous A, Ali-Khodja H, Gherib A, Weigel DE, Chenchouni H.

Chemosphere. 2019 Mar;219:76-88. doi: 10.1016/j.chemosphere.2018.11.193. Epub 2018 Dec 3.

PMID:
30529856
21.

Fine-Grained Analysis of Spontaneous Mutation Spectrum and Frequency in Arabidopsis thaliana.

Weng ML, Becker C, Hildebrandt J, Neumann M, Rutter MT, Shaw RG, Weigel D, Fenster CB.

Genetics. 2019 Feb;211(2):703-714. doi: 10.1534/genetics.118.301721. Epub 2018 Dec 4.

22.

Publisher Correction: Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza.

Stein JC, Yu Y, Copetti D, Zwickl DJ, Zhang L, Zhang C, Chougule K, Gao D, Iwata A, Goicoechea JL, Wei S, Wang J, Liao Y, Wang M, Jacquemin J, Becker C, Kudrna D, Zhang J, Londono CEM, Song X, Lee S, Sanchez P, Zuccolo A, Ammiraju JSS, Talag J, Danowitz A, Rivera LF, Gschwend AR, Noutsos C, Wu CC, Kao SM, Zeng JW, Wei FJ, Zhao Q, Feng Q, El Baidouri M, Carpentier MC, Lasserre E, Cooke R, da Rosa Farias D, da Maia LC, Dos Santos RS, Nyberg KG, McNally KL, Mauleon R, Alexandrov N, Schmutz J, Flowers D, Fan C, Weigel D, Jena KK, Wicker T, Chen M, Han B, Henry R, Hsing YC, Kurata N, de Oliveira AC, Panaud O, Jackson SA, Machado CA, Sanderson MJ, Long M, Ware D, Wing RA.

Nat Genet. 2018 Nov;50(11):1618. doi: 10.1038/s41588-018-0261-2.

PMID:
30291357
23.

Comparing Arabidopsis receptor kinase and receptor protein-mediated immune signaling reveals BIK1-dependent differences.

Wan WL, Zhang L, Pruitt R, Zaidem M, Brugman R, Ma X, Krol E, Perraki A, Kilian J, Grossmann G, Stahl M, Shan L, Zipfel C, van Kan JAL, Hedrich R, Weigel D, Gust AA, Nürnberger T.

New Phytol. 2019 Mar;221(4):2080-2095. doi: 10.1111/nph.15497. Epub 2018 Oct 25.

24.

EFFECTOR OF TRANSCRIPTION factors are novel plant-specific regulators associated with genomic DNA methylation in Arabidopsis.

Tedeschi F, Rizzo P, Huong BTM, Czihal A, Rutten T, Altschmied L, Scharfenberg S, Grosse I, Becker C, Weigel D, Bäumlein H, Kuhlmann M.

New Phytol. 2019 Jan;221(1):261-278. doi: 10.1111/nph.15439. Epub 2018 Sep 25.

25.

Modulation of ACD6 dependent hyperimmunity by natural alleles of an Arabidopsis thaliana NLR resistance gene.

Zhu W, Zaidem M, Van de Weyer AL, Gutaker RM, Chae E, Kim ST, Bemm F, Li L, Todesco M, Schwab R, Unger F, Beha MJ, Demar M, Weigel D.

PLoS Genet. 2018 Sep 20;14(9):e1007628. doi: 10.1371/journal.pgen.1007628. eCollection 2018 Sep.

26.

Partial maintenance of organ-specific epigenetic marks during plant asexual reproduction leads to heritable phenotypic variation.

Wibowo A, Becker C, Durr J, Price J, Spaepen S, Hilton S, Putra H, Papareddy R, Saintain Q, Harvey S, Bending GD, Schulze-Lefert P, Weigel D, Gutierrez-Marcos J.

Proc Natl Acad Sci U S A. 2018 Sep 25;115(39):E9145-E9152. doi: 10.1073/pnas.1805371115. Epub 2018 Sep 10.

27.

An efficient CRISPR vector toolbox for engineering large deletions in Arabidopsis thaliana.

Wu R, Lucke M, Jang YT, Zhu W, Symeonidi E, Wang C, Fitz J, Xi W, Schwab R, Weigel D.

Plant Methods. 2018 Aug 2;14:65. doi: 10.1186/s13007-018-0330-7. eCollection 2018.

28.

Image-based methods for phenotyping growth dynamics and fitness components in Arabidopsis thaliana.

Vasseur F, Bresson J, Wang G, Schwab R, Weigel D.

Plant Methods. 2018 Jul 26;14:63. doi: 10.1186/s13007-018-0331-6. eCollection 2018.

29.

Arabidopsis thaliana and Pseudomonas Pathogens Exhibit Stable Associations over Evolutionary Timescales.

Karasov TL, Almario J, Friedemann C, Ding W, Giolai M, Heavens D, Kersten S, Lundberg DS, Neumann M, Regalado J, Neher RA, Kemen E, Weigel D.

Cell Host Microbe. 2018 Jul 11;24(1):168-179.e4. doi: 10.1016/j.chom.2018.06.011.

30.

Transmission ratio distortion is frequent in Arabidopsis thaliana controlled crosses.

Seymour DK, Chae E, Arioz BI, Koenig D, Weigel D.

Heredity (Edinb). 2019 Mar;122(3):294-304. doi: 10.1038/s41437-018-0107-9. Epub 2018 Jun 28.

31.

Adaptive diversification of growth allometry in the plant Arabidopsis thaliana.

Vasseur F, Exposito-Alonso M, Ayala-Garay OJ, Wang G, Enquist BJ, Vile D, Violle C, Weigel D.

Proc Natl Acad Sci U S A. 2018 Mar 27;115(13):3416-3421. doi: 10.1073/pnas.1709141115. Epub 2018 Mar 14.

32.

Genome-wide signatures of flowering adaptation to climate temperature: Regional analyses in a highly diverse native range of Arabidopsis thaliana.

Tabas-Madrid D, Méndez-Vigo B, Arteaga N, Marcer A, Pascual-Montano A, Weigel D, Xavier Picó F, Alonso-Blanco C.

Plant Cell Environ. 2018 Aug;41(8):1806-1820. doi: 10.1111/pce.13189. Epub 2018 Apr 20.

PMID:
29520809
33.

The rate and potential relevance of new mutations in a colonizing plant lineage.

Exposito-Alonso M, Becker C, Schuenemann VJ, Reiter E, Setzer C, Slovak R, Brachi B, Hagmann J, Grimm DG, Chen J, Busch W, Bergelson J, Ness RW, Krause J, Burbano HA, Weigel D.

PLoS Genet. 2018 Feb 12;14(2):e1007155. doi: 10.1371/journal.pgen.1007155. eCollection 2018 Feb.

34.

High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell.

Michael TP, Jupe F, Bemm F, Motley ST, Sandoval JP, Lanz C, Loudet O, Weigel D, Ecker JR.

Nat Commun. 2018 Feb 7;9(1):541. doi: 10.1038/s41467-018-03016-2.

35.

Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza.

Stein JC, Yu Y, Copetti D, Zwickl DJ, Zhang L, Zhang C, Chougule K, Gao D, Iwata A, Goicoechea JL, Wei S, Wang J, Liao Y, Wang M, Jacquemin J, Becker C, Kudrna D, Zhang J, Londono CEM, Song X, Lee S, Sanchez P, Zuccolo A, Ammiraju JSS, Talag J, Danowitz A, Rivera LF, Gschwend AR, Noutsos C, Wu CC, Kao SM, Zeng JW, Wei FJ, Zhao Q, Feng Q, El Baidouri M, Carpentier MC, Lasserre E, Cooke R, Rosa Farias DD, da Maia LC, Dos Santos RS, Nyberg KG, McNally KL, Mauleon R, Alexandrov N, Schmutz J, Flowers D, Fan C, Weigel D, Jena KK, Wicker T, Chen M, Han B, Henry R, Hsing YC, Kurata N, de Oliveira AC, Panaud O, Jackson SA, Machado CA, Sanderson MJ, Long M, Ware D, Wing RA.

Nat Genet. 2018 Feb;50(2):285-296. doi: 10.1038/s41588-018-0040-0. Epub 2018 Jan 22. Erratum in: Nat Genet. 2018 Nov;50(11):1618.

PMID:
29358651
36.

Complex Relationships between Chromatin Accessibility, Sequence Divergence, and Gene Expression in Arabidopsis thaliana.

Alexandre CM, Urton JR, Jean-Baptiste K, Huddleston J, Dorrity MW, Cuperus JT, Sullivan AM, Bemm F, Jolic D, Arsovski AA, Thompson A, Nemhauser JL, Fields S, Weigel D, Bubb KL, Queitsch C.

Mol Biol Evol. 2018 Apr 1;35(4):837-854. doi: 10.1093/molbev/msx326. Erratum in: Mol Biol Evol. 2018 Jul 1;35(7):1821.

37.

Genomic basis and evolutionary potential for extreme drought adaptation in Arabidopsis thaliana.

Exposito-Alonso M, Vasseur F, Ding W, Wang G, Burbano HA, Weigel D.

Nat Ecol Evol. 2018 Feb;2(2):352-358. doi: 10.1038/s41559-017-0423-0. Epub 2017 Dec 18.

38.

A Role for the F-Box Protein HAWAIIAN SKIRT in Plant microRNA Function.

Lang PLM, Christie MD, Dogan ES, Schwab R, Hagmann J, van de Weyer AL, Scacchi E, Weigel D.

Plant Physiol. 2018 Jan;176(1):730-741. doi: 10.1104/pp.17.01313. Epub 2017 Nov 7.

39.

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.

40.

The MicroRNA miR773 Is Involved in the Arabidopsis Immune Response to Fungal Pathogens.

Salvador-Guirao R, Baldrich P, Weigel D, Rubio-Somoza I, San Segundo B.

Mol Plant Microbe Interact. 2018 Feb;31(2):249-259. doi: 10.1094/MPMI-05-17-0108-R. Epub 2017 Dec 6.

PMID:
28990488
41.

Dose-dependent interactions between two loci trigger altered shoot growth in BG-5 × Krotzenburg-0 (Kro-0) hybrids of Arabidopsis thaliana.

Alhajturki D, Muralidharan S, Nurmi M, Rowan BA, Lunn JE, Boldt H, Salem MA, Alseekh S, Jorzig C, Feil R, Giavalisco P, Fernie AR, Weigel D, Laitinen RAE.

New Phytol. 2018 Jan;217(1):392-406. doi: 10.1111/nph.14781. Epub 2017 Sep 14.

42.

Validation of genomic predictions for wellness traits in US Holstein cows.

McNeel AK, Reiter BC, Weigel D, Osterstock J, Di Croce FA.

J Dairy Sci. 2017 Nov;100(11):9115-9124. doi: 10.3168/jds.2016-12323. Epub 2017 Aug 31.

43.

Identification of specific markers for amphetamine synthesised from the pre-precursor APAAN following the Leuckart route and retrospective search for APAAN markers in profiling databases from Germany and the Netherlands.

Hauser FM, Rößler T, Hulshof JW, Weigel D, Zimmermann R, Pütz M.

Drug Test Anal. 2018 Apr;10(4):671-680. doi: 10.1002/dta.2296. Epub 2017 Nov 9.

PMID:
28857492
44.

Prominent topologically associated domains differentiate global chromatin packing in rice from Arabidopsis.

Liu C, Cheng YJ, Wang JW, Weigel D.

Nat Plants. 2017 Sep;3(9):742-748. doi: 10.1038/s41477-017-0005-9. Epub 2017 Aug 28.

PMID:
28848243
45.

Altered chromatin compaction and histone methylation drive non-additive gene expression in an interspecific Arabidopsis hybrid.

Zhu W, Hu B, Becker C, Doğan ES, Berendzen KW, Weigel D, Liu C.

Genome Biol. 2017 Aug 22;18(1):157. doi: 10.1186/s13059-017-1281-4.

46.

Genomic estimation of complex traits reveals ancient maize adaptation to temperate North America.

Swarts K, Gutaker RM, Benz B, Blake M, Bukowski R, Holland J, Kruse-Peeples M, Lepak N, Prim L, Romay MC, Ross-Ibarra J, Sanchez-Gonzalez JJ, Schmidt C, Schuenemann VJ, Krause J, Matson RG, Weigel D, Buckler ES, Burbano HA.

Science. 2017 Aug 4;357(6350):512-515. doi: 10.1126/science.aam9425.

PMID:
28774930
47.

SPF45-related splicing factor for phytochrome signaling promotes photomorphogenesis by regulating pre-mRNA splicing in Arabidopsis.

Xin R, Zhu L, Salomé PA, Mancini E, Marshall CM, Harmon FG, Yanovsky MJ, Weigel D, Huq E.

Proc Natl Acad Sci U S A. 2017 Aug 15;114(33):E7018-E7027. doi: 10.1073/pnas.1706379114. Epub 2017 Jul 31.

48.

High-quality de novo assembly of the apple genome and methylome dynamics of early fruit development.

Daccord N, Celton JM, Linsmith G, Becker C, Choisne N, Schijlen E, van de Geest H, Bianco L, Micheletti D, Velasco R, Di Pierro EA, Gouzy J, Rees DJG, Guérif P, Muranty H, Durel CE, Laurens F, Lespinasse Y, Gaillard S, Aubourg S, Quesneville H, Weigel D, van de Weg E, Troggio M, Bucher E.

Nat Genet. 2017 Jul;49(7):1099-1106. doi: 10.1038/ng.3886. Epub 2017 Jun 5.

PMID:
28581499
49.

Arabidopsis proteins with a transposon-related domain act in gene silencing.

Ikeda Y, Pélissier T, Bourguet P, Becker C, Pouch-Pélissier MN, Pogorelcnik R, Weingartner M, Weigel D, Deragon JM, Mathieu O.

Nat Commun. 2017 May 3;8:15122. doi: 10.1038/ncomms15122.

50.

Activation of a Plant NLR Complex through Heteromeric Association with an Autoimmune Risk Variant of Another NLR.

Tran DTN, Chung EH, Habring-Müller A, Demar M, Schwab R, Dangl JL, Weigel D, Chae E.

Curr Biol. 2017 Apr 24;27(8):1148-1160. doi: 10.1016/j.cub.2017.03.018. Epub 2017 Apr 13.

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