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Items: 31

1.

Global Diversity of the Brachypodium Species Complex as a Resource for Genome-Wide Association Studies Demonstrated for Agronomic Traits in Response to Climate.

Wilson PB, Streich JC, Murray KD, Eichten SR, Cheng R, Aitken NC, Spokas K, Warthmann N, Gordon SP; Accession Contributors, Vogel JP, Borevitz JO.

Genetics. 2019 Jan;211(1):317-331. doi: 10.1534/genetics.118.301589. Epub 2018 Nov 16.

2.

Analysis of DNAs associated with coconut foliar decay disease implicates a unique single-stranded DNA virus representing a new taxon.

Gronenborn B, Randles JW, Knierim D, Barrière Q, Vetten HJ, Warthmann N, Cornu D, Sileye T, Winter S, Timchenko T.

Sci Rep. 2018 Apr 9;8(1):5698. doi: 10.1038/s41598-018-23739-y.

3.

Do longer root hairs improve phosphorus uptake? Testing the hypothesis with transgenic Brachypodium distachyon lines overexpressing endogenous RSL genes.

Zhang C, Simpson RJ, Kim CM, Warthmann N, Delhaize E, Dolan L, Byrne ME, Wu Y, Ryan PR.

New Phytol. 2018 Mar;217(4):1654-1666. doi: 10.1111/nph.14980. Epub 2018 Jan 17.

4.

kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity.

Murray KD, Webers C, Ong CS, Borevitz J, Warthmann N.

PLoS Comput Biol. 2017 Sep 5;13(9):e1005727. doi: 10.1371/journal.pcbi.1005727. eCollection 2017 Sep.

5.

DNA metabarcoding of unfractionated water samples relates phyto-, zoo- and bacterioplankton dynamics and reveals a single-taxon bacterial bloom.

Wurzbacher C, Attermeyer K, Kettner MT, Flintrop C, Warthmann N, Hilt S, Grossart HP, Monaghan MT.

Environ Microbiol Rep. 2017 Aug;9(4):383-388. doi: 10.1111/1758-2229.12540. Epub 2017 Jun 27.

PMID:
28429584
6.

Evolution. Response to Comment on "A promiscuous intermediate underlies the evolution of LEAFY DNA binding specificity".

Brockington SF, Moyroud E, Sayou C, Monniaux M, Nanao MH, Thévenon E, Chahtane H, Warthmann N, Melkonian M, Zhang Y, Wong GK, Weigel D, Dumas R, Parcy F.

Science. 2015 Feb 6;347(6222):621. doi: 10.1126/science.1256011.

7.

Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation.

Willing EM, Rawat V, Mandáková T, Maumus F, James GV, Nordström KJ, Becker C, Warthmann N, Chica C, Szarzynska B, Zytnicki M, Albani MC, Kiefer C, Bergonzi S, Castaings L, Mateos JL, Berns MC, Bujdoso N, Piofczyk T, de Lorenzo L, Barrero-Sicilia C, Mateos I, Piednoël M, Hagmann J, Chen-Min-Tao R, Iglesias-Fernández R, Schuster SC, Alonso-Blanco C, Roudier F, Carbonero P, Paz-Ares J, Davis SJ, Pecinka A, Quesneville H, Colot V, Lysak MA, Weigel D, Coupland G, Schneeberger K.

Nat Plants. 2015 Feb 2;1:14023. doi: 10.1038/nplants.2014.23.

PMID:
27246759
8.

A promiscuous intermediate underlies the evolution of LEAFY DNA binding specificity.

Sayou C, Monniaux M, Nanao MH, Moyroud E, Brockington SF, Thévenon E, Chahtane H, Warthmann N, Melkonian M, Zhang Y, Wong GK, Weigel D, Parcy F, Dumas R.

Science. 2014 Feb 7;343(6171):645-8. doi: 10.1126/science.1248229. Epub 2014 Jan 16.

PMID:
24436181
9.

Artificial microRNAs for specific gene silencing in rice.

Warthmann N, Ossowski S, Schwab R, Weigel D.

Methods Mol Biol. 2013;956:131-49. doi: 10.1007/978-1-62703-194-3_11.

PMID:
23135850
10.

The recombination landscape in Arabidopsis thaliana F2 populations.

Salomé PA, Bomblies K, Fitz J, Laitinen RA, Warthmann N, Yant L, Weigel D.

Heredity (Edinb). 2012 Apr;108(4):447-55. doi: 10.1038/hdy.2011.95. Epub 2011 Nov 9.

11.

Reference-guided assembly of four diverse Arabidopsis thaliana genomes.

Schneeberger K, Ossowski S, Ott F, Klein JD, Wang X, Lanz C, Smith LM, Cao J, Fitz J, Warthmann N, Henz SR, Huson DH, Weigel D.

Proc Natl Acad Sci U S A. 2011 Jun 21;108(25):10249-54. doi: 10.1073/pnas.1107739108. Epub 2011 Jun 6.

12.

Major-effect alleles at relatively few loci underlie distinct vernalization and flowering variation in Arabidopsis accessions.

Strange A, Li P, Lister C, Anderson J, Warthmann N, Shindo C, Irwin J, Nordborg M, Dean C.

PLoS One. 2011;6(5):e19949. doi: 10.1371/journal.pone.0019949. Epub 2011 May 20.

13.

Local-scale patterns of genetic variability, outcrossing, and spatial structure in natural stands of Arabidopsis thaliana.

Bomblies K, Yant L, Laitinen RA, Kim ST, Hollister JD, Warthmann N, Fitz J, Weigel D.

PLoS Genet. 2010 Mar 26;6(3):e1000890. doi: 10.1371/journal.pgen.1000890.

14.

The scale of population structure in Arabidopsis thaliana.

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.

PLoS Genet. 2010 Feb 12;6(2):e1000843. doi: 10.1371/journal.pgen.1000843.

15.

The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana.

Ossowski S, Schneeberger K, Lucas-Lledó JI, Warthmann N, Clark RM, Shaw RG, Weigel D, Lynch M.

Science. 2010 Jan 1;327(5961):92-4. doi: 10.1126/science.1180677.

16.

Directed gene silencing with artificial microRNAs.

Schwab R, Ossowski S, Warthmann N, Weigel D.

Methods Mol Biol. 2010;592:71-88. doi: 10.1007/978-1-60327-005-2_6.

PMID:
19802590
17.

Simultaneous alignment of short reads against multiple genomes.

Schneeberger K, Hagmann J, Ossowski S, Warthmann N, Gesing S, Kohlbacher O, Weigel D.

Genome Biol. 2009;10(9):R98. doi: 10.1186/gb-2009-10-9-r98. Epub 2009 Sep 17.

18.

Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arabidopsis thaliana.

Schwartz C, Balasubramanian S, Warthmann N, Michael TP, Lempe J, Sureshkumar S, Kobayashi Y, Maloof JN, Borevitz JO, Chory J, Weigel D.

Genetics. 2009 Oct;183(2):723-32, 1SI-7SI. doi: 10.1534/genetics.109.104984. Epub 2009 Aug 3.

19.

QTL mapping in new Arabidopsis thaliana advanced intercross-recombinant inbred lines.

Balasubramanian S, Schwartz C, Singh A, Warthmann N, Kim MC, Maloof JN, Loudet O, Trainer GT, Dabi T, Borevitz JO, Chory J, Weigel D.

PLoS One. 2009;4(2):e4318. doi: 10.1371/journal.pone.0004318. Epub 2009 Feb 2.

20.

Sequencing of natural strains of Arabidopsis thaliana with short reads.

Ossowski S, Schneeberger K, Clark RM, Lanz C, Warthmann N, Weigel D.

Genome Res. 2008 Dec;18(12):2024-33. doi: 10.1101/gr.080200.108. Epub 2008 Sep 25.

21.

Highly specific gene silencing by artificial miRNAs in rice.

Warthmann N, Chen H, Ossowski S, Weigel D, Hervé P.

PLoS One. 2008 Mar 19;3(3):e1829. doi: 10.1371/journal.pone.0001829.

22.

Comparative analysis of the MIR319a microRNA locus in Arabidopsis and related Brassicaceae.

Warthmann N, Das S, Lanz C, Weigel D.

Mol Biol Evol. 2008 May;25(5):892-902. doi: 10.1093/molbev/msn029. Epub 2008 Feb 22.

PMID:
18296705
23.

Autoimmune response as a mechanism for a Dobzhansky-Muller-type incompatibility syndrome in plants.

Bomblies K, Lempe J, Epple P, Warthmann N, Lanz C, Dangl JL, Weigel D.

PLoS Biol. 2007 Sep;5(9):e236.

24.

MSQT for choosing SNP assays from multiple DNA alignments.

Warthmann N, Fitz J, Weigel D.

Bioinformatics. 2007 Oct 15;23(20):2784-7. Epub 2007 Sep 4.

PMID:
17785349
25.

ESTs and EST-linked polymorphisms for genetic mapping and phylogenetic reconstruction in the guppy, Poecilia reticulata.

Dreyer C, Hoffmann M, Lanz C, Willing EM, Riester M, Warthmann N, Sprecher A, Tripathi N, Henz SR, Weigel D.

BMC Genomics. 2007 Aug 8;8:269.

26.

Common sequence polymorphisms shaping genetic diversity in Arabidopsis thaliana.

Clark RM, Schweikert G, Toomajian C, Ossowski S, Zeller G, Shinn P, Warthmann N, Hu TT, Fu G, Hinds DA, Chen H, Frazer KA, Huson DH, Schölkopf B, Nordborg M, Rätsch G, Ecker JR, Weigel D.

Science. 2007 Jul 20;317(5836):338-42.

27.

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. 2007 Jul;13(1):115-25.

28.

Export of FT protein from phloem companion cells is sufficient for floral induction in Arabidopsis.

Mathieu J, Warthmann N, Küttner F, Schmid M.

Curr Biol. 2007 Jun 19;17(12):1055-60. Epub 2007 May 31.

29.

The PHYTOCHROME C photoreceptor gene mediates natural variation in flowering and growth responses of Arabidopsis thaliana.

Balasubramanian S, Sureshkumar S, Agrawal M, Michael TP, Wessinger C, Maloof JN, Clark R, Warthmann N, Chory J, Weigel D.

Nat Genet. 2006 Jun;38(6):711-5. Epub 2006 May 28.

30.

Highly specific gene silencing by artificial microRNAs in Arabidopsis.

Schwab R, Ossowski S, Riester M, Warthmann N, Weigel D.

Plant Cell. 2006 May;18(5):1121-33. Epub 2006 Mar 10.

31.

Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation.

Werner JD, Borevitz JO, Warthmann N, Trainer GT, Ecker JR, Chory J, Weigel D.

Proc Natl Acad Sci U S A. 2005 Feb 15;102(7):2460-5. Epub 2005 Feb 4.

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