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Items: 35

1.

Reply to Huang et al.: Avoiding "one-size-fits-all" approaches to variant discovery.

Hardigan MA, Laimbeer FPE, Hamilton JP, Vaillancourt B, Douches DS, Farré EM, Veilleux RE, Buell CR.

Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):E6394-E6395. doi: 10.1073/pnas.1807622115. Epub 2018 Jun 22. No abstract available.

PMID:
29934402
2.

Extensive Genetic Diversity is Present within North American Switchgrass Germplasm.

Evans J, Sanciangco MD, Lau KH, Crisovan E, Barry K, Daum C, Hundley H, Jenkins J, Kennedy M, Kunde-Ramamoorthy G, Vaillancourt B, Acharya A, Schmutz J, Saha M, Kaeppler SM, Brummer EC, Casler MD, Buell CR.

Plant Genome. 2018 Mar;11(1). doi: 10.3835/plantgenome2017.06.0055.

3.

The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum.

Zhao D, Hamilton JP, Vaillancourt B, Zhang W, Eizenga GC, Cui Y, Jiang J, Buell CR, Jiang N.

Nucleic Acids Res. 2018 Mar 16;46(5):2700. doi: 10.1093/nar/gky091. No abstract available.

4.

The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum.

Zhao D, Hamilton JP, Vaillancourt B, Zhang W, Eizenga GC, Cui Y, Jiang J, Buell CR, Jiang N.

Nucleic Acids Res. 2018 Mar 16;46(5):2380-2397. doi: 10.1093/nar/gky025.

5.

Ossifying Renal Tumor of Infancy: Report of a Case With Positive WT1 Immunohistochemistry and High Mitotic Index and Review of the Literature.

Vaillancourt B, Oligny L, Déry J, Franc-Guimond J, Soglio DB.

Pediatr Dev Pathol. 2017 Nov-Dec;20(6):511-516. doi: 10.1177/1093526617693105. Epub 2017 Feb 13.

PMID:
29187024
6.

Impact of choice of future climate change projection on growth chamber experimental outcomes: a preliminary study in potato.

Leisner CP, Wood JC, Vaillancourt B, Tang Y, Douches DS, Robin Buell C, Winkler JA.

Int J Biometeorol. 2018 Apr;62(4):669-679. doi: 10.1007/s00484-017-1475-1. Epub 2017 Nov 23.

PMID:
29170858
7.

Genome diversity of tuber-bearing Solanum uncovers complex evolutionary history and targets of domestication in the cultivated potato.

Hardigan MA, Laimbeer FPE, Newton L, Crisovan E, Hamilton JP, Vaillancourt B, Wiegert-Rininger K, Wood JC, Douches DS, Farré EM, Veilleux RE, Buell CR.

Proc Natl Acad Sci U S A. 2017 Nov 14;114(46):E9999-E10008. doi: 10.1073/pnas.1714380114. Epub 2017 Oct 30.

8.

Novel Loci Underlie Natural Variation in Vitamin E Levels in Maize Grain.

Diepenbrock CH, Kandianis CB, Lipka AE, Magallanes-Lundback M, Vaillancourt B, Góngora-Castillo E, Wallace JG, Cepela J, Mesberg A, Bradbury PJ, Ilut DC, Mateos-Hernandez M, Hamilton J, Owens BF, Tiede T, Buckler ES, Rocheford T, Buell CR, Gore MA, DellaPenna D.

Plant Cell. 2017 Oct;29(10):2374-2392. doi: 10.1105/tpc.17.00475. Epub 2017 Oct 2.

9.

De novo genome assembly of Camptotheca acuminata, a natural source of the anti-cancer compound camptothecin.

Zhao D, Hamilton JP, Pham GM, Crisovan E, Wiegert-Rininger K, Vaillancourt B, DellaPenna D, Buell CR.

Gigascience. 2017 Sep 1;6(9):1-7. doi: 10.1093/gigascience/gix065.

10.

Extensive genome heterogeneity leads to preferential allele expression and copy number-dependent expression in cultivated potato.

Pham GM, Newton L, Wiegert-Rininger K, Vaillancourt B, Douches DS, Buell CR.

Plant J. 2017 Nov;92(4):624-637. doi: 10.1111/tpj.13706. Epub 2017 Oct 16.

PMID:
28869794
11.

An Expanded Maize Gene Expression Atlas based on RNA Sequencing and its Use to Explore Root Development.

Stelpflug SC, Sekhon RS, Vaillancourt B, Hirsch CN, Buell CR, de Leon N, Kaeppler SM.

Plant Genome. 2016 Mar;9(1). doi: 10.3835/plantgenome2015.04.0025.

12.

Analysis of Ribosome-Associated mRNAs in Rice Reveals the Importance of Transcript Size and GC Content in Translation.

Zhao D, Hamilton JP, Hardigan M, Yin D, He T, Vaillancourt B, Reynoso M, Pauluzzi G, Funkhouser S, Cui Y, Bailey-Serres J, Jiang J, Buell CR, Jiang N.

G3 (Bethesda). 2017 Jan 5;7(1):203-219. doi: 10.1534/g3.116.036020.

13.

Ossifying renal tumor of infancy: report of a case with positive WT-1 immunohistochemistry and high mitotic index and review of the literature.

Vaillancourt B, Oligny LL, Déry J, Franc-Guimond J, Bouron-Dal Soglio D.

Pediatr Dev Pathol. 2016 Aug 30. [Epub ahead of print]

PMID:
27575645
14.

Genome Reduction Uncovers a Large Dispensable Genome and Adaptive Role for Copy Number Variation in Asexually Propagated Solanum tuberosum.

Hardigan MA, Crisovan E, Hamilton JP, Kim J, Laimbeer P, Leisner CP, Manrique-Carpintero NC, Newton L, Pham GM, Vaillancourt B, Yang X, Zeng Z, Douches DS, Jiang J, Veilleux RE, Buell CR.

Plant Cell. 2016 Feb;28(2):388-405. doi: 10.1105/tpc.15.00538. Epub 2016 Jan 15.

15.

Diversity and population structure of northern switchgrass as revealed through exome capture sequencing.

Evans J, Crisovan E, Barry K, Daum C, Jenkins J, Kunde-Ramamoorthy G, Nandety A, Ngan CY, Vaillancourt B, Wei CL, Schmutz J, Kaeppler SM, Casler MD, Buell CR.

Plant J. 2015 Nov;84(4):800-15. doi: 10.1111/tpj.13041.

16.

Shared Genomic Regions Between Derivatives of a Large Segregating Population of Maize Identified Using Bulked Segregant Analysis Sequencing and Traditional Linkage Analysis.

Haase NJ, Beissinger T, Hirsch CN, Vaillancourt B, Deshpande S, Barry K, Buell CR, Kaeppler SM, de Leon N.

G3 (Bethesda). 2015 Jun 1;5(8):1593-602. doi: 10.1534/g3.115.017665.

17.

Transcriptome responses to Ralstonia solanacearum infection in the roots of the wild potato Solanum commersonii.

Zuluaga AP, Solé M, Lu H, Góngora-Castillo E, Vaillancourt B, Coll N, Buell CR, Valls M.

BMC Genomics. 2015 Mar 26;16:246. doi: 10.1186/s12864-015-1460-1.

18.

Genome-guided investigation of plant natural product biosynthesis.

Kellner F, Kim J, Clavijo BJ, Hamilton JP, Childs KL, Vaillancourt B, Cepela J, Habermann M, Steuernagel B, Clissold L, McLay K, Buell CR, O'Connor SE.

Plant J. 2015 May;82(4):680-92. doi: 10.1111/tpj.12827. Epub 2015 Apr 11.

19.

A root-expressed L-phenylalanine:4-hydroxyphenylpyruvate aminotransferase is required for tropane alkaloid biosynthesis in Atropa belladonna.

Bedewitz MA, Góngora-Castillo E, Uebler JB, Gonzales-Vigil E, Wiegert-Rininger KE, Childs KL, Hamilton JP, Vaillancourt B, Yeo YS, Chappell J, DellaPenna D, Jones AD, Buell CR, Barry CS.

Plant Cell. 2014 Sep;26(9):3745-62. doi: 10.1105/tpc.114.130534. Epub 2014 Sep 16.

20.

Nucleotide polymorphism and copy number variant detection using exome capture and next-generation sequencing in the polyploid grass Panicum virgatum.

Evans J, Kim J, Childs KL, Vaillancourt B, Crisovan E, Nandety A, Gerhardt DJ, Richmond TA, Jeddeloh JA, Kaeppler SM, Casler MD, Buell CR.

Plant J. 2014 Sep;79(6):993-1008. doi: 10.1111/tpj.12601. Epub 2014 Aug 11.

21.

Insights into the maize pan-genome and pan-transcriptome.

Hirsch CN, Foerster JM, Johnson JM, Sekhon RS, Muttoni G, Vaillancourt B, Peñagaricano F, Lindquist E, Pedraza MA, Barry K, de Leon N, Kaeppler SM, Buell CR.

Plant Cell. 2014 Jan;26(1):121-35. doi: 10.1105/tpc.113.119982. Epub 2014 Jan 31.

22.

A genome-wide scan for evidence of selection in a maize population under long-term artificial selection for ear number.

Beissinger TM, Hirsch CN, Vaillancourt B, Deshpande S, Barry K, Buell CR, Kaeppler SM, Gianola D, de Leon N.

Genetics. 2014 Mar;196(3):829-40. doi: 10.1534/genetics.113.160655. Epub 2013 Dec 30.

23.

Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data.

Kawahara Y, de la Bastide M, Hamilton JP, Kanamori H, McCombie WR, Ouyang S, Schwartz DC, Tanaka T, Wu J, Zhou S, Childs KL, Davidson RM, Lin H, Quesada-Ocampo L, Vaillancourt B, Sakai H, Lee SS, Kim J, Numa H, Itoh T, Buell CR, Matsumoto T.

Rice (N Y). 2013 Feb 6;6(1):4. doi: 10.1186/1939-8433-6-4.

24.

Marker density and read depth for genotyping populations using genotyping-by-sequencing.

Beissinger TM, Hirsch CN, Sekhon RS, Foerster JM, Johnson JM, Muttoni G, Vaillancourt B, Buell CR, Kaeppler SM, de Leon N.

Genetics. 2013 Apr;193(4):1073-81. doi: 10.1534/genetics.112.147710. Epub 2013 Feb 14.

25.

Development of transcriptomic resources for interrogating the biosynthesis of monoterpene indole alkaloids in medicinal plant species.

Góngora-Castillo E, Childs KL, Fedewa G, Hamilton JP, Liscombe DK, Magallanes-Lundback M, Mandadi KK, Nims E, Runguphan W, Vaillancourt B, Varbanova-Herde M, Dellapenna D, McKnight TD, O'Connor S, Buell CR.

PLoS One. 2012;7(12):e52506. doi: 10.1371/journal.pone.0052506. Epub 2012 Dec 26.

26.

Functional identification of valerena-1,10-diene synthase, a terpene synthase catalyzing a unique chemical cascade in the biosynthesis of biologically active sesquiterpenes in Valeriana officinalis.

Yeo YS, Nybo SE, Chittiboyina AG, Weerasooriya AD, Wang YH, Góngora-Castillo E, Vaillancourt B, Buell CR, DellaPenna D, Celiz MD, Jones AD, Wurtele ES, Ransom N, Dudareva N, Shaaban KA, Tibrewal N, Chandra S, Smillie T, Khan IA, Coates RM, Watt DS, Chappell J.

J Biol Chem. 2013 Feb 1;288(5):3163-73. doi: 10.1074/jbc.M112.415836. Epub 2012 Dec 14.

27.

A methamphetamine vaccine attenuates methamphetamine-induced disruptions in thermoregulation and activity in rats.

Miller ML, Moreno AY, Aarde SM, Creehan KM, Vandewater SA, Vaillancourt BD, Wright MJ Jr, Janda KD, Taffe MA.

Biol Psychiatry. 2013 Apr 15;73(8):721-8. doi: 10.1016/j.biopsych.2012.09.010. Epub 2012 Oct 23.

28.

mRNA-Seq analysis of the Pseudoperonospora cubensis transcriptome during cucumber (Cucumis sativus L.) infection.

Savory EA, Adhikari BN, Hamilton JP, Vaillancourt B, Buell CR, Day B.

PLoS One. 2012;7(4):e35796. doi: 10.1371/journal.pone.0035796. Epub 2012 Apr 24.

29.

Expression profiling of Cucumis sativus in response to infection by Pseudoperonospora cubensis.

Adhikari BN, Savory EA, Vaillancourt B, Childs KL, Hamilton JP, Day B, Buell CR.

PLoS One. 2012;7(4):e34954. doi: 10.1371/journal.pone.0034954. Epub 2012 Apr 24.

30.

Comparative transcriptomics of three Poaceae species reveals patterns of gene expression evolution.

Davidson RM, Gowda M, Moghe G, Lin H, Vaillancourt B, Shiu SH, Jiang N, Robin Buell C.

Plant J. 2012 Aug;71(3):492-502. doi: 10.1111/j.1365-313X.2012.05005.x. Epub 2012 Jun 5.

31.

Maize (Zea mays L.) genome diversity as revealed by RNA-sequencing.

Hansey CN, Vaillancourt B, Sekhon RS, de Leon N, Kaeppler SM, Buell CR.

PLoS One. 2012;7(3):e33071. doi: 10.1371/journal.pone.0033071. Epub 2012 Mar 16.

32.

Reciprocal inhibitory effects of intravenous d-methamphetamine self-administration and wheel activity in rats.

Miller ML, Vaillancourt BD, Wright MJ Jr, Aarde SM, Vandewater SA, Creehan KM, Taffe MA.

Drug Alcohol Depend. 2012 Feb 1;121(1-2):90-6. doi: 10.1016/j.drugalcdep.2011.08.013. Epub 2011 Sep 6.

33.

Genome sequence and analysis of the tuber crop potato.

Potato Genome Sequencing Consortium, Xu X, Pan S, Cheng S, Zhang B, Mu D, Ni P, Zhang G, Yang S, Li R, Wang J, Orjeda G, Guzman F, Torres M, Lozano R, Ponce O, Martinez D, De la Cruz G, Chakrabarti SK, Patil VU, Skryabin KG, Kuznetsov BB, Ravin NV, Kolganova TV, Beletsky AV, Mardanov AV, Di Genova A, Bolser DM, Martin DM, Li G, Yang Y, Kuang H, Hu Q, Xiong X, Bishop GJ, Sagredo B, Mejía N, Zagorski W, Gromadka R, Gawor J, Szczesny P, Huang S, Zhang Z, Liang C, He J, Li Y, He Y, Xu J, Zhang Y, Xie B, Du Y, Qu D, Bonierbale M, Ghislain M, Herrera Mdel R, Giuliano G, Pietrella M, Perrotta G, Facella P, O'Brien K, Feingold SE, Barreiro LE, Massa GA, Diambra L, Whitty BR, Vaillancourt B, Lin H, Massa AN, Geoffroy M, Lundback S, DellaPenna D, Buell CR, Sharma SK, Marshall DF, Waugh R, Bryan GJ, Destefanis M, Nagy I, Milbourne D, Thomson SJ, Fiers M, Jacobs JM, Nielsen KL, Sønderkær M, Iovene M, Torres GA, Jiang J, Veilleux RE, Bachem CW, de Boer J, Borm T, Kloosterman B, van Eck H, Datema E, Hekkert Bt, Goverse A, van Ham RC, Visser RG.

Nature. 2011 Jul 10;475(7355):189-95. doi: 10.1038/nature10158.

PMID:
21743474
34.

Magnitude and direction of vesicle dynamics in growing pollen tubes using spatiotemporal image correlation spectroscopy and fluorescence recovery after photobleaching.

Bove J, Vaillancourt B, Kroeger J, Hepler PK, Wiseman PW, Geitmann A.

Plant Physiol. 2008 Aug;147(4):1646-58. doi: 10.1104/pp.108.120212. Epub 2008 May 28.

35.

Reengineering clinical operations in a medical practice to optimize the management of anemia of chronic kidney disease.

Joy MS, Candiani C, Vaillancourt BA, Chin H, Hogan SL, Falk RJ.

Pharmacotherapy. 2007 May;27(5):734-44.

PMID:
17461709

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