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Items: 33

1.

Genomic variation in 3,010 diverse accessions of Asian cultivated rice.

Wang W, Mauleon R, Hu Z, Chebotarov D, Tai S, Wu Z, Li M, Zheng T, Fuentes RR, Zhang F, Mansueto L, Copetti D, Sanciangco M, Palis KC, Xu J, Sun C, Fu B, Zhang H, Gao Y, Zhao X, Shen F, Cui X, Yu H, Li Z, Chen M, Detras J, Zhou Y, Zhang X, Zhao Y, Kudrna D, Wang C, Li R, Jia B, Lu J, He X, Dong Z, Xu J, Li Y, Wang M, Shi J, Li J, Zhang D, Lee S, Hu W, Poliakov A, Dubchak I, Ulat VJ, Borja FN, Mendoza JR, Ali J, Li J, Gao Q, Niu Y, Yue Z, Naredo MEB, Talag J, Wang X, Li J, Fang X, Yin Y, Glaszmann JC, Zhang J, Li J, Hamilton RS, Wing RA, Ruan J, Zhang G, Wei C, Alexandrov N, McNally KL, Li Z, Leung H.

Nature. 2018 May;557(7703):43-49. doi: 10.1038/s41586-018-0063-9. Epub 2018 Apr 25.

PMID:
29695866
2.

Progress in single-access information systems for wheat and rice crop improvement.

Scheben A, Chan CK, Mansueto L, Mauleon R, Larmande P, Alexandrov N, Wing RA, McNally KL, Quesneville H, Edwards D.

Brief Bioinform. 2018 Apr 5. doi: 10.1093/bib/bby016. [Epub ahead of print]

PMID:
29659709
3.

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.

PMID:
29358651
4.

Large-scale deployment of a rice 6 K SNP array for genetics and breeding applications.

Thomson MJ, Singh N, Dwiyanti MS, Wang DR, Wright MH, Perez FA, DeClerck G, Chin JH, Malitic-Layaoen GA, Juanillas VM, Dilla-Ermita CJ, Mauleon R, Kretzschmar T, McCouch SR.

Rice (N Y). 2017 Aug 30;10(1):40. doi: 10.1186/s12284-017-0181-2.

5.

Identification of resistant germplasm containing novel resistance genes at or tightly linked to the Pi2/9 locus conferring broad-spectrum resistance against rice blast.

Xiao G, Borja FN, Mauleon R, Padilla J, Telebanco-Yanoria MJ, Yang J, Lu G, Dionisio-Sese M, Zhou B.

Rice (N Y). 2017 Dec;10(1):37. doi: 10.1186/s12284-017-0176-z. Epub 2017 Aug 4.

6.

Approaches in Characterizing Genetic Structure and Mapping in a Rice Multiparental Population.

Raghavan C, Mauleon R, Lacorte V, Jubay M, Zaw H, Bonifacio J, Singh RK, Huang BE, Leung H.

G3 (Bethesda). 2017 Jun 7;7(6):1721-1730. doi: 10.1534/g3.117.042101.

7.

Association Mapping of Yield and Yield-related Traits Under Reproductive Stage Drought Stress in Rice (Oryza sativa L.).

Swamy BPM, Shamsudin NAA, Rahman SNA, Mauleon R, Ratnam W, Sta Cruz MT, Kumar A.

Rice (N Y). 2017 Dec;10(1):21. doi: 10.1186/s12284-017-0161-6. Epub 2017 May 18.

8.

Rice SNP-seek database update: new SNPs, indels, and queries.

Mansueto L, Fuentes RR, Borja FN, Detras J, Abriol-Santos JM, Chebotarov D, Sanciangco M, Palis K, Copetti D, Poliakov A, Dubchak I, Solovyev V, Wing RA, Hamilton RS, Mauleon R, McNally KL, Alexandrov N.

Nucleic Acids Res. 2017 Jan 4;45(D1):D1075-D1081. doi: 10.1093/nar/gkw1135. Epub 2016 Nov 29.

9.

Analysis of Allelic Imbalance in Rice Hybrids Under Water Stress and Association of Asymmetrically Expressed Genes with Drought-Response QTLs.

Ereful NC, Liu LY, Tsai E, Kao SM, Dixit S, Mauleon R, Malabanan K, Thomson M, Laurena A, Lee D, Mackay I, Greenland A, Powell W, Leung H.

Rice (N Y). 2016 Dec;9(1):50. doi: 10.1186/s12284-016-0123-4. Epub 2016 Sep 26.

10.

Development and validation of allele-specific SNP/indel markers for eight yield-enhancing genes using whole-genome sequencing strategy to increase yield potential of rice, Oryza sativa L.

Kim SR, Ramos J, Ashikari M, Virk PS, Torres EA, Nissila E, Hechanova SL, Mauleon R, Jena KK.

Rice (N Y). 2016 Dec;9(1):12. doi: 10.1186/s12284-016-0084-7. Epub 2016 Mar 18.

11.

Allele mining and enhanced genetic recombination for rice breeding.

Leung H, Raghavan C, Zhou B, Oliva R, Choi IR, Lacorte V, Jubay ML, Cruz CV, Gregorio G, Singh RK, Ulat VJ, Borja FN, Mauleon R, Alexandrov NN, McNally KL, Sackville Hamilton R.

Rice (N Y). 2015 Dec;8(1):34. doi: 10.1186/s12284-015-0069-y. Epub 2015 Nov 25.

12.

Rice-Infecting Pseudomonas Genomes Are Highly Accessorized and Harbor Multiple Putative Virulence Mechanisms to Cause Sheath Brown Rot.

Quibod IL, Grande G, Oreiro EG, Borja FN, Dossa GS, Mauleon R, Cruz CV, Oliva R.

PLoS One. 2015 Sep 30;10(9):e0139256. doi: 10.1371/journal.pone.0139256. eCollection 2015.

13.

Root aquaporins contribute to whole plant water fluxes under drought stress in rice (Oryza sativa L.).

Grondin A, Mauleon R, Vadez V, Henry A.

Plant Cell Environ. 2016 Feb;39(2):347-65. doi: 10.1111/pce.12616. Epub 2015 Nov 24.

PMID:
26226878
14.

Environmental Response and Genomic Regions Correlated with Rice Root Growth and Yield under Drought in the OryzaSNP Panel across Multiple Study Systems.

Wade LJ, Bartolome V, Mauleon R, Vasant VD, Prabakar SM, Chelliah M, Kameoka E, Nagendra K, Reddy KR, Varma CM, Patil KG, Shrestha R, Al-Shugeairy Z, Al-Ogaidi F, Munasinghe M, Gowda V, Semon M, Suralta RR, Shenoy V, Vadez V, Serraj R, Shashidhar HE, Yamauchi A, Babu RC, Price A, McNally KL, Henry A.

PLoS One. 2015 Apr 24;10(4):e0124127. doi: 10.1371/journal.pone.0124127. eCollection 2015.

15.

Metabolic and transcriptomic signatures of rice floral organs reveal sugar starvation as a factor in reproductive failure under heat and drought stress.

Li X, Lawas LM, Malo R, Glaubitz U, Erban A, Mauleon R, Heuer S, Zuther E, Kopka J, Hincha DK, Jagadish KS.

Plant Cell Environ. 2015 Oct;38(10):2171-92. doi: 10.1111/pce.12545. Epub 2015 May 19.

PMID:
25828772
16.

Rice phenylalanine ammonia-lyase gene OsPAL4 is associated with broad spectrum disease resistance.

Tonnessen BW, Manosalva P, Lang JM, Baraoidan M, Bordeos A, Mauleon R, Oard J, Hulbert S, Leung H, Leach JE.

Plant Mol Biol. 2015 Feb;87(3):273-86. doi: 10.1007/s11103-014-0275-9. Epub 2014 Dec 17.

PMID:
25515696
17.

SNP-Seek database of SNPs derived from 3000 rice genomes.

Alexandrov N, Tai S, Wang W, Mansueto L, Palis K, Fuentes RR, Ulat VJ, Chebotarov D, Zhang G, Li Z, Mauleon R, Hamilton RS, McNally KL.

Nucleic Acids Res. 2015 Jan;43(Database issue):D1023-7. doi: 10.1093/nar/gku1039. Epub 2014 Nov 27.

18.

Efficient imputation of missing markers in low-coverage genotyping-by-sequencing data from multiparental crosses.

Huang BE, Raghavan C, Mauleon R, Broman KW, Leung H.

Genetics. 2014 May;197(1):401-4. doi: 10.1534/genetics.113.158014. Epub 2014 Feb 28.

19.

Suppression of cell wall-related genes associated with stunting of Oryza glaberrima infected with Rice tungro spherical virus.

Budot BO, Encabo JR, Ambita ID, Atienza-Grande GA, Satoh K, Kondoh H, Ulat VJ, Mauleon R, Kikuchi S, Choi IR.

Front Microbiol. 2014 Feb 4;5:26. doi: 10.3389/fmicb.2014.00026. eCollection 2014.

20.

Multi-parent advanced generation inter-cross (MAGIC) populations in rice: progress and potential for genetics research and breeding.

Bandillo N, Raghavan C, Muyco PA, Sevilla MA, Lobina IT, Dilla-Ermita CJ, Tung CW, McCouch S, Thomson M, Mauleon R, Singh RK, Gregorio G, Redoña E, Leung H.

Rice (N Y). 2013 May 6;6(1):11. doi: 10.1186/1939-8433-6-11.

21.

Genetic, physiological, and gene expression analyses reveal that multiple QTL enhance yield of rice mega-variety IR64 under drought.

Swamy BP, Ahmed HU, Henry A, Mauleon R, Dixit S, Vikram P, Tilatto R, Verulkar SB, Perraju P, Mandal NP, Variar M, Robin S, Chandrababu R, Singh ON, Dwivedi JL, Das SP, Mishra KK, Yadaw RB, Aditya TL, Karmakar B, Satoh K, Moumeni A, Kikuchi S, Leung H, Kumar A.

PLoS One. 2013 May 8;8(5):e62795. doi: 10.1371/journal.pone.0062795. Print 2013.

22.

Transcriptome profiling of leaf elongation zone under drought in contrasting rice cultivars.

Cal AJ, Liu D, Mauleon R, Hsing YI, Serraj R.

PLoS One. 2013;8(1):e54537. doi: 10.1371/journal.pone.0054537. Epub 2013 Jan 23.

23.

Gene expression responses to Rice tungro spherical virus in susceptible and resistant near-isogenic rice plants.

Satoh K, Kondoh H, De Leon TB, Macalalad RJ, Cabunagan RC, Cabauatan PQ, Mauleon R, Kikuchi S, Choi IR.

Virus Res. 2013 Jan;171(1):111-20. doi: 10.1016/j.virusres.2012.11.003. Epub 2012 Nov 23.

PMID:
23183448
24.

Brassinosteroids antagonize gibberellin- and salicylate-mediated root immunity in rice.

De Vleesschauwer D, Van Buyten E, Satoh K, Balidion J, Mauleon R, Choi IR, Vera-Cruz C, Kikuchi S, Höfte M.

Plant Physiol. 2012 Apr;158(4):1833-46. doi: 10.1104/pp.112.193672. Epub 2012 Feb 21.

25.

Genetic variation in biomass traits among 20 diverse rice varieties.

Jahn CE, Mckay JK, Mauleon R, Stephens J, McNally KL, Bush DR, Leung H, Leach JE.

Plant Physiol. 2011 Jan;155(1):157-68. doi: 10.1104/pp.110.165654. Epub 2010 Nov 9.

26.

Transcriptional regulatory network triggered by oxidative signals configures the early response mechanisms of japonica rice to chilling stress.

Yun KY, Park MR, Mohanty B, Herath V, Xu F, Mauleon R, Wijaya E, Bajic VB, Bruskiewich R, de Los Reyes BG.

BMC Plant Biol. 2010 Jan 25;10:16. doi: 10.1186/1471-2229-10-16.

27.

Multifunctional crop trait ontology for breeders' data: field book, annotation, data discovery and semantic enrichment of the literature.

Shrestha R, Arnaud E, Mauleon R, Senger M, Davenport GF, Hancock D, Morrison N, Bruskiewich R, McLaren G.

AoB Plants. 2010;2010:plq008. doi: 10.1093/aobpla/plq008. Epub 2010 May 27.

28.

Detection of genomic deletions in rice using oligonucleotide microarrays.

Bruce M, Hess A, Bai J, Mauleon R, Diaz MG, Sugiyama N, Bordeos A, Wang GL, Leung H, Leach JE.

BMC Genomics. 2009 Mar 25;10:129. doi: 10.1186/1471-2164-10-129.

29.

The generation challenge programme platform: semantic standards and workbench for crop science.

Bruskiewich R, Senger M, Davenport G, Ruiz M, Rouard M, Hazekamp T, Takeya M, Doi K, Satoh K, Costa M, Simon R, Balaji J, Akintunde A, Mauleon R, Wanchana S, Shah T, Anacleto M, Portugal A, Ulat VJ, Thongjuea S, Braak K, Ritter S, Dereeper A, Skofic M, Rojas E, Martins N, Pappas G, Alamban R, Almodiel R, Barboza LH, Detras J, Manansala K, Mendoza MJ, Morales J, Peralta B, Valerio R, Zhang Y, Gregorio S, Hermocilla J, Echavez M, Yap JM, Farmer A, Schiltz G, Lee J, Casstevens T, Jaiswal P, Meintjes A, Wilkinson M, Good B, Wagner J, Morris J, Marshall D, Collins A, Kikuchi S, Metz T, McLaren G, van Hintum T.

Int J Plant Genomics. 2008;2008:369601. doi: 10.1155/2008/369601.

30.

Development of a novel data mining tool to find cis-elements in rice gene promoter regions.

Doi K, Hosaka A, Nagata T, Satoh K, Suzuki K, Mauleon R, Mendoza MJ, Bruskiewich R, Kikuchi S.

BMC Plant Biol. 2008 Feb 27;8:20. doi: 10.1186/1471-2229-8-20.

31.

The Generation Challenge Programme comparative plant stress-responsive gene catalogue.

Wanchana S, Thongjuea S, Ulat VJ, Anacleto M, Mauleon R, Conte M, Rouard M, Ruiz M, Krishnamurthy N, Sjolander K, van Hintum T, Bruskiewich RM.

Nucleic Acids Res. 2008 Jan;36(Database issue):D943-6. Epub 2007 Oct 11.

32.

Chemical- and irradiation-induced mutants of indica rice IR64 for forward and reverse genetics.

Wu JL, Wu C, Lei C, Baraoidan M, Bordeos A, Madamba MR, Ramos-Pamplona M, Mauleon R, Portugal A, Ulat VJ, Bruskiewich R, Wang G, Leach J, Khush G, Leung H.

Plant Mol Biol. 2005 Sep;59(1):85-97.

PMID:
16217604
33.

Candidate defense genes as predictors of quantitative blast resistance in rice.

Liu B, Zhang S, Zhu X, Yang Q, Wu S, Mei M, Mauleon R, Leach J, Mew T, Leung H.

Mol Plant Microbe Interact. 2004 Oct;17(10):1146-52.

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