Informational Support of the Breeding Experiment in Wheat in the WheatPGE System
Matematičeskaâ biologiâ i bioinformatika, Tome 7 (2012) no. 2, pp. 410-424.

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Modern breeding experiment in plants is based on the information about genome and genetic markers and should provide the collection and management of large amount of phenotypic information. In the current work we describe WheatPGE database that provide informational support of such experiments in wheat including high throughput phenotyping. The database is available at http://wheatdb.org.
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M. A. Genaev; A. V. Doroshkov; T. A. Pshenichnikova; E. V. Morozova; A. V. Simonov; D. A. Afonnikov. Informational Support of the Breeding Experiment in Wheat in the WheatPGE System. Matematičeskaâ biologiâ i bioinformatika, Tome 7 (2012) no. 2, pp. 410-424. http://geodesic.mathdoc.fr/item/MBB_2012_7_2_a2/

[1] Houle D., Govindaraju D. R., Omholt S., “Phenomics: the next challenge”, Nat. Rev. Genet., 11:12 (2010), 855–866 | DOI

[2] Benfey P. N., Mitchell-Olds T., “From genotype to phenotype: systems biology meets natural variation”, Science, 320:5875 (2008), 495–497 | DOI

[3] Ajjawi I., Lu Y., Savage L. J., Bell S. M., Last R. L., “Large-scale reverse genetics in Arabidopsis: case studies from the Chloroplast 2010 Project”, Plant Physiol., 152:2 (2010), 529–540 | DOI

[4] Brachi B., Faure N., Horton M., Flahauw E., Vazquez A., Nordborg M., Bergelson J., Cuguen J., Roux F., “Linkage and association mapping of Arabidopsis thaliana flowering time in nature”, PLoS Genet., 6:5 (2010), e1000940 | DOI

[5] Eberius M., Lima-Guerra J., “High-throughput plant phenotyping — data acquisition, transformation, and analysis”, Bioinformatics: Tools and Applications, eds. D. Edwards et al., Springer Science Media, LLC, 2009, 259–278

[6] Hartmann A., Czauderna T., Hoffmann R., Stein N., Schreiber F., “HTPheno: an image analysis pipeline for high-throughput plant phenotyping”, BMC Bioinformatics, 12 (2011), 148 | DOI

[7] Doroshkov A. V., Arsenina S. I., Pshenichnikova T. A., Afonnikov D. A., “Primenenie kompyuternoi obrabotki izobrazhenii mikrofotografii lista dlya analiza opusheniya pshenitsy Triticum aestivum L”, Informatsionnyi vestnik VOGiS, 13:1 (2009), 218–226

[8] Vankadavath R. N., Hussain A. J., Bodanapu R., Kharshiing E., Basha P. O., Gupta S., Sreelakshmi Y., Sharma R., “Computer aided data acquisition tool for high-throughput phenotyping of plant populations”, Plant Methods, 5 (2009), 18 | DOI

[9] Joosen R. V., Kodde J., Willems L. A., Ligterink W., van der Plas L. H., Hilhorst H. W., “GERMINATOR: a software package for high-throughput scoring and curve fitting of Arabidopsis seed germination”, Plant J., 62:1 (2010), 148–159 | DOI

[10] Lu Y., Savage L. J., Larson M. D., Wilkerson C. G., Last R. L., “Chloroplast 2010: a database for large-scale phenotypic screening of Arabidopsis mutants”, Plant Physiol., 155:4 (2011), 1589–1600 | DOI

[11] Fabre J., Dauzat M., Negre V., Wuyts N., Tireau A., Gennari E., Neveu P., Tisné S., Massonnet C., Hummel I., Granier C., “PHENOPSIS DB: an information system for Arabidopsis thaliana phenotypic data in an environmental context”, BMC Plant Biol., 11 (2011), 77 | DOI

[12] Thorisson G. A., Muilu J., Brookes A. J., “Genotype-phenotype databases: challenges and solutions for the post-genomic era”, Nat Rev Genet., 10:1 (2009), 9–18 | DOI

[13] Antofie A., Lateur M., Oger R., Patocchi A., Durel C. E., Van de Weg W. E., “A new versatile database created for geneticists and breeders to link molecular and phenotypic data in perennial crops: the AppleBreed DataBase”, Bioinformatics, 23:7 (2007), 882–891 | DOI

[14] Milc J., Sala A., Bergamaschi S., Pecchioni N., “A genotypic and phenotypic information source for marker-assisted selection of cereals: the CEREALAB database”, Database, 2011 (2012), baq038 | DOI

[15] Carollo V., Matthews D. E., Lazo G. R., Blake T. K., Hummel D. D., Lui N., Hane D. L., Anderson O. D., “GrainGenes 2.0. An improved resource for the small-grains community”, Plant Physiol., 139:2 (2005), 643–651 | DOI

[16] Sakurai T., Kondou Y., Akiyama K., Kurotani A., Higuchi M., Ichikawa T., Kuroda H., Kusano M., Mori M., Saitou T., Sakakibara H., Sugano S., Suzuki M., Takahashi H., Takahashi S., Takatsuji H., Yokotani N., Yoshizumi T., Saito K., Shinozaki K., Oda K., Hirochika H., Matsui M., “RiceFOX: a database of Arabidopsis mutant lines overexpressing rice full-length cDNA that contains a wide range of trait information to facilitate analysis of gene function”, Plant Cell Physiol., 52:2 (2011), 265–273 | DOI

[17] Jung S., Menda N., Redmond S., Buels R. M., Friesen M., Bendana Y., Sanderson L. A., Lapp H., Lee T., MacCallum B., Bett K. E., Cain S., Clements D., Mueller L. A., Main D., “The Chado Natural Diversity module: a new generic database schema for large-scale phenotyping and genotyping data”, Database, 2011 (2011), bar051 | DOI

[18] Genaev M. A., Doroshkov A. V., Morozova E. V., Pshenichnikova T. A., Afonnikov D. A., “Kompyuternaya sistema WheatPGE dlya analiza vzaimosvyazi fenotip–genotip–okruzhayuschaya sreda u pshenitsy”, Vavilovskii zhurnal genetiki i selektsii, 15:4 (2011), 784–793

[19] Rogachev S. (data obrascheniya: 23.07.2012) http://rsdn.ru/article/patterns/generic-mvc.xml