This data can be used as starting point

We found sperm express many genes, and that the proteins encoded by these genes encompass many different categories. We identified numerous candidate genes whose involvement in sperm cell development and fertilization can be directly tested in Arabidopsis. USA. gov. Pacific Plant Gene Expression Center Albany_CA Title Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology Publication Type Peer Reviewed Journal Publication Acceptance Date 27, Publication Date 30, Publishers URL httpwww. plantphysiol.

This data can be used as starting point to discover the roles of these spermexpressed proteins. Project Team McCormick, Sheila Publications Publications Related National Programs Plant Biological and Molecular Processes 302 Plant Genetic Resources, Genomics and Genetic Improvement 301

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Technical Abstract In flowering plants the two sperm cells are embedded within the cytoplasm of the growing pollen tube and as such are passively transported to the embryo sac, wherein double fertilization occurs upon their release. Interpretive Summary We purified sperm cells from Arabidopsis plants. Studies of gene expression in male gametes of maize and Plumbago, and in lily generative cells already showed that the previously held view of transcriptionally inert male gametes was not true, but genomewide studies were lacking.

Comparative analysis of the sperm cell transcriptome with those of representative sporophytic tissues and of pollen showed that sperm has distinct and diverse transcriptional profile. Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology Publication Type Peer Reviewed Journal Publication Acceptance Date 27, Publication Date 30, Publishers URL httpwww. plantphysiol. org Reprint URL Citation Borges, Gomes, Gardner, Moreno, Mccormick, Feijo, J., Becker, J. Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology

Functional classifications of genes with enriched expression in sperm cells showed that DNA repair, ubiquitin mediated proteolysis and cell cycle progression are overrepresented Gene Ontology categories

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Plant Biol The tissue was

For rice, some sequences used to design the chip were complete, whereas others were partial cDNAs. Puhler, Nipponbare were surfacesterilized in sodium hypochlorite solution 2 active chlorine, washed repeatedly with sterile water, and planted in autoclaved sand. 95113. pmid15129719 CrossRefMedlineISI Manthey, Krajinski, Hohnjec, Firnhaber, Puhler, Perlick, & Kerp, & Allen, & Krajinski, & Smith, 2002 Science 92100. pmid11935018 AbstractFREE Full Text Harrison, 323328. pmid15134754 CrossRefMedlineISI Salzer, Corbiere, Development of the symbiosis requires significant physiological changes of both partners 14, 16, which must result from plantfungal communication and should, in part, be mirrored by changes in transcription of particular genes.

It has to be considered, however, that, for the majority of queries, only partial sequences had been available. small fraction of the dicot sequences were already described and characterized in the literature, and complete cDNAs were available. and and citations therein. The symbiosisspecific hits included phylogenetically related homologues of the mycorrhizainduced highaffinity phosphate transporter from Medicago truncatula, potato, and rice 15, 31, 65, which are predicted to be functional orthologues 65.Some genes in legumes that determine the outcome of infection by fungal pathogens Table 2. J.

Genet. Moreover, comparison of & Briggs, analyzed data and and Acad. Arabidopsis is refractory to colonization by fungi. & Kerp, Sci. Sharp, 2002 Nucleic Acids Res. Journet, The data reveal genes in both mono and dicotyledonous plants at 120200 million years 78. These included up and downregulated gene.

RuizLozano, J., Roussel, Gianinazzi, 491503. pmid8624512 CrossRefMedlineISI Roussel, Bruns, GianinazziPearson, Hahlbrock, CrossRef Harrison, Here, we present microarray study of rice after colonization by symbiotic fungus. 2003 Mol. The dynamic range of the RTPCR data spanned five orders of magnitude, whereas the GeneChip expression values spanned three orders of magnitude data not shown. & Read, 1975 BioSystems 153164. pmid1120179 CrossRefMedlineISI Remy, Taylor, 352356. pmid12167330 CrossRefMedlineISI Ulker, Hause, 2002 Nature 959962. pmid12087405 CrossRefMedline Levy, J., Bres, Geurts, Chalhoub, Kulikova, Duc, Journet, It has to be considered, however, that, for the majority of queries, only partial sequences had been available. 2002 Science 7992.

Technical assessment of the GeneChip microarray revealed high reproducibility and sensitivity aim of this study was to create robust dataset by identifying genes with moderate to high expression levels and with clear changes in transcript level. Dangl, J. Opin. 197211. pmid12175013 CrossRefMedlineISI Ferrol, Pozo, Realtime RTPCR was performed for the mycorrhizaregulated genes whose expression did not change upon pathogen infection. CrossRefMedlineISI Goff, 785791. & Boller, 2000 Planta. The geometric mean expression levels of the control genes remained consistent across all PCR replicates data not shown. 297307. Bird, 1997 Nucleic Acids Res.
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Science 1993 262208214 Stormo

Bailey TL, Elkan This integrated result helps finding motifcandidates and figuring out the outline of cisregulatory modules. With the PDF button, the output can be saved asa pdf file, which is useful either for users furthermanipulation and inclusion in publication or for getting theentire view by adjusting the scale. Nat. Biotechnol. Sequence logos new way to display consensus sequences. Nat. 1994 Proceedings of 2nd International Conference on Intelligent Systems Molecular Biology.

This Article Abstract Print PDF 3179K Screen PDF 576K OA All Versions of this Article 35suppl_2W227 most recent gkm362v3 gkm362v2 gkm362v1 Alert me when this article is cited Alert me if correction is posted Services Email this article to friend Similar articles in PubMed Alert me to new issues of the journal Add to My Personal Archive Download to citation manager Commercial Reuse Guidelinesfor Open Access NAR Content Google Scholar Articles by Okumura, An algorithm for finding signals of unknown length in DNA sequences. 2836. Nat.

Tompa Li Bailey TL, Church GM, Moor BD, Eskin Favorov AV, Frith MC, Fu et al. DBTBS database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics. Articles by Nakai, Fitting mixture model by expectation maximization to discover motifs in biopolymers. Bioinformatics 2001 32S207S214. Bioinformatics 2003 19423424. Sequence logos new way to display consensus sequences. Biotechnol. Vlieghe Sandelin De Bleser PJ, Vleminckx Wasserman WW, van Roy Lenhard Biotechnol. Stormo Hartzell Stormo GD. Schneider TD, Stephens RM.

Biotechnol. Tompa Li Bailey TL, Church GM, Moor BD, Eskin Favorov AV, Frith MC, Fu et al. 2836. Social Bookmarking Whats this? After Melina II finishes the motif detection, the results ofeach prediction are integrated and displayed graphically Figure 1c.Detected motif candidates are illustrated with colored arrowsin the summarized view upperright corner of the result view.If users click motif candidate in the summarized view, moreinformation is shown in the detailed view lowerright cornerand the predicted motif is illustrated by Sequence Logo 11 ora weight matrix.

1990 1860976100. DBTBS database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics. An algorithm for finding signals of unknown length in DNA sequences. Natl Acad. Nucleic Acids Res.

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