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  1. Allotetraploid white clover (Trifolium repens L.) is an important forage legume widely cultivated in most temperate regions. Only a small number of microsatellite markers are publicly available and can be utilize...

    Authors: Yan Zhang, Ji He, Patrick X Zhao, Joseph H Bouton and Maria J Monteros
    Citation: Plant Methods 2008 4:19
  2. Medicago truncatula is a model legume species that is currently the focus of an international genome sequencing effort. Although several different oligonucleotide and cDNA arrays have been produced for genome-wid...

    Authors: Klementina Kakar, Maren Wandrey, Tomasz Czechowski, Tanja Gaertner, Wolf-Rüdiger Scheible, Mark Stitt, Ivone Torres-Jerez, Yongli Xiao, Julia C Redman, Hank C Wu, Foo Cheung, Christopher D Town and Michael K Udvardi
    Citation: Plant Methods 2008 4:18
  3. Transcription factors (TFs) co-ordinately regulate target genes that are dispersed throughout the genome. This co-ordinate regulation is achieved, in part, through the interaction of transcription factors with...

    Authors: Andrew P Dare, Robert J Schaffer, Kui Lin-Wang, Andrew C Allan and Roger P Hellens
    Citation: Plant Methods 2008 4:17
  4. We describe an efficient method for the rapid quantitative determination of the abundance of three acidic plant hormones from a single crude extract directly by LC/MS/MS. The method exploits the sensitivity of...

    Authors: Silvia Forcat, Mark H Bennett, John W Mansfield and Murray R Grant
    Citation: Plant Methods 2008 4:16
  5. Quantitative Real Time RT-PCR (q2(RT)PCR) is a maturing technique which gives researchers the ability to quantify and compare very small amounts of nucleic acids. Primer design and optimization is an essential...

    Authors: Richard M Sharpe, Sade N Dunn and A Bruce Cahoon
    Citation: Plant Methods 2008 4:14
  6. We report the development of a microarray platform for rapid and cost-effective genetic mapping, and its evaluation using rice as a model. In contrast to methods employing whole-genome tiling microarrays for g...

    Authors: Jeremy D Edwards, Jaroslav Janda, Megan T Sweeney, Ambika B Gaikwad, Bin Liu, Hei Leung and David W Galbraith
    Citation: Plant Methods 2008 4:13
  7. For omics experiments, detailed characterisation of experimental material with respect to its genetic features, its cultivation history and its treatment history is a requirement for analyses by bioinformatics...

    Authors: Karin I Köhl, Georg Basler, Alexander Lüdemann, Joachim Selbig and Dirk Walther
    Citation: Plant Methods 2008 4:11
  8. The genus Brassica (Brassicaceae, Brassiceae) is closely related to the model plant Arabidopsis, and includes several important crop plants. Against the background of ongoing genome sequencing, and in line with e...

    Authors: Lars Østergaard and Graham J King
    Citation: Plant Methods 2008 4:10
  9. The isolation of green fluorescent protein (GFP) and the development of spectral variants over the past decade have begun to reveal the dynamic nature of protein trafficking and organelle motility. In planta anal...

    Authors: Naohiro Kato, Dexter Reynolds, Matthew L Brown, Marietta Boisdore, Yukichi Fujikawa, Andrea Morales and Lee A Meisel
    Citation: Plant Methods 2008 4:9
  10. Microsatellites are popular molecular markers in many plant species due to their stable and highly polymorphic nature. A number of analysis methods have been described but analyses of these markers are typical...

    Authors: John F Mackay, Christopher D Wright and Roderick G Bonfiglioli
    Citation: Plant Methods 2008 4:8
  11. A common limitation in guard cell signaling research is that it is difficult to obtain consistent high expression of transgenes of interest in Arabidopsis guard cells using known guard cell promoters or the const...

    Authors: Yingzhen Yang, Alex Costa, Nathalie Leonhardt, Robert S Siegel and Julian I Schroeder
    Citation: Plant Methods 2008 4:6
  12. Protein S-acylation (also known as palmitoylation) is the reversible post-translational addition of acyl lipids to cysteine residues in proteins through a thioester bond. It allows strong association with memb...

    Authors: Piers A Hemsley, Laura Taylor and Claire S Grierson
    Citation: Plant Methods 2008 4:2
  13. Research in plant science laboratories often involves usage of many different species, cultivars, ecotypes, mutants, alleles or transgenic lines. This creates a great challenge to keep track of the identity of...

    Authors: Vivien Exner, Matthias Hirsch-Hoffmann, Wilhelm Gruissem and Lars Hennig
    Citation: Plant Methods 2008 4:1
  14. MicroRNAs (miRNAs) are a class of small non-coding RNAs with a critical role in development and environmental responses. Efficient and reliable detection of miRNAs is an essential step towards understanding th...

    Authors: Erika Varkonyi-Gasic, Rongmei Wu, Marion Wood, Eric F Walton and Roger P Hellens
    Citation: Plant Methods 2007 3:12
  15. Chromatin remodeling, histone modifications and other chromatin-related processes play a crucial role in gene regulation. A very useful technique to study these processes is chromatin immunoprecipitation (ChIP...

    Authors: Max Haring, Sascha Offermann, Tanja Danker, Ina Horst, Christoph Peterhansel and Maike Stam
    Citation: Plant Methods 2007 3:11
  16. The results of transcriptome microarray analysis are usually presented as a list of differentially expressed genes. As these lists can be long, it is hard to interpret the desired experimental treatment effect...

    Authors: Ana Rotter, Björn Usadel, Špela Baebler, Mark Stitt and Kristina Gruden
    Citation: Plant Methods 2007 3:10
  17. Quantitative reverse transcription – polymerase chain reaction (qRT-PCR) has been demonstrated to be particularly suitable for the analysis of weakly expressed genes, such as those encoding transcription facto...

    Authors: Camila Caldana, Wolf-Rüdiger Scheible, Bernd Mueller-Roeber and Slobodan Ruzicic
    Citation: Plant Methods 2007 3:7
  18. The diploid, Solanum caripense, a wild relative of potato and tomato, possesses valuable resistance to potato late blight and we are interested in the genetic base of this resistance. Due to extremely low levels ...

    Authors: Joy Nakitandwe, Friederike Trognitz and Bodo Trognitz
    Citation: Plant Methods 2007 3:2
  19. There is considerable interest in rapid assays or screening systems for assigning gene function. However, analysis of gene function in the flowers of some species is restricted due to the difficulty of produci...

    Authors: Yongjin Shang, Kathy E Schwinn, Michael J Bennett, Donald A Hunter, Toni L Waugh, Nilangani N Pathirana, David A Brummell, Paula E Jameson and Kevin M Davies
    Citation: Plant Methods 2007 3:1
  20. Genome analysis of soybean (Glycine max L.) has been complicated by its paleo-autopolyploid nature and conserved homeologous regions. Landmarks of expressed sequence tags (ESTs) located within a minimum tile path...

    Authors: Kay L Shopinski, Muhammad J Iqbal, Jeffry L Shultz, Dheepakkumaran Jayaraman and David A Lightfoot
    Citation: Plant Methods 2006 2:20
  21. The floral dip method of transformation by immersion of inflorescences in a suspension of Agrobacterium is the method of choice for Arabidopsis transformation. The presence of a marker, usually antibiotic- or her...

    Authors: Samuel J Harrison, Ellie K Mott, Kate Parsley, Sue Aspinall, John C Gray and Amanda Cottage
    Citation: Plant Methods 2006 2:19
  22. Genetic engineering of commercially important crops has become routine in many laboratories. However, the inability to predict where a transgene will integrate and to efficiently select plants with stable leve...

    Authors: Ana Paula Santos, Eva Wegel, George C Allen, William F Thompson, Eva Stoger, Peter Shaw and Rita Abranches
    Citation: Plant Methods 2006 2:18
  23. We have developed a functional genomics approach based on expression cloning in Xenopus oocytes to identify plant transporter function. We utilized the full-length cDNA databases to generate a normalized library ...

    Authors: Hussam H Nour-Eldin, Morten HH Nørholm and Barbara A Halkier
    Citation: Plant Methods 2006 2:17
  24. The Agrobacterium vacuum (Bechtold et al 1993) and floral-dip (Clough and Bent 1998) are very efficient methods for generating transgenic Arabidopsis plants. These methods allow plant transformation without the n...

    Authors: Elke Logemann, Rainer P Birkenbihl, Bekir Ülker and Imre E Somssich
    Citation: Plant Methods 2006 2:16
  25. Mg chelatase is a multi-subunit enzyme that catalyses the first committed step of chlorophyll biosynthesis. Studies in higher plants and algae indicate that the Mg chelatase reaction product, Mg-protoporphyrin...

    Authors: Ruairidh JH Sawers, Phyllis R Farmer, Peter Moffett and Thomas P Brutnell
    Citation: Plant Methods 2006 2:15
  26. Strategies for robust quantitative comparison between different biological samples are of high importance in experiments that address biological questions beyond the establishment of protein lists. Here, we pr...

    Authors: Wolfgang R Engelsberger, Alexander Erban, Joachim Kopka and Waltraud X Schulze
    Citation: Plant Methods 2006 2:14
  27. Transient assays using protoplasts are ideal for processing large quantities of genetic data coming out of hi-throughput assays. Previously, protoplasts have routinely been prepared from dicot tissue or cell s...

    Authors: Rebecca Bart, Mawsheng Chern, Chang-Jin Park, Laura Bartley and Pamela C Ronald
    Citation: Plant Methods 2006 2:13
  28. The ultimate goal of proteomic analysis of a cell compartment should be the exhaustive identification of resident proteins; excluding proteins from other cell compartments. Reaching such a goal closely depends...

    Authors: Leila Feiz, Muhammad Irshad, Rafael F Pont-Lezica, Hervé Canut and Elisabeth Jamet
    Citation: Plant Methods 2006 2:10
  29. The creation of minimally redundant tile paths (hereafter MTP) from contiguous sets of overlapping clones (hereafter contigs) in physical maps is a critical step for structural and functional genomics. Build 4...

    Authors: JL Shultz, C Yesudas, S Yaegashi, AJ Afzal, S Kazi and DA Lightfoot
    Citation: Plant Methods 2006 2:9
  30. Uncovering the key sequence elements in gene promoters that regulate the expression of plant genomes is a huge task that will require a series of complementary methods for prediction, substantial innovations i...

    Authors: Kathryn E Holt, A Harvey Millar and James Whelan
    Citation: Plant Methods 2006 2:8
  31. The pH is an important parameter controlling many metabolic and signalling pathways in living cells. Recombinant fluorescent pH indicators (pHluorins) have come into vogue for monitoring cellular pH. They are ...

    Authors: Alexander Schulte, Inken Lorenzen, Markus Böttcher and Christoph Plieth
    Citation: Plant Methods 2006 2:7
  32. As an Open Access journal dedicated to promoting technological innovation in plant biology, Plant Methods occupies a unique niche amongst plant journals. To fund its open access policy, and to enable it to contin...

    Authors: Brian G Forde and Michael R Roberts
    Citation: Plant Methods 2006 2:6
  33. In order to understand microarray data reasonably in the context of other existing biological knowledge, it is necessary to conduct a thorough examination of the data utilizing every aspect of available omic k...

    Authors: Yoshikazu Hasegawa, Motoaki Seki, Yoshiki Mochizuki, Naohiko Heida, Katsura Hirosawa, Naoki Okamoto, Tetsuya Sakurai, Masakazu Satou, Kenji Akiyama, Kei Iida, Kisik Lee, Shigehiko Kanaya, Taku Demura, Kazuo Shinozaki, Akihiko Konagaya and Tetsuro Toyoda
    Citation: Plant Methods 2006 2:5

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