Martin Mascher 1 protocol

Ines Walde 1 protocol

Axel Himmelbach Department of Genebank, Leibniz-Institute of Plant Genetics and Crop Plant Research, Germany
2 protocols

Frank Ordon Julius Kühn-Institut (JKI), Federal Research Centre for Cultivated Plants, Institute for Resistance Research and Stress Tolerance, Germany
3 protocols

Nils Stein
  • research group leader, Department Genebank, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben, Germany, Germany,
Research focus
  • Plant science
  • 3 Author merit


Dr. rer. nat., Genetics, University of Hohenheim, Germany, 1997

Current position

Head group Genome Diversity, Genebank Department, Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany

Publications (since 2009)

  1. Ariyadasa, R., Mascher, M., Nussbaumer, T., Schulte, D., Frenkel, Z., Poursarebani, N., Zhou, R., Steuernagel, B., Gundlach, H., Taudien, S., Felder, M., Platzer, M., Himmelbach, A., Schmutzer, T., Hedley, P. E., Muehlbauer, G. J., Scholz, U., Korol, A., Mayer, K. F., Waugh, R., Langridge, P., Graner, A. and Stein, N. (2014). A sequence-ready physical map of barley anchored genetically by two million single-nucleotide polymorphisms. Plant Physiol 164(1): 412-423.
  2. Bolger, M. E., Weisshaar, B., Scholz, U., Stein, N., Usadel, B. and Mayer, K. F. (2014). Plant genome sequencing - applications for crop improvement. Curr Opin Biotechnol 26: 31-37.
  3. Braumann, I., Stein, N. and Hansson, M. (2014). Reduced chlorophyll biosynthesis in heterozygous barley magnesium chelatase mutants. Plant Physiol Biochem 78: 10-14.
  4. Gawronski, P., Ariyadasa, R., Himmelbach, A., Poursarebani, N., Kilian, B., Stein, N., Steuernagel, B., Hensel, G., Kumlehn, J., Sehgal, S. K., Gill, B. S., Gould, P., Hall, A. and Schnurbusch, T. (2014). A distorted circadian clock causes early flowering and temperature-dependent variation in spike development in the Eps-3Am mutant of einkorn wheat. Genetics 196(4): 1253-1261.
  5. Himmelbach, A., Knauft, M. and Stein, N. (2014). Plant Sequence Capture Optimised for Illumina Sequencing. Bio-protocol 4(13):
  6. Kunze, G., Gaillardin, C., Czernicka, M., Durrens, P., Martin, T., Boer, E., Gabaldon, T., Cruz, J. A., Talla, E., Marck, C., Goffeau, A., Barbe, V., Baret, P., Baronian, K., Beier, S., Bleykasten, C., Bode, R., Casaregola, S., Despons, L., Fairhead, C., Giersberg, M., Gierski, P. P., Hahnel, U., Hartmann, A., Jankowska, D., Jubin, C., Jung, P., Lafontaine, I., Leh-Louis, V., Lemaire, M., Marcet-Houben, M., Mascher, M., Morel, G., Richard, G. F., Riechen, J., Sacerdot, C., Sarkar, A., Savel, G., Schacherer, J., Sherman, D. J., Stein, N., Straub, M. L., Thierry, A., Trautwein-Schult, A., Vacherie, B., Westhof, E., Worch, S., Dujon, B., Souciet, J. L., Wincker, P., Scholz, U. and Neuveglise, C. (2014). The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest. Biotechnol Biofuels 7: 66.
  7. Mascher, M., Jost, M., Kuon, J. E., Himmelbach, A., Assfalg, A., Beier, S., Scholz, U., Graner, A. and Stein, N. (2014). Mapping-by-sequencing accelerates forward genetics in barley. Genome Biol 15(6): R78.
  8. Mazaheri, M., Kianian, P., Mergoum, M., Valentini, G. L., Seetan, R., Pirseyedi, S. M., Kumar, A., Gu, Y. Q., Stein, N. and Kubaláková, M. (2014). Transposable element junctions in marker development and genomic characterization of barley. The Plant Genome 7(1).
  9. Middleton, C. P., Senerchia, N., Stein, N., Akhunov, E. D., Keller, B., Wicker, T. and Kilian, B. (2014). Sequencing of chloroplast genomes from wheat, barley, rye and their relatives provides a detailed insight into the evolution of the Triticeae tribe. PLoS One 9(3): e85761.
  10. Pasquariello, M., Barabaschi, D., Himmelbach, A., Steuernagel, B., Ariyadasa, R., Stein, N., Gandolfi, F., Tenedini, E., Bernardis, I. and Tagliafico, E. (2014). The barley Frost resistance-H2 locus. Functional & integrative genomics 14(1): 85-100.
  11. Poursarebani, N., Nussbaumer, T., Simkova, H., Safar, J., Witsenboer, H., van Oeveren, J., Dolezel, J., Mayer, K. F., Stein, N. and Schnurbusch, T. (2014). Whole-genome profiling and shotgun sequencing delivers an anchored, gene-decorated, physical map assembly of bread wheat chromosome 6A. Plant J. (Epub ahead of print)
  12. Poursarebani, N., Ma, L., Schmutzer, T., Houben, A. and Stein, N. (2014). FISH mapping for physical map improvement in the large genome of barley - a case study on chromosome 2H. Cytogenetic and Genome Research. (In press)
  13. Schmutzer, T., Ma, L., Pousarebani, N., Bull, F., Stein, N., Houben, A. and Scholz, U. (2014). Kmasker--a tool for in silico prediction of single-copy FISH probes for the large-genome species Hordeum vulgare. Cytogenet Genome Res 142(1): 66-78.
  14. Yang, P., Lupken, T., Habekuss, A., Hensel, G., Steuernagel, B., Kilian, B., Ariyadasa, R., Himmelbach, A., Kumlehn, J., Scholz, U., Ordon, F. and Stein, N. (2014). PROTEIN DISULFIDE ISOMERASE LIKE 5-1 is a susceptibility factor to plant viruses. Proc Natl Acad Sci U S A 111(6): 2104-2109.
  15. Yang, P., Habekuss, A., Ordon, F. and Stein, N. (2014). Analysis of bymovirus resistance genes on proximal barley chromosome 4HL provides the basis for precision breeding for BaMMV/BaYMV resistance. Theor Appl Genet 127(7): 1625-1634.
  16. Lüpken, T., Stein, N., Perovic, D., Habekuß, A., Serfling, A., Krämer, I., Hähnel, U., Steuernagel, B., Scholz, U. and Ariyadasa, R. (2014). High-resolution mapping of the barley Ryd3 locus controlling tolerance to BYDV. Molecular Breeding 33(2): 477-488.
  17. Biselli, C., Urso, S., Tacconi, G., Steuernagel, B., Schulte, D., Gianinetti, A., Bagnaresi, P., Stein, N., Cattivelli, L. and Vale, G. (2013). Haplotype variability and identification of new functional alleles at the Rdg2a leaf stripe resistance gene locus. Theor Appl Genet 126(6): 1575-1586.
  18. Karafiatova, M., Bartos, J., Kopecky, D., Ma, L., Sato, K., Houben, A., Stein, N. and Dolezel, J. (2013). Mapping nonrecombining regions in barley using multicolor FISH. Chromosome Res 21(8): 739-751.
  19. Koppolu, R., Anwar, N., Sakuma, S., Tagiri, A., Lundqvist, U., Pourkheirandish, M., Rutten, T., Seiler, C., Himmelbach, A., Ariyadasa, R., Youssef, H. M., Stein, N., Sreenivasulu, N., Komatsuda, T. and Schnurbusch, T. (2013). Six-rowed spike4 (Vrs4) controls spikelet determinacy and row-type in barley. Proc Natl Acad Sci U S A 110(32): 13198-13203.
  20. Lupken, T., Stein, N., Perovic, D., Habekuss, A., Kramer, I., Hahnel, U., Steuernagel, B., Scholz, U., Zhou, R., Ariyadasa, R., Taudien, S., Platzer, M., Martis, M., Mayer, K., Friedt, W. and Ordon, F. (2013). Genomics-based high-resolution mapping of the BaMMV/BaYMV resistance gene rym11 in barley (Hordeum vulgare L.). Theor Appl Genet 126(5): 1201-1212.
  21. Martis, M. M., Zhou, R., Haseneyer, G., Schmutzer, T., Vrana, J., Kubalakova, M., Konig, S., Kugler, K. G., Scholz, U., Hackauf, B., Korzun, V., Schon, C. C., Dolezel, J., Bauer, E., Mayer, K. F. and Stein, N. (2013). Reticulate evolution of the rye genome. Plant Cell 25(10): 3685-3698.
  22. Mascher, M., Muehlbauer, G. J., Rokhsar, D. S., Chapman, J., Schmutz, J., Barry, K., Munoz-Amatriain, M., Close, T. J., Wise, R. P., Schulman, A. H., Himmelbach, A., Mayer, K. F., Scholz, U., Poland, J. A., Stein, N. and Waugh, R. (2013). Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ). Plant J 76(4): 718-727.
  23. Mascher, M., Richmond, T. A., Gerhardt, D. J., Himmelbach, A., Clissold, L., Sampath, D., Ayling, S., Steuernagel, B., Pfeifer, M., D'Ascenzo, M., Akhunov, E. D., Hedley, P. E., Gonzales, A. M., Morrell, P. L., Kilian, B., Blattner, F. R., Scholz, U., Mayer, K. F., Flavell, A. J., Muehlbauer, G. J., Waugh, R., Jeddeloh, J. A. and Stein, N. (2013). Barley whole exome capture: a tool for genomic research in the genus Hordeum and beyond. Plant J 76(3): 494-505.
  24. Mascher, M., Wu, S., Amand, P. S., Stein, N. and Poland, J. (2013). Application of genotyping-by-sequencing on semiconductor sequencing platforms: a comparison of genetic and reference-based marker ordering in barley. PLoS One 8(10): e76925.
  25. Matthies, I. E., Weise, S., Forster, J., Korzun, V., Stein, N. and Roder, M. S. (2013). Nitrogen-metabolism related genes in barley - haplotype diversity, linkage mapping and associations with malting and kernel quality parameters. BMC Genet 14: 77.
  26. McCouch, S., Baute, G. J., Bradeen, J., Bramel, P., Bretting, P. K., Buckler, E., Burke, J. M., Charest, D., Cloutier, S., Cole, G., Dempewolf, H., Dingkuhn, M., Feuillet, C., Gepts, P., Grattapaglia, D., Guarino, L., Jackson, S., Knapp, S., Langridge, P., Lawton-Rauh, A., Lijua, Q., Lusty, C., Michael, T., Myles, S., Naito, K., Nelson, R. L., Pontarollo, R., Richards, C. M., Rieseberg, L., Ross-Ibarra, J., Rounsley, S., Hamilton, R. S., Schurr, U., Stein, N., Tomooka, N., van der Knaap, E., van Tassel, D., Toll, J., Valls, J., Varshney, R. K., Ward, J., Waugh, R., Wenzl, P. and Zamir, D. (2013). Agriculture: Feeding the future. Nature 499(7456): 23-24.
  27. Middleton, C., Kilian, B., Akhunov, E., Stein, N., Keller, B. and Wicker, T. (2013). A detailed comparative analysis and phylogeny of wheat and its relatives through whole-genome sample sequencing. The Plant Journal. 73: p. 347-356.
  28. Munoz-Amatriain, M., Eichten, S. R., Wicker, T., Richmond, T. A., Mascher, M., Steuernagel, B., Scholz, U., Ariyadasa, R., Spannagl, M., Nussbaumer, T., Mayer, K. F., Taudien, S., Platzer, M., Jeddeloh, J. A., Springer, N. M., Muehlbauer, G. J. and Stein, N. (2013). Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome. Genome Biol 14(6): R58.
  29. Perovic, J., Silvar, C., Koenig, J., Stein, N., Perovic, D. and Ordon, F. (2013). A versatile fluorescence-based multiplexing assay for CAPS genotyping on capillary electrophoresis systems. Molecular Breeding 32(1): 61-69.
  30. Poursarebani, N., Ariyadasa, R., Zhou, R., Schulte, D., Steuernagel, B., Martis, M. M., Graner, A., Schweizer, P., Scholz, U., Mayer, K. and Stein, N. (2013). Conserved synteny-based anchoring of the barley genome physical map. Funct Integr Genomics 13(3): 339-350.
  31. Sakuma, S., Pourkheirandish, M., Hensel, G., Kumlehn, J., Stein, N., Tagiri, A., Yamaji, N., Ma, J. F., Sassa, H., Koba, T. and Komatsuda, T. (2013). Divergence of expression pattern contributed to neofunctionalization of duplicated HD-Zip I transcription factor in barley. New Phytol 197(3): 939-948.
  32. Yang, P., Perovic, D., Habekuß, A., Zhou, R., Graner, A., Ordon, F. and Stein, N. (2013). Gene-based high-density mapping of the gene rym7 conferring resistance to Barley mild mosaic virus (BaMMV). Molecular Breeding 32(1): 27-37.
  33. Ariyadasa, R. and Stein, N. (2012). Advances in BAC-based physical mapping and map integration strategies in plants. Journal of BioMed Research.
  34. Buchmann, J. P., Matsumoto, T., Stein, N., Keller, B. and Wicker, T. (2012). Inter-species sequence comparison of Brachypodium reveals how transposon activity corrodes genome colinearity. Plant J 71(4): 550-563.
  35. Cockram, J., Thiel, T., Steuernagel, B., Stein, N., Taudien, S., Bailey, P. C. and O'Sullivan, D. M. (2012). Genome dynamics explain the evolution of flowering time CCT domain gene families in the Poaceae. PLoS One 7(9): e45307.
  36. Comadran, J., Kilian, B., Russell, J., Ramsay, L., Stein, N., Ganal, M., Shaw, P., Bayer, M., Thomas, W., Marshall, D., Hedley, P., Tondelli, A., Pecchioni, N., Francia, E., Korzun, V., Walther, A. and Waugh, R. (2012). Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and environmental adaptation in cultivated barley. Nat Genet 44(12): 1388-1392.
  37. Feuillet, C., Stein, N., Rossini, L., Praud, S., Mayer, K., Schulman, A., Eversole, K. and Appels, R. (2012). Integrating cereal genomics to support innovation in the Triticeae. Funct Integr Genomics 12(4): 573-583.
  38. Houston, K., Druka, A., Bonar, N., Macaulay, M., Lundqvist, U., Franckowiak, J., Morgante, M., Stein, N. and Waugh, R. (2012). Analysis of the barley bract suppression gene Trd1. Theor Appl Genet 125(1): 33-45.
  39. Huynh, B. L., Mather, D. E., Schreiber, A. W., Toubia, J., Baumann, U., Shoaei, Z., Stein, N., Ariyadasa, R., Stangoulis, J. C., Edwards, J., Shirley, N., Langridge, P. and Fleury, D. (2012). Clusters of genes encoding fructan biosynthesizing enzymes in wheat and barley. Plant Mol Biol 80(3): 299-314.
  40. Martis, M. M., Klemme, S., Banaei-Moghaddam, A. M., Blattner, F. R., Macas, J., Schmutzer, T., Scholz, U., Gundlach, H., Wicker, T., Simkova, H., Novak, P., Neumann, P., Kubalakova, M., Bauer, E., Haseneyer, G., Fuchs, J., Dolezel, J., Stein, N., Mayer, K. F. and Houben, A. (2012). Selfish supernumerary chromosome reveals its origin as a mosaic of host genome and organellar sequences. Proc Natl Acad Sci U S A 109(33): 13343-13346.
  41. Shahinnia, F., Druka, A., Franckowiak, J., Morgante, M., Waugh, R. and Stein, N. (2012). High resolution mapping of Dense spike-ar ( to the genetic centromere of barley chromosome 7H. Theor Appl Genet 124(2): 373-384.
  42. Mayer, K. F., Waugh, R., Brown, J. W., Schulman, A., Langridge, P., Platzer, M., Fincher, G. B., Muehlbauer, G. J., Sato, K., Close, T. J., Wise, R. P. and Stein, N. (2012). A physical, genetic and functional sequence assembly of the barley genome. Nature 491(7426): 711-716.
  43. Zakhrabekova, S., Gough, S. P., Braumann, I., Muller, A. H., Lundqvist, J., Ahmann, K., Dockter, C., Matyszczak, I., Kurowska, M., Druka, A., Waugh, R., Graner, A., Stein, N., Steuernagel, B., Lundqvist, U. and Hansson, M. (2012). Induced mutations in circadian clock regulator Mat-a facilitated short-season adaptation and range extension in cultivated barley. Proc Natl Acad Sci U S A 109(11): 4326-4331. 
  44. Mameaux, S., Cockram, J., Thiel, T., Steuernagel, B., Stein, N., Taudien, S., Jack, P., Werner, P., Gray, J. C., Greenland, A. J. and Powell, W. (2012). Molecular, phylogenetic and comparative genomic analysis of the cytokinin oxidase/dehydrogenase gene family in the Poaceae. Plant Biotechnol J 10(1): 67-82.
  45. Hartmann, A., Czauderna, T., Hoffmann, R., Stein, N. and Schreiber, F. (2011). HTPheno: an image analysis pipeline for high-throughput plant phenotyping. BMC Bioinformatics 12: 148.
  46. Haseneyer, G., Schmutzer, T., Seidel, M., Zhou, R., Mascher, M., Schon, C. C., Taudien, S., Scholz, U., Stein, N., Mayer, K. F. and Bauer, E. (2011). From RNA-seq to large-scale genotyping - genomics resources for rye (Secale cereale L.). BMC Plant Biol 11: 131.
  47. Liu, H., McNicol, J., Bayer, M., Morris, J. A., Cardle, L., Marshall, D. F., Schulte, D., Stein, N., Shi, B. J., Taudien, S., Waugh, R. and Hedley, P. E. (2011). Highly parallel gene-to-BAC addressing using microarrays. Biotechniques 50(3): 165-174.
  48. Mayer, K. F., Martis, M., Hedley, P. E., Simkova, H., Liu, H., Morris, J. A., Steuernagel, B., Taudien, S., Roessner, S., Gundlach, H., Kubalakova, M., Suchankova, P., Murat, F., Felder, M., Nussbaumer, T., Graner, A., Salse, J., Endo, T., Sakai, H., Tanaka, T., Itoh, T., Sato, K., Platzer, M., Matsumoto, T., Scholz, U., Dolezel, J., Waugh, R. and Stein, N. (2011). Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell 23(4): 1249-1263.
  49. Schulte, D., Ariyadasa, R., Shi, B., Fleury, D., Saski, C., Atkins, M., deJong, P., Wu, C. C., Graner, A., Langridge, P. and Stein, N. (2011). BAC library resources for map-based cloning and physical map construction in barley (Hordeum vulgare L.). BMC Genomics 12: 247.
  50. Schweizer, P. and Stein, N. (2011). Large-scale data integration reveals colocalization of gene functional groups with meta-QTL for multiple disease resistance in barley. Mol Plant Microbe Interact 24(12): 1492-1501.
  51. Sharma, S., Kopisch-Obuch, F. J., Keil, T., Laubach, E., Stein, N., Graner, A. and Jung, C. (2011). QTL analysis of root-lesion nematode resistance in barley: 1. Pratylenchus neglectus. Theor Appl Genet 122(7): 1321-1330.
  52. Taudien, S., Steuernagel, B., Ariyadasa, R., Schulte, D., Schmutzer, T., Groth, M., Felder, M., Petzold, A., Scholz, U., Mayer, K. F., Stein, N. and Platzer, M. (2011). Sequencing of BAC pools by different next generation sequencing platforms and strategies. BMC Res Notes 4: 411.
  53. Wicker, T., Mayer, K. F., Gundlach, H., Martis, M., Steuernagel, B., Scholz, U., Simkova, H., Kubalakova, M., Choulet, F., Taudien, S., Platzer, M., Feuillet, C., Fahima, T., Budak, H., Dolezel, J., Keller, B. and Stein, N. (2011). Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives. Plant Cell 23(5): 1706-1718.
  54. Comadran, J., Ramsay, L., MacKenzie, K., Hayes, P., Close, T. J., Muehlbauer, G., Stein, N. and Waugh, R. (2011). Patterns of polymorphism and linkage disequilibrium in cultivated barley. Theor Appl Genet 122(3): 523-531.
  55. Druka, A., Franckowiak, J., Lundqvist, U., Bonar, N., Alexander, J., Houston, K., Radovic, S., Shahinnia, F., Vendramin, V., Morgante, M., Stein, N. and Waugh, R. (2011). Genetic dissection of barley morphology and development. Plant Physiol 155(2): 617-627.
  56. Cockram, J., White, J., Zuluaga, D. L., Smith, D., Comadran, J., Macaulay, M., Luo, Z., Kearsey, M. J., Werner, P., Harrap, D., Tapsell, C., Liu, H., Hedley, P. E., Stein, N., Schulte, D., Steuernagel, B., Marshall, D. F., Thomas, W. T., Ramsay, L., Mackay, I., Balding, D. J., Waugh, R. and O'Sullivan, D. M. (2010). Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genome. Proc Natl Acad Sci U S A 107(50): 21611-21616.
  57. Druka, A., Franckowiak, J., Lundqvist, U., Bonar, N., Alexander, J., Guzy-Wrobelska, J., Ramsay, L., Druka, I., Grant, I., Macaulay, M., Vendramin, V., Shahinnia, F., Radovic, S., Houston, K., Harrap, D., Cardle, L., Marshall, D., Morgante, M., Stein, N. and Waugh, R. (2010). Exploiting induced variation to dissect quantitative traits in barley. Biochem Soc Trans 38(2): 683-688.
  58. Kocsy, G., Athmer, B., Perovic, D., Himmelbach, A., Szucs, A., Vashegyi, I., Schweizer, P., Galiba, G. and Stein, N. (2010). Regulation of gene expression by chromosome 5A during cold hardening in wheat. Mol Genet Genomics 283(4): 351-363.
  59. Ma, L., Vu, G. T., Schubert, V., Watanabe, K., Stein, N., Houben, A. and Schubert, I. (2010). Synteny between Brachypodium distachyon and Hordeum vulgare as revealed by FISH. Chromosome Res 18(7): 841-850.
  60. Nair, S. K., Wang, N., Turuspekov, Y., Pourkheirandish, M., Sinsuwongwat, S., Chen, G., Sameri, M., Tagiri, A., Honda, I., Watanabe, Y., Kanamori, H., Wicker, T., Stein, N., Nagamura, Y., Matsumoto, T. and Komatsuda, T. (2010). Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage. Proc Natl Acad Sci U S A 107(1): 490-495.
  61. Secenji, M., Lendvai, A., Miskolczi, P., Kocsy, G., Galle, A., Szucs, A., Hoffmann, B., Sarvari, E., Schweizer, P., Stein, N., Dudits, D. and Gyorgyey, J. (2010). Differences in root functions during long-term drought adaptation: comparison of active gene sets of two wheat genotypes. Plant Biol (Stuttg) 12(6): 871-882.
  62. Vu, G. T., Wicker, T., Buchmann, J. P., Chandler, P. M., Matsumoto, T., Graner, A. and Stein, N. (2010). Fine mapping and syntenic integration of the semi-dwarfing gene sdw3 of barley. Funct Integr Genomics 10(4): 509-521.
  63. Waugh, R., Marshall, D., Thomas, B., Comadran, J., Russell, J., Close, T., Stein, N., Hayes, P., Muehlbauer, G., Cockram, J., O'Sullivan, D., Mackay, I., Flavell, A. and Ramsay, L. (2010). Whole-genome association mapping in elite inbred crop varieties. Genome 53(11): 967-972.
  64. Bolot, S., Abrouk, M., Masood-Quraishi, U., Stein, N., Messing, J., Feuillet, C. and Salse, J. (2009). The 'inner circle' of the cereal genomes. Curr Opin Plant Biol 12(2): 119-125.
  65. Close, T. J., Bhat, P. R., Lonardi, S., Wu, Y., Rostoks, N., Ramsay, L., Druka, A., Stein, N., Svensson, J. T., Wanamaker, S., Bozdag, S., Roose, M. L., Moscou, M. J., Chao, S., Varshney, R. K., Szucs, P., Sato, K., Hayes, P. M., Matthews, D. E., Kleinhofs, A., Muehlbauer, G. J., DeYoung, J., Marshall, D. F., Madishetty, K., Fenton, R. D., Condamine, P., Graner, A. and Waugh, R. (2009). Development and implementation of high-throughput SNP genotyping in barley. BMC Genomics 10: 582.
  66. Gottwald, S., Bauer, P., Komatsuda, T., Lundqvist, U. and Stein, N. (2009). TILLING in the two-rowed barley cultivar 'Barke' reveals preferred sites of functional diversity in the gene HvHox1. BMC Res Notes 2: 258.
  67. Gray, J., Bevan, M., Brutnell, T., Buell, C. R., Cone, K., Hake, S., Jackson, D., Kellogg, E., Lawrence, C., McCouch, S., Mockler, T., Moose, S., Paterson, A., Peterson, T., Rokshar, D., Souza, G. M., Springer, N., Stein, N., Timmermans, M., Wang, G. L. and Grotewold, E. (2009). A recommendation for naming transcription factor proteins in the grasses. Plant Physiol 149(1): 4-6.
  68. Hubner, S., Hoffken, M., Oren, E., Haseneyer, G., Stein, N., Graner, A., Schmid, K. and Fridman, E. (2009). Strong correlation of wild barley (Hordeum spontaneum) population structure with temperature and precipitation variation. Mol Ecol 18(7): 1523-1536.
  69. Mayer, K. F., Taudien, S., Martis, M., Simkova, H., Suchankova, P., Gundlach, H., Wicker, T., Petzold, A., Felder, M., Steuernagel, B., Scholz, U., Graner, A., Platzer, M., Dolezel, J. and Stein, N. (2009). Gene content and virtual gene order of barley chromosome 1H. Plant Physiol 151(2): 496-505.
  70. Schulte, D., Close, T. J., Graner, A., Langridge, P., Matsumoto, T., Muehlbauer, G., Sato, K., Schulman, A. H., Waugh, R., Wise, R. P. and Stein, N. (2009). The international barley sequencing consortium--at the threshold of efficient access to the barley genome. Plant Physiol 149(1): 142-147.
  71. Steuernagel, B., Taudien, S., Gundlach, H., Seidel, M., Ariyadasa, R., Schulte, D., Petzold, A., Felder, M., Graner, A., Scholz, U., Mayer, K. F., Platzer, M. and Stein, N. (2009). De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley. BMC Genomics 10: 547.
  72. Thiel, T., Graner, A., Waugh, R., Grosse, I., Close, T. J. and Stein, N. (2009). Evidence and evolutionary analysis of ancient whole-genome duplication in barley predating the divergence from rice. BMC Evol Biol 9: 209.
  73. Turuspekov, Y., Honda, I., Watanabe, Y., Stein, N. and Komatsuda, T. (2009). An inverted and micro-colinear genomic regions of rice and barley carrying the cly1 gene for cleistogamy. Breeding Science 59(5): 657-663.
  74. Wicker, T., Krattinger, S. G., Lagudah, E. S., Komatsuda, T., Pourkheirandish, M., Matsumoto, T., Cloutier, S., Reiser, L., Kanamori, H., Sato, K., Perovic, D., Stein, N. and Keller, B. (2009). Analysis of intraspecies diversity in wheat and barley genomes identifies breakpoints of ancient haplotypes and provides insight into the structure of diploid and hexaploid triticeae gene pools. Plant Physiol 149(1): 258-270.
  75. Wicker, T., Taudien, S., Houben, A., Keller, B., Graner, A., Platzer, M. and Stein, N. (2009). A whole-genome snapshot of 454 sequences exposes the composition of the barley genome and provides evidence for parallel evolution of genome size in wheat and barley. Plant J 59(5): 712-722.
3 Protocols published
Tethered Chromosome Conformation Capture Sequencing in Triticeae: A Valuable Tool for Genome Assembly
Authors:  Axel Himmelbach, Ines Walde, Martin Mascher and Nils Stein, date: 08/05/2018, view: 346, Q&A: 0
Chromosome conformation capture sequencing (Hi-C) is a powerful method to comprehensively interrogate the three-dimensional positioning of chromatin in the nucleus. The development of Hi-C can be traced back to successive increases in the resolution ...
Fluorescence-based CAPS Multiplex Genotyping on Capillary Electrophoresis Systems
Authors:  Jelena Perovic, Cristina Silvar, Dragan Perovic, Nils Stein and Frank Ordon, date: 05/20/2015, view: 4497, Q&A: 0
Recent advances in next-generation sequencing techniques allow the detection of a large number of SNPs and their use in a high throughput manner. However, Cleaved Amplified Polymorphic Sequences (CAPSs) still play a significant role as complement to ...