Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.

Beier S, Himmelbach A, Colmsee C, Zhang X-Q, Barrero RA, Zhang Q, Li L, Bayer M, Bolser D, Taudien S, Groth M, et al. (2017)
Scientific Data 4(1): 170044.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
DOI
Autor*in
Beier, Sebastian; Himmelbach, Axel; Colmsee, Christian; Zhang, Xiao-Qi; Barrero, Roberto A.; Zhang, Qisen; Li, Lin; Bayer, Micha; Bolser, Daniel; Taudien, Stefan; Groth, Marco; Felder, Marius
Alle
Einrichtung
Fakultät für Biologie
Erscheinungsjahr
2017
Zeitschriftentitel
Scientific Data
Band
4
Ausgabe
1
Art.-Nr.
170044
ISSN
2052-4463
Page URI
https://pub.uni-bielefeld.de/record/2918706

Zitieren

Beier S, Himmelbach A, Colmsee C, et al. Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. Scientific Data. 2017;4(1): 170044.
Beier, S., Himmelbach, A., Colmsee, C., Zhang, X. - Q., Barrero, R. A., Zhang, Q., Li, L., et al. (2017). Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. Scientific Data, 4(1), 170044. doi:10.1038/sdata.2017.44
Beier, Sebastian, Himmelbach, Axel, Colmsee, Christian, Zhang, Xiao-Qi, Barrero, Roberto A., Zhang, Qisen, Li, Lin, et al. 2017. “Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.”. Scientific Data 4 (1): 170044.
Beier, S., Himmelbach, A., Colmsee, C., Zhang, X. - Q., Barrero, R. A., Zhang, Q., Li, L., Bayer, M., Bolser, D., Taudien, S., et al. (2017). Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. Scientific Data 4:170044.
Beier, S., et al., 2017. Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. Scientific Data, 4(1): 170044.
S. Beier, et al., “Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.”, Scientific Data, vol. 4, 2017, : 170044.
Beier, S., Himmelbach, A., Colmsee, C., Zhang, X.-Q., Barrero, R.A., Zhang, Q., Li, L., Bayer, M., Bolser, D., Taudien, S., Groth, M., Felder, M., Hastie, A., Šimková, H., Staňková, H., Vrána, J., Chan, S., Muñoz-Amatriaín, M., Ounit, R., Wanamaker, S., Schmutzer, T., Aliyeva-Schnorr, L., Grasso, S., Tanskanen, J., Sampath, D., Heavens, D., Cao, S., Chapman, B., Dai, F., Han, Y., Li, H., Li, X., Lin, C., McCooke, J.K., Tan, C., Wang, S., Yin, S., Zhou, G., Poland, J.A., Bellgard, M.I., Houben, A., Doležel, J., Ayling, S., Lonardi, S., Langridge, P., Muehlbauer, G.J., Kersey, P., Clark, M.D., Caccamo, M., Schulman, A.H., Platzer, M., Close, T.J., Hansson, M., Zhang, G., Braumann, I., Li, C., Waugh, R., Scholz, U., Stein, N., Mascher, M.: Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. Scientific Data. 4, : 170044 (2017).
Beier, Sebastian, Himmelbach, Axel, Colmsee, Christian, Zhang, Xiao-Qi, Barrero, Roberto A., Zhang, Qisen, Li, Lin, Bayer, Micha, Bolser, Daniel, Taudien, Stefan, Groth, Marco, Felder, Marius, Hastie, Alex, Šimková, Hana, Staňková, Helena, Vrána, Jan, Chan, Saki, Muñoz-Amatriaín, María, Ounit, Rachid, Wanamaker, Steve, Schmutzer, Thomas, Aliyeva-Schnorr, Lala, Grasso, Stefano, Tanskanen, Jaakko, Sampath, Dharanya, Heavens, Darren, Cao, Sujie, Chapman, Brett, Dai, Fei, Han, Yong, Li, Hua, Li, Xuan, Lin, Chongyun, McCooke, John K., Tan, Cong, Wang, Songbo, Yin, Shuya, Zhou, Gaofeng, Poland, Jesse A., Bellgard, Matthew I., Houben, Andreas, Doležel, Jaroslav, Ayling, Sarah, Lonardi, Stefano, Langridge, Peter, Muehlbauer, Gary J., Kersey, Paul, Clark, Matthew D., Caccamo, Mario, Schulman, Alan H., Platzer, Matthias, Close, Timothy J., Hansson, Mats, Zhang, Guoping, Braumann, Ilka, Li, Chengdao, Waugh, Robbie, Scholz, Uwe, Stein, Nils, and Mascher, Martin. “Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.”. Scientific Data 4.1 (2017): 170044.

22 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

GrainGenes: centralized small grain resources and digital platform for geneticists and breeders.
Blake VC, Woodhouse MR, Lazo GR, Odell SG, Wight CP, Tinker NA, Wang Y, Gu YQ, Birkett CL, Jannink JL, Matthews DE, Hane DL, Michel SL, Yao E, Sen TZ., Database (Oxford) 2019(), 2019
PMID: 31210272
High Resolution Genetic and Physical Mapping of a Major Powdery Mildew Resistance Locus in Barley.
Hoseinzadeh P, Zhou R, Mascher M, Himmelbach A, Niks RE, Schweizer P, Stein N., Front Plant Sci 10(), 2019
PMID: 30838011
Genetic association with high-resolution climate data reveals selection footprints in the genomes of barley landraces across the Iberian Peninsula.
Contreras-Moreira B, Serrano-Notivoli R, Mohammed NE, Cantalapiedra CP, Beguería S, Casas AM, Igartua E., Mol Ecol 28(8), 2019
PMID: 30614595
The Dark Matter of Large Cereal Genomes: Long Tandem Repeats.
Kapustová V, Tulpová Z, Toegelová H, Novák P, Macas J, Karafiátová M, Hřibová E, Doležel J, Šimková H., Int J Mol Sci 20(10), 2019
PMID: 31137466
Unraveling the complex genome of Saccharum spontaneum using Polyploid Gene Assembler.
Nascimento LC, Yanagui K, Jose J, Camargo ELO, Grassi MCB, Cunha CP, Bressiani JA, Carvalho GMA, Carvalho CR, Prado PF, Mieczkowski P, Pereira GAG, Carazzolle MF., DNA Res 26(3), 2019
PMID: 30768175
Never the Two Shall Mix: Robust Indel Markers to Ensure the Fidelity of Two Pivotal and Closely-Related Accessions of Brachypodium distachyon.
Brew-Appiah RAT, Peracchi LM, Sanguinet KA., Plants (Basel) 8(6), 2019
PMID: 31174296
Deciphering the genetic basis for vitamin E accumulation in leaves and grains of different barley accessions.
Schuy C, Groth J, Ammon A, Eydam J, Baier S, Schweizer G, Hanemann A, Herz M, Voll LM, Sonnewald U., Sci Rep 9(1), 2019
PMID: 31263124
A single nucleotide polymorphism in the "Fra" gene results in fractured starch granules in barley.
Saito M, Tanaka T, Sato K, Vrinten P, Nakamura T., Theor Appl Genet 131(2), 2018
PMID: 29098311
HorTILLUS-A Rich and Renewable Source of Induced Mutations for Forward/Reverse Genetics and Pre-breeding Programs in Barley (Hordeum vulgare L.).
Szurman-Zubrzycka ME, Zbieszczyk J, Marzec M, Jelonek J, Chmielewska B, Kurowska MM, Krok M, Daszkowska-Golec A, Guzy-Wrobelska J, Gruszka D, Gajecka M, Gajewska P, Stolarek M, Tylec P, Sega P, Lip S, Kudełko M, Lorek M, Gorniak-Walas M, Malolepszy A, Podsiadlo N, Szyrajew KP, Keisa A, Mbambo Z, Todorowska E, Gaj M, Nita Z, Orlowska-Job W, Maluszynski M, Szarejko I., Front Plant Sci 9(), 2018
PMID: 29515615
Targeted resequencing reveals genomic signatures of barley domestication.
Pankin A, Altmüller J, Becker C, von Korff M., New Phytol 218(3), 2018
PMID: 29528492
Independent assessment and improvement of wheat genome sequence assemblies using Fosill jumping libraries.
Lu FH, McKenzie N, Kettleborough G, Heavens D, Clark MD, Bevan MW., Gigascience 7(5), 2018
PMID: 29762659
Shifting the limits in wheat research and breeding using a fully annotated reference genome.
International Wheat Genome Sequencing Consortium (IWGSC), IWGSC RefSeq principal investigators:, Appels R, Eversole K, Feuillet C, Keller B, Rogers J, Stein N, IWGSC whole-genome assembly principal investigators:, Pozniak CJ, Stein N, Choulet F, Distelfeld A, Eversole K, Poland J, Rogers J, Ronen G, Sharpe AG, Whole-genome sequencing and assembly:, Pozniak C, Ronen G, Stein N, Barad O, Baruch K, Choulet F, Keeble-Gagnère G, Mascher M, Sharpe AG, Ben-Zvi G, Josselin AA, Hi-C data-based scaffolding:, Stein N, Mascher M, Himmelbach A, Whole-genome assembly quality control and analyses:, Choulet F, Keeble-Gagnère G, Mascher M, Rogers J, Balfourier F, Gutierrez-Gonzalez J, Hayden M, Josselin AA, Koh C, Muehlbauer G, Pasam RK, Paux E, Pozniak CJ, Rigault P, Sharpe AG, Tibbits J, Tiwari V, Pseudomolecule assembly:, Choulet F, Keeble-Gagnère G, Mascher M, Josselin AA, Rogers J, RefSeq genome structure and gene analyses:, Spannagl M, Choulet F, Lang D, Gundlach H, Haberer G, Keeble-Gagnère G, Mayer KFX, Ormanbekova D, Paux E, Prade V, Šimková H, Wicker T, Automated annotation:, Choulet F, Spannagl M, Swarbreck D, Rimbert H, Felder M, Guilhot N, Gundlach H, Haberer G, Kaithakottil G, Keilwagen J, Lang D, Leroy P, Lux T, Mayer KFX, Twardziok S, Venturini L, Manual gene curation:, Appels R, Rimbert H, Choulet F, Juhász A, Keeble-Gagnère G, Subgenome comparative analyses:, Choulet F, Spannagl M, Lang D, Abrouk M, Haberer G, Keeble-Gagnère G, Mayer KFX, Wicker T, Transposable elements:, Choulet F, Wicker T, Gundlach H, Lang D, Spannagl M, Phylogenomic analyses:, Lang D, Spannagl M, Appels R, Fischer I, Transcriptome analyses and RNA-seq data:, Uauy C, Borrill P, Ramirez-Gonzalez RH, Appels R, Arnaud D, Chalabi S, Chalhoub B, Choulet F, Cory A, Datla R, Davey MW, Hayden M, Jacobs J, Lang D, Robinson SJ, Spannagl M, Steuernagel B, Tibbits J, Tiwari V, van Ex F, Wulff BBH, Whole-genome methylome:, Pozniak CJ, Robinson SJ, Sharpe AG, Cory A, Histone mark analyses:, Benhamed M, Paux E, Bendahmane A, Concia L, Latrasse D, BAC chromosome MTP IWGSC–Bayer Whole-Genome Profiling (WGP) tags:, Rogers J, Jacobs J, Alaux M, Appels R, Bartoš J, Bellec A, Berges H, Doležel J, Feuillet C, Frenkel Z, Gill B, Korol A, Letellier T, Olsen OA, Šimková H, Singh K, Valárik M, van der Vossen E, Vautrin S, Weining S, Chromosome LTC mapping and physical mapping quality control:, Korol A, Frenkel Z, Fahima T, Glikson V, Raats D, Rogers J, RH mapping:, Tiwari V, Gill B, Paux E, Poland J, Optical mapping:, Doležel J, Číhalíková J, Šimková H, Toegelová H, Vrána J, Recombination analyses:, Sourdille P, Darrier B, Gene family analyses:, Appels R, Spannagl M, Lang D, Fischer I, Ormanbekova D, Prade V, CBF gene family:, Barabaschi D, Cattivelli L, Dehydrin gene family:, Hernandez P, Galvez S, Budak H, NLR gene family:, Steuernagel B, Jones JDG, Witek K, Wulff BBH, Yu G, PPR gene family:, Small I, Melonek J, Zhou R, Prolamin gene family:, Juhász A, Belova T, Appels R, Olsen OA, WAK gene family:, Kanyuka K, King R, Stem solidness (SSt1) QTL team:, Nilsen K, Walkowiak S, Pozniak CJ, Cuthbert R, Datla R, Knox R, Wiebe K, Xiang D, Flowering locus C (FLC) gene team:, Rohde A, Golds T, Genome size analysis:, Doležel J, Čížková J, Tibbits J, MicroRNA and tRNA annotation:, Budak H, Akpinar BA, Biyiklioglu S, Genetic maps and mapping:, Muehlbauer G, Poland J, Gao L, Gutierrez-Gonzalez J, N'Daiye A, BAC libraries and chromosome sorting:, Doležel J, Šimková H, Číhalíková J, Kubaláková M, Šafář J, Vrána J, BAC pooling, BAC library repository, and access:, Berges H, Bellec A, Vautrin S, IWGSC sequence and data repository and access:, Alaux M, Alfama F, Adam-Blondon AF, Flores R, Guerche C, Letellier T, Loaec M, Quesneville H, Physical maps and BAC-based sequences:, 1A BAC sequencing and assembly:, Pozniak CJ, Sharpe AG, Walkowiak S, Budak H, Condie J, Ens J, Koh C, Maclachlan R, Tan Y, Wicker T, 1B BAC sequencing and assembly:, Choulet F, Paux E, Alberti A, Aury JM, Balfourier F, Barbe V, Couloux A, Cruaud C, Labadie K, Mangenot S, Wincker P, 1D, 4D, and 6D physical mapping:, Gill B, Kaur G, Luo M, Sehgal S, 2AL physical mapping:, Singh K, Chhuneja P, Gupta OP, Jindal S, Kaur P, Malik P, Sharma P, Yadav B, 2AS physical mapping:, Singh NK, Khurana J, Chaudhary C, Khurana P, Kumar V, Mahato A, Mathur S, Sevanthi A, Sharma N, Tomar RS, 2B, 2D, 4B, 5BL, and 5DL IWGSC–Bayer Whole-Genome Profiling (WGP) physical maps:, Rogers J, Jacobs J, Alaux M, Bellec A, Berges H, Doležel J, Feuillet C, Frenkel Z, Gill B, Korol A, van der Vossen E, Vautrin S, 3AL physical mapping:, Gill B, Kaur G, Luo M, Sehgal S, 3DS physical mapping and BAC sequencing and assembly:, Bartoš J, Holušová K, Plíhal O, 3DL BAC sequencing and assembly:, Clark MD, Heavens D, Kettleborough G, Wright J, 4A physical mapping, BAC sequencing, assembly, and annotation:, Valárik M, Abrouk M, Balcárková B, Holušová K, Hu Y, Luo M, 5BS BAC sequencing and assembly:, Salina E, Ravin N, Skryabin K, Beletsky A, Kadnikov V, Mardanov A, Nesterov M, Rakitin A, Sergeeva E, 6B BAC sequencing and assembly:, Handa H, Kanamori H, Katagiri S, Kobayashi F, Nasuda S, Tanaka T, Wu J, 7A physical mapping and BAC sequencing:, Appels R, Hayden M, Keeble-Gagnère G, Rigault P, Tibbits J, 7B physical mapping, BAC sequencing, and assembly:, Olsen OA, Belova T, Cattonaro F, Jiumeng M, Kugler K, Mayer KFX, Pfeifer M, Sandve S, Xun X, Zhan B, 7DS BAC sequencing and assembly:, Šimková H, Abrouk M, Batley J, Bayer PE, Edwards D, Hayashi S, Toegelová H, Tulpová Z, Visendi P, 7DL physical mapping and BAC sequencing:, Weining S, Cui L, Du X, Feng K, Nie X, Tong W, Wang L, Figures:, Borrill P, Gundlach H, Galvez S, Kaithakottil G, Lang D, Lux T, Mascher M, Ormanbekova D, Prade V, Ramirez-Gonzalez RH, Spannagl M, Stein N, Uauy C, Venturini L, Manuscript writing team:, Stein N, Appels R, Eversole K, Rogers J, Borrill P, Cattivelli L, Choulet F, Hernandez P, Kanyuka K, Lang D, Mascher M, Nilsen K, Paux E, Pozniak CJ, Ramirez-Gonzalez RH, Šimková H, Small I, Spannagl M, Swarbreck D, Uauy C., Science 361(6403), 2018
PMID: 30115783
FLOWERING LOCUS T3 Controls Spikelet Initiation But Not Floral Development.
Mulki MA, Bi X, von Korff M., Plant Physiol 178(3), 2018
PMID: 30213796
Genome-wide identification and analysis of non-specific Lipid Transfer Proteins in hexaploid wheat.
Kouidri A, Whitford R, Suchecki R, Kalashyan E, Baumann U., Sci Rep 8(1), 2018
PMID: 30459322
Multi-Locus Genome-Wide Association Studies for 14 Main Agronomic Traits in Barley.
Hu X, Zuo J, Wang J, Liu L, Sun G, Li C, Ren X, Sun D., Front Plant Sci 9(), 2018
PMID: 30524459
Unbalanced historical phenotypic data from seed regeneration of a barley ex situ collection.
Gonzalez MY, Weise S, Zhao Y, Philipp N, Arend D, Börner A, Oppermann M, Graner A, Reif JC, Schulthess AW., Sci Data 5(), 2018
PMID: 30512010
Plant science: Genomic compartments in barley.
Keller B, Krattinger SG., Nature 544(7651), 2017
PMID: 28447630
A chromosome conformation capture ordered sequence of the barley genome.
Mascher M, Gundlach H, Himmelbach A, Beier S, Twardziok SO, Wicker T, Radchuk V, Dockter C, Hedley PE, Russell J, Bayer M, Ramsay L, Liu H, Haberer G, Zhang XQ, Zhang Q, Barrero RA, Li L, Taudien S, Groth M, Felder M, Hastie A, Šimková H, Staňková H, Vrána J, Chan S, Muñoz-Amatriaín M, Ounit R, Wanamaker S, Bolser D, Colmsee C, Schmutzer T, Aliyeva-Schnorr L, Grasso S, Tanskanen J, Chailyan A, Sampath D, Heavens D, Clissold L, Cao S, Chapman B, Dai F, Han Y, Li H, Li X, Lin C, McCooke JK, Tan C, Wang P, Wang S, Yin S, Zhou G, Poland JA, Bellgard MI, Borisjuk L, Houben A, Doležel J, Ayling S, Lonardi S, Kersey P, Langridge P, Muehlbauer GJ, Clark MD, Caccamo M, Schulman AH, Mayer KFX, Platzer M, Close TJ, Scholz U, Hansson M, Zhang G, Braumann I, Spannagl M, Li C, Waugh R, Stein N., Nature 544(7651), 2017
PMID: 28447635
Wild emmer genome architecture and diversity elucidate wheat evolution and domestication.
Avni R, Nave M, Barad O, Baruch K, Twardziok SO, Gundlach H, Hale I, Mascher M, Spannagl M, Wiebe K, Jordan KW, Golan G, Deek J, Ben-Zvi B, Ben-Zvi G, Himmelbach A, MacLachlan RP, Sharpe AG, Fritz A, Ben-David R, Budak H, Fahima T, Korol A, Faris JD, Hernandez A, Mikel MA, Levy AA, Steffenson B, Maccaferri M, Tuberosa R, Cattivelli L, Faccioli P, Ceriotti A, Kashkush K, Pourkheirandish M, Komatsuda T, Eilam T, Sela H, Sharon A, Ohad N, Chamovitz DA, Mayer KFX, Stein N, Ronen G, Peleg Z, Pozniak CJ, Akhunov ED, Distelfeld A., Science 357(6346), 2017
PMID: 28684525
Association Mapping of Diastatic Power in UK Winter and Spring Barley by Exome Sequencing of Phenotypically Contrasting Variety Sets.
Looseley ME, Bayer M, Bull H, Ramsay L, Thomas W, Booth A, De La Fuente Canto C, Morris J, Hedley PE, Russell J., Front Plant Sci 8(), 2017
PMID: 28955358
Development and Evaluation of a Barley 50k iSelect SNP Array.
Bayer MM, Rapazote-Flores P, Ganal M, Hedley PE, Macaulay M, Plieske J, Ramsay L, Russell J, Shaw PD, Thomas W, Waugh R., Front Plant Sci 8(), 2017
PMID: 29089957
Comparative transcriptome profile of the leaf elongation zone of wild barley (Hordeum spontaneum) eibi1 mutant and its isogenic wild type.
Zhou Q, Wang A, Duan R, Yan J, Zhao G, Nevo E, Chen G., Genet Mol Biol 40(4), 2017
PMID: 29064514

61 References

Daten bereitgestellt von Europe PubMed Central.

The international barley sequencing consortium--at the threshold of efficient access to the barley genome.
Schulte D, Close TJ, Graner A, Langridge P, Matsumoto T, Muehlbauer G, Sato K, Schulman AH, Waugh R, Wise RP, Stein N., Plant Physiol. 149(1), 2009
PMID: 19126706
BAC library resources for map-based cloning and physical map construction in barley (Hordeum vulgare L.).
Schulte D, Ariyadasa R, Shi B, Fleury D, Saski C, Atkins M, deJong P, Wu CC, Graner A, Langridge P, Stein N., BMC Genomics 12(), 2011
PMID: 21595870
A sequence-ready physical map of barley anchored genetically by two million single-nucleotide polymorphisms.
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 PE, Muehlbauer GJ, Scholz U, Korol A, Mayer KF, Waugh R, Langridge P, Graner A, Stein N., Plant Physiol. 164(1), 2013
PMID: 24243933
A physical, genetic and functional sequence assembly of the barley genome.
International Barley Genome Sequencing Consortium, Mayer KF, Waugh R, Brown JW, Schulman A, Langridge P, Platzer M, Fincher GB, Muehlbauer GJ, Sato K, Close TJ, Wise RP, Stein N, Mayer KF, Waugh R, Langridge P, Close TJ, Wise RP, Graner A, Matsumoto T, Sato K, Schulman A, Muehlbauer GJ, Stein N, Ariyadasa R, Schulte D, Poursarebani N, Zhou R, Steuernagel B, Mascher M, Scholz U, Shi B, Langridge P, Madishetty K, Svensson JT, Bhat P, Moscou M, Resnik J, Close TJ, Muehlbauer GJ, Hedley P, Liu H, Morris J, Waugh R, Frenkel Z, Korol A, Berges H, Graner A, Stein N, Steuernagel B, Scholz U, Taudien S, Felder M, Groth M, Platzer M, Stein N, Steuernagel B, Scholz U, Himmelbach A, Taudien S, Felder M, Platzer M, Lonardi S, Duma D, Alpert M, Cordero F, Beccuti M, Ciardo G, Ma Y, Wanamaker S, Close TJ, Stein N, Cattonaro F, Vendramin V, Scalabrin S, Radovic S, Wing R, Schulte D, Steuernagel B, Morgante M, Stein N, Waugh R, Nussbaumer T, Gundlach H, Martis M, Ariyadasa R, Poursarebani N, Steuernagel B, Scholz U, Wise RP, Poland J, Stein N, Mayer KF, Spannagl M, Pfeifer M, Gundlach H, Mayer KF, Gundlach H, Moisy C, Tanskanen J, Scalabrin S, Zuccolo A, Vendramin V, Morgante M, Schulman A, Pfeifer M, Spannagl M, Hedley P, Morris J, Russell J, Druka A, Marshall D, Bayer M, Swarbreck D, Sampath D, Ayling S, Febrer M, Caccamo M, Matsumoto T, Tanaka T, Sato K, Wise RP, Close TJ, Wannamaker S, Muehlbauer GJ, Stein N, Waugh R, Steuernagel B, Schmutzer T, Mascher M, Scholz U, Taudien S, Platzer M, Sato K, Marshall D, Bayer M, Waugh R, Stein N., Nature 491(7426), 2012
PMID: 23075845
Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ).
Mascher M, Muehlbauer GJ, Rokhsar DS, Chapman J, Schmutz J, Barry K, Munoz-Amatriain M, Close TJ, Wise RP, Schulman AH, Himmelbach A, Mayer KF, Scholz U, Poland JA, Stein N, Waugh R., Plant J. 76(4), 2013
PMID: 23998490
Initial sequencing and analysis of the human genome.
Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, Kann L, Lehoczky J, LeVine R, McEwan P, McKernan K, Meldrim J, Mesirov JP, Miranda C, Morris W, Naylor J, Raymond C, Rosetti M, Santos R, Sheridan A, Sougnez C, Stange-Thomann Y, Stojanovic N, Subramanian A, Wyman D, Rogers J, Sulston J, Ainscough R, Beck S, Bentley D, Burton J, Clee C, Carter N, Coulson A, Deadman R, Deloukas P, Dunham A, Dunham I, Durbin R, French L, Grafham D, Gregory S, Hubbard T, Humphray S, Hunt A, Jones M, Lloyd C, McMurray A, Matthews L, Mercer S, Milne S, Mullikin JC, Mungall A, Plumb R, Ross M, Shownkeen R, Sims S, Waterston RH, Wilson RK, Hillier LW, McPherson JD, Marra MA, Mardis ER, Fulton LA, Chinwalla AT, Pepin KH, Gish WR, Chissoe SL, Wendl MC, Delehaunty KD, Miner TL, Delehaunty A, Kramer JB, Cook LL, Fulton RS, Johnson DL, Minx PJ, Clifton SW, Hawkins T, Branscomb E, Predki P, Richardson P, Wenning S, Slezak T, Doggett N, Cheng JF, Olsen A, Lucas S, Elkin C, Uberbacher E, Frazier M, Gibbs RA, Muzny DM, Scherer SE, Bouck JB, Sodergren EJ, Worley KC, Rives CM, Gorrell JH, Metzker ML, Naylor SL, Kucherlapati RS, Nelson DL, Weinstock GM, Sakaki Y, Fujiyama A, Hattori M, Yada T, Toyoda A, Itoh T, Kawagoe C, Watanabe H, Totoki Y, Taylor T, Weissenbach J, Heilig R, Saurin W, Artiguenave F, Brottier P, Bruls T, Pelletier E, Robert C, Wincker P, Smith DR, Doucette-Stamm L, Rubenfield M, Weinstock K, Lee HM, Dubois J, Rosenthal A, Platzer M, Nyakatura G, Taudien S, Rump A, Yang H, Yu J, Wang J, Huang G, Gu J, Hood L, Rowen L, Madan A, Qin S, Davis RW, Federspiel NA, Abola AP, Proctor MJ, Myers RM, Schmutz J, Dickson M, Grimwood J, Cox DR, Olson MV, Kaul R, Raymond C, Shimizu N, Kawasaki K, Minoshima S, Evans GA, Athanasiou M, Schultz R, Roe BA, Chen F, Pan H, Ramser J, Lehrach H, Reinhardt R, McCombie WR, de la Bastide M, Dedhia N, Blocker H, Hornischer K, Nordsiek G, Agarwala R, Aravind L, Bailey JA, Bateman A, Batzoglou S, Birney E, Bork P, Brown DG, Burge CB, Cerutti L, Chen HC, Church D, Clamp M, Copley RR, Doerks T, Eddy SR, Eichler EE, Furey TS, Galagan J, Gilbert JG, Harmon C, Hayashizaki Y, Haussler D, Hermjakob H, Hokamp K, Jang W, Johnson LS, Jones TA, Kasif S, Kaspryzk A, Kennedy S, Kent WJ, Kitts P, Koonin EV, Korf I, Kulp D, Lancet D, Lowe TM, McLysaght A, Mikkelsen T, Moran JV, Mulder N, Pollara VJ, Ponting CP, Schuler G, Schultz J, Slater G, Smit AF, Stupka E, Szustakowki J, Thierry-Mieg D, Thierry-Mieg J, Wagner L, Wallis J, Wheeler R, Williams A, Wolf YI, Wolfe KH, Yang SP, Yeh RF, Collins F, Guyer MS, Peterson J, Felsenfeld A, Wetterstrand KA, Patrinos A, Morgan MJ, de Jong P, Catanese JJ, Osoegawa K, Shizuya H, Choi S, Chen YJ, Szustakowki J; International Human Genome Sequencing Consortium., Nature 409(6822), 2001
PMID: 11237011
The B73 maize genome: complexity, diversity, and dynamics.
Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, Chen W, Yan L, Higginbotham J, Cardenas M, Waligorski J, Applebaum E, Phelps L, Falcone J, Kanchi K, Thane T, Scimone A, Thane N, Henke J, Wang T, Ruppert J, Shah N, Rotter K, Hodges J, Ingenthron E, Cordes M, Kohlberg S, Sgro J, Delgado B, Mead K, Chinwalla A, Leonard S, Crouse K, Collura K, Kudrna D, Currie J, He R, Angelova A, Rajasekar S, Mueller T, Lomeli R, Scara G, Ko A, Delaney K, Wissotski M, Lopez G, Campos D, Braidotti M, Ashley E, Golser W, Kim H, Lee S, Lin J, Dujmic Z, Kim W, Talag J, Zuccolo A, Fan C, Sebastian A, Kramer M, Spiegel L, Nascimento L, Zutavern T, Miller B, Ambroise C, Muller S, Spooner W, Narechania A, Ren L, Wei S, Kumari S, Faga B, Levy MJ, McMahan L, Van Buren P, Vaughn MW, Ying K, Yeh CT, Emrich SJ, Jia Y, Kalyanaraman A, Hsia AP, Barbazuk WB, Baucom RS, Brutnell TP, Carpita NC, Chaparro C, Chia JM, Deragon JM, Estill JC, Fu Y, Jeddeloh JA, Han Y, Lee H, Li P, Lisch DR, Liu S, Liu Z, Nagel DH, McCann MC, SanMiguel P, Myers AM, Nettleton D, Nguyen J, Penning BW, Ponnala L, Schneider KL, Schwartz DC, Sharma A, Soderlund C, Springer NM, Sun Q, Wang H, Waterman M, Westerman R, Wolfgruber TK, Yang L, Yu Y, Zhang L, Zhou S, Zhu Q, Bennetzen JL, Dawe RK, Jiang J, Jiang N, Presting GG, Wessler SR, Aluru S, Martienssen RA, Clifton SW, McCombie WR, Wing RA, Wilson RK., Science 326(5956), 2009
PMID: 19965430
Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly.
Lam ET, Hastie A, Lin C, Ehrlich D, Das SK, Austin MD, Deshpande P, Cao H, Nagarajan N, Xiao M, Kwok PY., Nat. Biotechnol. 30(8), 2012
PMID: 22797562
Comprehensive mapping of long-range interactions reveals folding principles of the human genome.
Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, Sandstrom R, Bernstein B, Bender MA, Groudine M, Gnirke A, Stamatoyannopoulos J, Mirny LA, Lander ES, Dekker J., Science 326(5950), 2009
PMID: 19815776
Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions.
Burton JN, Adey A, Patwardhan RP, Qiu R, Kitzman JO, Shendure J., Nat. Biotechnol. 31(12), 2013
PMID: 24185095
Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach.
Poland JA, Brown PJ, Sorrells ME, Jannink JL., PLoS ONE 7(2), 2012
PMID: 22389690
BARLEX - the Barley Draft Genome Explorer.
Colmsee C, Beier S, Himmelbach A, Schmutzer T, Stein N, Scholz U, Mascher M., Mol Plant 8(6), 2015
PMID: 25804976
Sequencing of 15 622 gene-bearing BACs clarifies the gene-dense regions of the barley genome.
Munoz-Amatriain M, Lonardi S, Luo M, Madishetty K, Svensson JT, Moscou MJ, Wanamaker S, Jiang T, Kleinhofs A, Muehlbauer GJ, Wise RP, Stein N, Ma Y, Rodriguez E, Kudrna D, Bhat PR, Chao S, Condamine P, Heinen S, Resnik J, Wing R, Witt HN, Alpert M, Beccuti M, Bozdag S, Cordero F, Mirebrahim H, Ounit R, Wu Y, You F, Zheng J, Simkova H, Dolezel J, Grimwood J, Schmutz J, Duma D, Altschmied L, Blake T, Bregitzer P, Cooper L, Dilbirligi M, Falk A, Feiz L, Graner A, Gustafson P, Hayes PM, Lemaux P, Mammadov J, Close TJ., Plant J. 84(1), 2015
PMID: 26252423
The barley Frost resistance-H2 locus.
Pasquariello M, Barabaschi D, Himmelbach A, Steuernagel B, Ariyadasa R, Stein N, Gandolfi F, Tenedini E, Bernardis I, Tagliafico E, Pecchioni N, Francia E., Funct. Integr. Genomics 14(1), 2014
PMID: 24442711
Parallel tagged sequencing on the 454 platform.
Meyer M, Stenzel U, Hofreiter M., Nat Protoc 3(2), 2008
PMID: 18274529
De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley.
Steuernagel B, Taudien S, Gundlach H, Seidel M, Ariyadasa R, Schulte D, Petzold A, Felder M, Graner A, Scholz U, Mayer KF, Platzer M, Stein N., BMC Genomics 10(), 2009
PMID: 19930547
Multiplex sequencing of bacterial artificial chromosomes for assembling complex plant genomes.
Beier S, Himmelbach A, Schmutzer T, Felder M, Taudien S, Mayer KF, Platzer M, Stein N, Scholz U, Mascher M., Plant Biotechnol. J. 14(7), 2016
PMID: 26801048

AUTHOR UNKNOWN, 0
Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries.
Aird D, Ross MG, Chen WS, Danielsson M, Fennell T, Russ C, Jaffe DB, Nusbaum C, Gnirke A., Genome Biol. 12(2), 2011
PMID: 21338519
A large genome center's improvements to the Illumina sequencing system.
Quail MA, Kozarewa I, Smith F, Scally A, Stephens PJ, Durbin R, Swerdlow H, Turner DJ., Nat. Methods 5(12), 2008
PMID: 19034268
Paired-end sequencing of long-range DNA fragments for de novo assembly of large, complex Mammalian genomes by direct intra-molecule ligation.
Asan , Geng C, Chen Y, Wu K, Cai Q, Wang Y, Lang Y, Cao H, Yang H, Wang J, Zhang X., PLoS ONE 7(9), 2012
PMID: 23029438
Illumina sequencing library preparation for highly multiplexed target capture and sequencing.
Meyer M, Kircher M., Cold Spring Harb Protoc 2010(6), 2010
PMID: 20516186
Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition.
Adey A, Morrison HG, Asan , Xun X, Kitzman JO, Turner EH, Stackhouse B, MacKenzie AP, Caruccio NC, Zhang X, Shendure J., Genome Biol. 11(12), 2010
PMID: 21143862
Combinatorial pooling enables selective sequencing of the barley gene space.
Lonardi S, Duma D, Alpert M, Cordero F, Beccuti M, Bhat PR, Wu Y, Ciardo G, Alsaihati B, Ma Y, Wanamaker S, Resnik J, Bozdag S, Luo MC, Close TJ., PLoS Comput. Biol. 9(4), 2013
PMID: 23592960
Velvet: algorithms for de novo short read assembly using de Bruijn graphs.
Zerbino DR, Birney E., Genome Res. 18(5), 2008
PMID: 18349386
CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers.
Ounit R, Wanamaker S, Close TJ, Lonardi S., BMC Genomics 16(), 2015
PMID: 25879410
A greedy algorithm for aligning DNA sequences.
Zhang Z, Schwartz S, Wagner L, Miller W., J. Comput. Biol. 7(1-2), 2000
PMID: 10890397

AUTHOR UNKNOWN, 0
Sequencing of BAC pools by different next generation sequencing platforms and strategies.
Taudien S, Steuernagel B, Ariyadasa R, Schulte D, Schmutzer T, Groth M, Felder M, Petzold A, Scholz U, Mayer KF, Stein N, Platzer M., BMC Res Notes 4(), 2011
PMID: 21999860
Fast and accurate short read alignment with Burrows-Wheeler transform.
Li H, Durbin R., Bioinformatics 25(14), 2009
PMID: 19451168
Scaffolding pre-assembled contigs using SSPACE.
Boetzer M, Henkel CV, Jansen HJ, Butler D, Pirovano W., Bioinformatics 27(4), 2010
PMID: 21149342
Analysis of the bread wheat genome using whole-genome shotgun sequencing.
Brenchley R, Spannagl M, Pfeifer M, Barker GL, D'Amore R, Allen AM, McKenzie N, Kramer M, Kerhornou A, Bolser D, Kay S, Waite D, Trick M, Bancroft I, Gu Y, Huo N, Luo MC, Sehgal S, Gill B, Kianian S, Anderson O, Kersey P, Dvorak J, McCombie WR, Hall A, Mayer KF, Edwards KJ, Bevan MW, Hall N., Nature 491(7426), 2012
PMID: 23192148

AUTHOR UNKNOWN, 0
Sequencing quality assessment tools to enable data-driven informatics for high throughput genomics.
Leggett RM, Ramirez-Gonzalez RH, Clavijo BJ, Waite D, Davey RP., Front Genet 4(), 2013
PMID: 24381581
ABySS: a parallel assembler for short read sequence data.
Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I., Genome Res. 19(6), 2009
PMID: 19251739
FLASH: fast length adjustment of short reads to improve genome assemblies.
Magoc T, Salzberg SL., Bioinformatics 27(21), 2011
PMID: 21903629
NextClip: an analysis and read preparation tool for Nextera Long Mate Pair libraries.
Leggett RM, Clavijo BJ, Clissold L, Clark MD, Caccamo M., Bioinformatics 30(4), 2013
PMID: 24297520
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler.
Luo R, Liu B, Xie Y, Li Z, Huang W, Yuan J, He G, Chen Y, Pan Q, Liu Y, Tang J, Wu G, Zhang H, Shi Y, Liu Y, Yu C, Wang B, Lu Y, Han C, Cheung DW, Yiu SM, Peng S, Xiaoqian Z, Liu G, Liao X, Li Y, Yang H, Wang J, Lam TW, Wang J., Gigascience 1(1), 2012
PMID: 23587118
Automated generation of heuristics for biological sequence comparison.
Slater GS, Birney E., BMC Bioinformatics 6(), 2005
PMID: 15713233
BEDTools: a flexible suite of utilities for comparing genomic features.
Quinlan AR, Hall IM., Bioinformatics 26(6), 2010
PMID: 20110278

AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 0
CGtag: complete genomics toolkit and annotation in a cloud-based Galaxy.
Hiltemann S, Mei H, de Hollander M, Palli I, van der Spek P, Jenster G, Stubbs A., Gigascience 3(1), 2014
PMID: 24460651
A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome.
Chapman JA, Mascher M, Buluc A, Barry K, Georganas E, Session A, Strnadova V, Jenkins J, Sehgal S, Oliker L, Schmutz J, Yelick KA, Scholz U, Waugh R, Poland JA, Muehlbauer GJ, Stein N, Rokhsar DS., Genome Biol. 16(), 2015
PMID: 25637298

AUTHOR UNKNOWN, 0
Application of genotyping-by-sequencing on semiconductor sequencing platforms: a comparison of genetic and reference-based marker ordering in barley.
Mascher M, Wu S, Amand PS, Stein N, Poland J., PLoS ONE 8(10), 2013
PMID: 24098570
Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph.
Wu Y, Bhat PR, Close TJ, Lonardi S., PLoS Genet. 4(10), 2008
PMID: 18846212

AUTHOR UNKNOWN, 0

Prim, Bell system technical journal 36(), 1957
Unlocking the secondary gene-pool of barley with next-generation sequencing.
Wendler N, Mascher M, Noh C, Himmelbach A, Scholz U, Ruge-Wehling B, Stein N., Plant Biotechnol. J. 12(8), 2014
PMID: 25040223

Martin, EMBnet. journal 17(), 2011
The Sequence Alignment/Map format and SAMtools.
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup., Bioinformatics 25(16), 2009
PMID: 19505943

AUTHOR UNKNOWN, 0
Genome architectures revealed by tethered chromosome conformation capture and population-based modeling.
Kalhor R, Tjong H, Jayathilaka N, Alber F, Chen L., Nat. Biotechnol. 30(1), 2011
PMID: 22198700
Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries.
Matsumoto T, Tanaka T, Sakai H, Amano N, Kanamori H, Kurita K, Kikuta A, Kamiya K, Yamamoto M, Ikawa H, Fujii N, Hori K, Itoh T, Sato K., Plant Physiol. 156(1), 2011
PMID: 21415278
GMAP: a genomic mapping and alignment program for mRNA and EST sequences.
Wu TD, Watanabe CK., Bioinformatics 21(9), 2005
PMID: 15728110
A framework for variation discovery and genotyping using next-generation DNA sequencing data.
DePristo MA, Banks E, Poplin R, Garimella KV, Maguire JR, Hartl C, Philippakis AA, del Angel G, Rivas MA, Hanna M, McKenna A, Fennell TJ, Kernytsky AM, Sivachenko AY, Cibulskis K, Gabriel SB, Altshuler D, Daly MJ., Nat. Genet. 43(5), 2011
PMID: 21478889
PGP repository: a plant phenomics and genomics data publication infrastructure.
Arend D, Junker A, Scholz U, Schuler D, Wylie J, Lange M., Database (Oxford) 2016(), 2016
PMID: 27087305
e!DAL--a framework to store, share and publish research data.
Arend D, Lange M, Chen J, Colmsee C, Flemming S, Hecht D, Scholz U., BMC Bioinformatics 15(), 2014
PMID: 24958009
Cytologically integrated physical restriction fragment length polymorphism maps for the barley genome based on translocation breakpoints.
Kunzel G, Korzun L, Meister A., Genetics 154(1), 2000
PMID: 10628998
Cytogenetic mapping with centromeric bacterial artificial chromosomes contigs shows that this recombination-poor region comprises more than half of barley chromosome 3H.
Aliyeva-Schnorr L, Beier S, Karafiatova M, Schmutzer T, Scholz U, Dolezel J, Stein N, Houben A., Plant J. 84(2), 2015
PMID: 26332657
Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®
Quellen

PMID: 28448065
PubMed | Europe PMC

Suchen in

Google Scholar