Home / Projects / IWGSC Bread Wheat Projects / Sequencing / IWGSC Chromosome Survey Sequencing / Citations

Survey Sequence Citations

List of articles that cite the survey sequence publication "A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome", Science, 2014:345 (DOI: 10.1126/science.1251788)

Fine genetic mapping of spot blotch resistance gene Sb3 in wheat (Triticum aestivum).
Lu P, Liang Y, Li D, Wang Z, Li W, Wang G, Wang Y, Zhou S, Wu Q, Xie J, Zhang D, Chen Y, Li M, Zhang Y, Sun Q, Han C, Liu Z.
Theor Appl Genet. 2016 Mar;129(3):577-89.
doi: 10.1007/s00122-015-2649-z

Exploiting the Repetitive Fraction of the Wheat Genome for High-Throughput Single-Nucleotide Polymorphism Discovery and Genotyping.
Cubizolles N, Rey E, Choulet F, Rimbert H, Laugier C, Balfourier F, Bordes J, Poncet C, Jack P, James C, Gielen J, Argillier O, Jaubertie JP, Auzanneau J, Rohde A, Ouwerkerk P, Korzun V, Kollers S, Guerreiro L, Hourcade D, Robert O, Devaux P, Mastrangelo AM, Feuillet C, Sourdille P, and Paux E
The Plant Genome. 2016 Mar;9(1)
doi: 10.3835/plantgenome2015.09.0078

transPLANT Resources for Triticeae Genomic Data .
Spannagl M, Alaux M, Lange M, Bolser DM, Bader KS, Letellier T, Kimmel E, Flores R, Pommier C, Kerhornou A, Walts B, Nussbaumer T, Grabmuller C, Chen J, Colmsee C, Beier S, Mascher M, Schmutzer T, Arend D, Thanki A, Ramirez-Gonzalez R, Ayling M, Ayling S, Caccamo M, Mayer KFX, Scholz U, Steinbach D, Quesneville H, Paul J. Kersey PJ.
The Plant Genome. 2016 Mar;9(1)
doi:10.3835/plantgenome2015.06.0038

Molecular and Genomic Tools Provide Insights on Crop Domestication and Evolution.
Geleta M, Ortiz R.
In: Advances in Agronomy. 2016 135:181-223.
doi: 10.1016/bs.agron.2015.09.005

Genome-wide linkage mapping of flour color-related traits and polyphenol oxidase activity in common wheat.
Zhai S, He Z, Wen W, Jin H, Liu J, Zhang Y, Liu Z, Xia X.
Theoretical and Applied Genetics. 2016 Feb;129(2):377-394.
doi: 10.1007/s00122-015-2634-6

The grain Hardness locus characterized in a diverse wheat panel (Triticum aestivum L.) adapted to the central part of the Fertile Crescent: genetic diversity, haplotype structure, and phylogeny.
Shaaf S, Sharma R, Baloch FS, Badaeva ED, Knüpffer H, Kilian B, Özkan H.
Mol Genet Genomics. 2016 Feb 22

High-density molecular characterization and association mapping in Ethiopian durum wheat landraces reveals high diversity and potential for wheat breeding.
Mengistu DK, Kidane YG, Catellani M, Frascaroli E, Fadda C, Pè ME, Dell'Acqua M.
Plant Biotechnol J. 2016 Feb 8.
doi: 10.1111/pbi.12538

Genome Wide Association Study of Seedling and Adult Plant Leaf Rust Resistance in Elite Spring Wheat Breeding Lines.
Gao L, Turner MK, Chao S, Kolmer J, Anderson JA.
PLoS One. 2016 Feb 5;11(2):e0148671.
doi: 10.1371/journal.pone.0148671

De Novo Assembled Wheat Transcriptomes Delineate Differentially Expressed Host Genes in Response to Leaf Rust Infection.
Chandra S, Singh D, Pathak J, Kumari S, Kumar M, Poddar R, Balyan HS, Gupta PK, Prabhu KV, Mukhopadhyay K.
PLoS One. 2016 Feb 3;11(2):e0148453.
doi: 10.1371/journal.pone.0148453

Using the Hexaploid Nature of Wheat To Create Variability in Starch Characteristics.
Inokuma T, Vrinten P, Shimbata T, Sunohara A, Ito H, Saito M, Taniguchi Y, Nakamura T.
J Agric Food Chem. 2016 Feb 3;64(4):941-7.
doi: 10.1021/acs.jafc.5b05099

Single nucleotide polymorphism tightly linked to a major QTL on chromosome 7A for both kernel length and kernel weight in wheat.
Su Z, Jin S, Lu Y, Zhang G, Chao S, Bai G.
Molecular Breeding. 2016 Feb;36(2):15
doi: 10.1007/s11032-016-0436-4

Improvement of barley genome annotations by deciphering the Haruna Nijo genome.
Sato K, Tanaka T, Shigenobu S, Motoi Y, Wu J, Itoh T.
DNA Res. 2016 Feb;23(1):21-8.
doi: 10.1093/dnares/dsv033

Comprehensive molecular characterization of the α/β-gliadin multigene family in hexaploid wheat.
Noma S, Kawaura K, Hayakawa K, Abe C, Tsuge N, Ogihara Y.
Mol Genet Genomics. 2016 Feb;291(1):65-77.
doi: 10.1007/s00438-015-1086-7

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. 2016 Jan 23.
doi: 10.1111/pbi.12511.

A highly recombined, high-density, eight-founder wheat MAGIC map reveals extensive segregation distortion and genomic locations of introgression segments.
Gardner KA, Wittern LM, Mackay IJ.
Plant Biotechnol J. 2016 Jan 23.
doi: 10.1111/pbi.12504.

The genome sequence of the outbreeding globe artichoke constructed de novo incorporating a phase-aware low-pass sequencing strategy of F1 progeny.
Scaglione D, Reyes-Chin-Wo S, Acquadro A, Froenicke L, Portis E, Beitel C, Tirone M, Mauro R, Lo Monaco A, Mauromicale G, Faccioli P, Cattivelli L, Rieseberg L, Michelmore R, Lanteri S.
Sci Rep. 2016 Jan 20;6:19427.
doi: 10.1038/srep19427

Novel QTL for Stripe Rust Resistance on Chromosomes 4A and 6B in Soft White Winter Wheat Cultivars.
Klarquist EF, Chen XM, Carter AH.
Agronomy 2016, 6(1): 4.
doi:10.3390/agronomy6010004

A comparative gene analysis with rice identified orthologous group II HKT genes and their association with Na(+) concentration in bread wheat.
Ariyarathna HA, Oldach KH, Francki MG.
BMC Plant Biol. 2016 Jan 19;16(1):21.
doi: 10.1186/s12870-016-0714-7

Novel Structural and Functional Motifs in cellulose synthase (CesA) Genes of Bread Wheat (Triticum aestivum, L.).
Kaur S, Dhugga KS, Gill K, Singh J.
PLoS One. 2016 Jan 15;11(1):e0147046.
doi: 10.1371/journal.pone.0147046

Ensembl Genomes 2016: more genomes, more complexity.
Kersey PJ, Allen JE, Armean I, Boddu S, Bolt BJ, Carvalho-Silva D, Christensen M, Davis P, Falin LJ, Grabmueller C, Humphrey J, Kerhornou A, Khobova J, Aranganathan NK, Langridge N, Lowy E, McDowall MD, Maheswari U, Nuhn M, Ong CK, Overduin B, Paulini M, Pedro H, Perry E, Spudich G, Tapanari E, Walts B, Williams G, Tello-Ruiz M, Stein J, Wei S, Ware D, Bolser DM, Howe KL, Kulesha E, Lawson D, Maslen G, Staines DM.
Nucleic Acids Res. 2016 Jan 4;44(D1):D574-80.
doi: 10.1093/nar/gkv1209

GREENC: a Wiki-based database of plant lncRNAs.
Paytuví Gallart A, Hermoso Pulido A, Anzar Martínez de Lagrán I, Sanseverino W, Aiese Cigliano R.
Nucleic Acids Res. 2016 Jan 4;44(D1):D1161-6.
doi: 10.1093/nar/gkv1215

Gramene 2016: comparative plant genomics and pathway resources.
Tello-Ruiz MK, Stein J, Wei S, Preece J, Olson A, Naithani S, Amarasinghe V, Dharmawardhana P, Jiao Y, Mulvaney J, Kumari S, Chougule K, Elser J, Wang B, Thomason J, Bolser DM, Kerhornou A, Walts B, Fonseca NA, Huerta L, Keays M, Tang YA, Parkinson H, Fabregat A, McKay S, Weiser J, D'Eustachio P, Stein L, Petryszak R, Kersey PJ, Jaiswal P, Ware D.
Nucleic Acids Res. 2016 Jan 4;44(D1):D1133-40.
doi: 10.1093/nar/gkv1179

PGSB PlantsDB: updates to the database framework for comparative plant genome research.
Spannagl M, Nussbaumer T, Bader KC, Martis MM, Seidel M, Kugler KG, Gundlach H, Mayer KF.
Nucleic Acids Res. 2016 Jan 4;44(D1):D1141-7.
doi: 10.1093/nar/gkv1130

Genomics-based strategies for the use of natural variation in the improvement of crop metabolism
Scossa F, Brotman Y, de Abreu e Lima F, Willmitzer L, Nikoloski Z, Tohge T, Fernie AR
Plant Sci. 2016 Jan;242:47-64.
doi: 10.1016/j.plantsci.2015.05.021

Effects of genome structure variation, homeologous genes and repetitive DNA on polyploid crop research in the age of genomics
Fu D, Mason AS, Xiao M, Yan H
Plant Sci. 2016 Jan;242:37-46.
doi: 10.1016/j.plantsci.2015.09.017

TaTGW6-A1, an ortholog of rice TGW6, is associated with grain weight and yield in bread wheat.
Hanif M, Gao F, Liu J, Wen W, Zhang Y, Rasheed A, Xia X, He Z, Cao S.
Molecular Breeding . 2016 Jan; 36(1):1
doi: 10.1007/s11032-015-0425-z

Development and Validation of Thinopyrum elongatum–Expressed Molecular Markers Specific for the Long Arm of Chromosome 7E
Gou L, Hattori J, Fedak G, Balcerzak M, Sharpe A, Visendi P, Edwards D, Tinker N, Wei YM, Chen GY, Ouellet T
Crop Science, 2016 Jan; 56(1);354
doi: 10.2135/cropsci2015.03.0184

2015 -----------------------

Genetic Map of Triticale Integrating Microsatellite, DArT and SNP Markers.
Tyrka M, Tyrka D, Wędzony M.
PLoS One. 2015 Dec 30;10(12):e0145714.
doi: 10.1371/journal.pone.0145714

WheatExp: an RNA-seq expression database for polyploid wheat.
Pearce S, Vazquez-Gross H, Herin SY, Hane D, Wang Y, Gu YQ, Dubcovsky J.
BMC Plant Biol. 2015 Dec 24;15(1):299.
doi: 10.1186/s12870-015-0692-1

Identification of Novel Chromosomal Aberrations Induced by (60)Co-γ-Irradiation in Wheat-Dasypyrum villosum Lines .
Zhang J, Jiang Y, Guo Y, Li G, Yang Z, Xu D, Xuan P.
Int J Mol Sci. 2015 Dec 14;16(12):29787-96.
doi: 10.3390/ijms161226134.

Single-molecule real-time transcript sequencing facilitates common wheat genome annotation and grain transcriptome research.
Dong L, Liu H, Zhang J, Yang S, Kong G, Chu JS, Chen N, Wang D.
BMC Genomics. 2015 Dec 9;16:1039.
doi: 10.1186/s12864-015-2257-y

Using Next Generation Sequencing for Multiplexed Trait-Linked Markers in Wheat.
Bernardo A, Wang S, St Amand P, Bai G.
PLoS One. 2015 Dec 1;10(12):e0143890.
doi: 10.1371/journal.pone.0143890

TaFROG Encodes a Pooideae Orphan Protein That Interacts with SnRK1 and Enhances Resistance to the Mycotoxigenic Fungus Fusarium graminearum.
Perochon A, Jianguang J, Kahla A, Arunachalam C, Scofield SR, Bowden S, Wallington E, Doohan FM.
Plant Physiol. 2015 Dec;169(4):2895-906.
doi: 10.1104/pp.15.01056

Induction of targeted, heritable mutations in barley and Brassica oleracea using RNA-guided Cas9 nuclease.
Lawrenson T, Shorinola O, Stacey N, Li C, Østergaard L, Patron N, Uauy C, Harwood W.
Genome Biol. 2015 Dec;16:258.
doi: 10.1186/s13059-015-0826-7

Association Mapping in Scandinavian Winter Wheat for Yield, Plant Height, and Traits Important for Second-Generation Bioethanol Production.
Bellucci A, Torp AM, Bruun S, Magid J, Andersen SB, Rasmussen SK.
Front Plant Sci. 2015 Nov 26;6:1046.
doi: 10.3389/fpls.2015.01046

Proteomic Analysis Reveals Key Proteins and Phosphoproteins upon Seed Germination of Wheat (Triticum aestivum L.).
Dong K, Zhen S, Cheng Z, Cao H, Ge P, Yan Y.
Front Plant Sci. 2015 Nov 18;6:1017.
doi: 10.3389/fpls.2015.01017

Genome-wide identification and evolutionary analyses of bZIP transcription factors in wheat and its relatives and expression profiles of anther development related TabZIP genes.
Li X, Gao S, Tang Y, Li L, Zhang F, Feng B, Fang Z, Ma L, Zhao C.
BMC Genomics. 2015 Nov 18;16(1):976.
doi: 10.1186/s12864-015-2196-7

Sequencing-based high throughput mutation detection in bread wheat.
Sidhu G, Mohan A, Zheng P, Dhaliwal AK, Main D, Gill KS.
BMC Genomics. 2015 Nov 17;16(1):962.
doi: 10.1186/s12864-015-2112-1

GREENC: a Wiki-based database of plant lncRNAs
Paytuví GA, Hermoso PA, Anzar Martínez de Lagrán I, Sanseverino W, Aiese Cigliano R
Nucl. Acids Res. 2015 Nov 17
doi: 10.1093/nar/gkv1215

Ensembl Genomes 2016: more genomes, more complexity
Kersey PJ, Allen JE, Armean I, Boddu S, Bolt BJ, Carvalho-Silva D, Christensen M, Davis P, Falin LJ, Grabmueller C, Humphrey J, Kerhornou A, Khobova J, Aranganathan NK, Langridge N, Lowy E, McDowall MD, Maheswari U, Nuhn M, Ong CK, Overduin B, Paulini M, Pedro H, Perry E, Spudich G, Tapanari E, Walts B, Williams G, Tello-Ruiz M, Stein J, Wei S, Ware D, Bolser DM, Howe KL, Kulesha E, Lawson D, Maslen G, Staines DM
Nucleic Acids Res. 2015 Nov 17
doi: 10.1093/nar/gkv1209

An Efficient Approach for the Development of Locus Specific Primers in Bread Wheat (Triticum aestivum L.) and Its Application to Re-Sequencing of Genes Involved in Frost Tolerance.
Babben S, Perovic D, Koch M, Ordon F.
PLoS One. 2015 Nov 13;10(11):e0142746.
doi: 10.1371/journal.pone.0142746

Genome-Wide Identification of MicroRNAs in Leaves and the Developing Head of Four Durum Genotypes during Water Deficit Stress.
Liu H, Searle IR, Watson-Haigh NS, Baumann U, Mather DE, Able AJ, Able JA.
PLoS One. 2015 Nov 12;10(11):e0142799.
doi: 10.1371/journal.pone.0142799

An investigation of causes of false positive single nucleotide polymorphisms using simulated reads from a small eukaryote genome.
Ribeiro A, Golicz A, Hackett CA, Milne I, Stephen G, Marshall D, Flavell AJ, Bayer M.
BMC Bioinformatics. 2015 Nov 11;16:382.
doi: 10.1186/s12859-015-0801-z

Genome-Wide Analysis of Microsatellite Markers Based on Sequenced Database in Chinese Spring Wheat (Triticum aestivum L.).
Han B, Wang C, Tang Z, Ren Y, Li Y, Zhang D, Dong Y, Zhao X.
PLoS One. 2015 Nov 4;10(11):e0141540.
doi: 10.1371/journal.pone.0141540

Contesting the presence of wheat in the British Isles 8,000 years ago by assessing ancient DNA authenticity from low-coverage data.
Weiß CL, Dannemann M, Prüfer K, Burbano HA.
Elife. 2015 Nov 3;4. pii: e10005.
doi: 10.7554/eLife.10005

Application of Population Sequencing (POPSEQ) for Ordering and Imputing Genotyping-by-Sequencing Markers in Hexaploid Wheat.
Edae EA, Bowden RL, Poland J.
G3 (Bethesda). 2015 Nov 3;5(12):2547-53.
doi: 10.1534/g3.115.020362

Multiple elements controlling the expression of wheat high molecular weight glutenin paralogs.
Makai S, Éva C, Tamás L, Juhász A
Funct Integr Genomics. 2015 Nov;15(6):661-72.
doi: 10.1007/s10142-015-0441-4

A SNP marker for the selection of HfrDrd, a Hessian fly-response gene in wheat
Tan MK, El-Bouhssini M, Emebiri L, Wildman O, Tadesse W, Ogbonnaya FC
Mol Breed. 2015 Nov; 35:216
doi: 10.1007/s11032-015-0410-6

Multiple displacement amplification of the DNA from single flow sorted plant chromosome
Cápal P, Blavet N, Vrána J, Kubaláková M, Doležel J
Plant J. 2015 Nov;84(4):838-844.
doi: 10.1111/tpj.13035

High-density mapping of the major FHB resistance gene Fhb7 derived from Thinopyrum ponticum and its pyramiding with Fhb1 by marker-assisted selection
Guo J, Zhang X, Hou Y, Cai J, Shen X, Zhou T, Xu H, Ohm HW, Wang H, Li A, Han F, Wang H, Kong L
Theor Appl Genet. 2015 Nov;128(11):2301-16.
doi: 10.1007/s00122-015-2586-x

PGSB/MIPS Plant Genome Information Resources and Concepts for the Analysis of Complex Grass Genomes
Spannagl M, Bader K, Pfeifer M, Nussbaumer T, Mayer KFX
In: Plant Bioinformatics, Volume 1374 of the series Methods in Molecular Biology. 2015 Nov; 165-186
doi: 10.1007/978-1-4939-3167-5_8

Molecular and phylogenetic characterization of the homoeologous EPSP Synthase genes of allohexaploid wheat, Triticum aestivum (L.).
Aramrak A, Kidwell KK, Steber CM, Burke IC.
BMC Genomics. 2015 Oct 23;16:844.
doi: 10.1186/s12864-015-2084-1

Overexpression of a Triticum aestivum Calreticulin gene (TaCRT1) Improves Salinity Tolerance in Tobacco.
Xiang Y, Lu YH, Song M, Wang Y, Xu W, Wu L, Wang H, Ma Z.
PLoS One. 2015 Oct 15;10(10):e0140591.
doi: 10.1371/journal.pone.0140591

High-density SNP genotyping array for hexaploid wheat and its secondary and tertiary gene pool
Winfield MO, Allen AM, Burridge AJ, Barker GL, Benbow HR, Wilkinson PA, Coghill J, Waterfall C, Davassi A, Scopes G, Pirani A, Webster T, Brew F, Bloor C, King J, West C, Griffiths S, King I, Bentley AR, Edwards KJ
Plant Biotechnol J. 2015 Oct 15.
doi: 10.1111/pbi.12485

Genome distribution of differential homoeologue contributions to leaf gene expression in bread wheat
Harper AL, Trick M, He Z, Clissold L, Fellgett A, Griffiths S, Bancroft I
Plant Biotechnol J. 2015 Oct 7
doi: 10.1111/pbi.12486

Wheat WCBP1 encodes a putative copper-binding protein involved in stripe rust resistance and inhibition of leaf senescence.
Li X, Liu T, Chen W, Zhong S, Zhang H, Tang Z, Chang Z, Wang L, Zhang M, Li L, Rao H, Ren Z, Luo P.
BMC Plant Biol. 2015 Oct 6;15:239.
doi: 10.1186/s12870-015-0612-4

Joint Transcriptomic and Metabolomic Analyses Reveal Changes in the Primary Metabolism and Imbalances in the Subgenome Orchestration in the Bread Wheat Molecular Response to Fusarium graminearum.
Nussbaumer T, Warth B, Sharma S, Ametz C, Bueschl C, Parich A, Pfeifer M, Siegwart G, Steiner B, Lemmens M, Schuhmacher R, Buerstmayr H, Mayer KF, Kugler KG, Schweiger W.
G3 (Bethesda). 2015 Oct 4;5(12):2579-92.
doi: 10.1534/g3.115.021550

Small RNA and Degradome Sequencing Reveal Complex Roles of miRNAs and Their Targets in Developing Wheat Grains.
Li T, Ma L, Geng Y, Hao C, Chen X, Zhang X.
PLoS One. 2015 Oct 1;10(10):e0139658.
doi: 10.1371/journal.pone.0139658

Harnessing Next Generation Sequencing in Climate Change: RNA-Seq Analysis of Heat Stress-Responsive Genes in Wheat (Triticum aestivum L.).
Kumar RR, Goswami S, Sharma SK, Kala YK, Rai GK, Mishra DC, Grover M, Singh GP, Pathak H, Rai A, Chinnusamy V, Rai RD.
OMICS. 2015 Oct;19(10):632-47.
doi: 10.1089/omi.2015.0097

Chloroplast phylogeny of Triticum/Aegilops species is not incongruent with an ancient homoploid hybrid origin of the ancestor of the bread wheat D-genome.
Sandve SR, Marcussen T, Mayer K, Jakobsen KS, Heier L, Steuernagel B, Wulff BB, Olsen OA
New Phytol. 2015 Oct;208(1):9-10.
doi: 10.1111/nph.13487

Breeding Self-Fertilizing Plants: From Inbred to Hybrid Cultivars
Ortiz Ríos R
In:Plant Breeding in the Omics Era. 2015 Oct;141-171
doi: 10.1007/978-3-319-20532-8

DNA Sequencing, Other Omics and Synthetic Biology
Ortiz Ríos R
In: Plant Breeding in the Omics Era. 2015 Oct;125-140
doi: 10.1007/978-3-319-20532-8

Genome Size and the Role of Transposable Elements
Schulman AH
In: Genetics and Genomics of Brachypodium, Volume 18 of the series Plant Genetics and Genomics: Crops and Models. 2015 Oct; 1-26
doi: 10.1007/978-3-319-26944-3

The Brachypodium distachyon Reference Genome
VanBuren R, Mockler TC
In: Genetics and Genomics of Brachypodium, Volume 18 of the series Plant Genetics and Genomics: Crops and Models. 2015 Oct; 55-70
doi: 10.1007/978-3-319-26944-3

A genome-wide analysis of the auxin/indole-3-acetic acid gene family in hexaploid bread wheat (Triticum aestivum L.).
Qiao L, Zhang X, Han X, Zhang L, Li X, Zhan H, Ma J, Luo P, Zhang W, Cui L, Li X, Chang Z.
Front Plant Sci. 2015 Sep 30;6:770.
doi: 10.3389/fpls.2015.00770

Identification of the VERNALIZATION 4 gene reveals the origin of spring growth habit in ancient wheats from South Asia.
Kippes N, Debernardi JM, Vasquez-Gross HA, Akpinar BA, Budak H, Kato K, Chao S, Akhunov E, Dubcovsky J.
Proc Natl Acad Sci U S A. 2015 Sep 29;112(39):E5401-10.
doi: 10.1073/pnas.1514883112

Fine-Mapping the Wheat Snn1 Locus Conferring Sensitivity to the Parastagonospora nodorum Necrotrophic Effector SnTox1 Using an Eight Founder Multiparent Advanced Generation Inter-Cross Population.
Cockram J, Scuderi A, Barber T, Furuki E, Gardner KA, Gosman N, Kowalczyk R, Phan HP, Rose GA, Tan KC, Oliver RP, Mackay IJ.
G3 (Bethesda). 2015 Sep 28;5(11):2257-66.
doi: 10.1534/g3.115.021584

Genome-wide gene expression perturbation induced by loss of C2 chromosome in allotetraploid Brassica napus L.
Zhu B, Shao Y, Pan Q, Ge X, Li Z.
Front Plant Sci. 2015 Sep 23;6:763.
doi: 10.3389/fpls.2015.00763

Genome-wide association for grain yield under rainfed conditions in historical wheat cultivars from Pakistan.
Ain QU, Rasheed A, Anwar A, Mahmood T, Imtiaz M, Mahmood T, Xia X, He Z, Quraishi UM.
Front Plant Sci. 2015 Sep 22;6:743.
doi: 10.3389/fpls.2015.00743

Structure and Stability of Telocentric Chromosomes in Wheat.
Koo DH, Sehgal SK, Friebe B, Gill BS.
PLoS One. 2015 Sep 18;10(9):e0137747.
doi: 10.1371/journal.pone.0137747

Identification, isolation, and expression analysis of heat shock transcription factors in the diploid woodland strawberry Fragaria vesca.
Hu Y, Han YT, Wei W, Li YJ, Zhang K, Gao YR, Zhao FL, Feng JY.
Front Plant Sci. 2015 Sep 15;6:736.
doi: 10.3389/fpls.2015.00736

Small-scale gene duplications played a major role in the recent evolution of wheat chromosome 3B.
Glover NM, Daron J, Pingault L, Vandepoele K, Paux E, Feuillet C, Choulet F.
Genome Biol. 2015 Sep 9;16:188.
doi: 10.1186/s13059-015-0754-6

Mutation Scanning in Wheat by Exon Capture and Next-Generation Sequencing.
King R, Bird N, Ramirez-Gonzalez R, Coghill JA, Patil A, Hassani-Pak K, Uauy C, Phillips AL.
PLoS One. 2015 Sep 3;10(9):e0137549.
doi: 10.1371/journal.pone.0137549

The gap in research on polyploidization between plants and vertebrates: model systems and strategic challenges
Jing Chai J, Su Y, Huang F, Liu S, Tao M, Murphy RW, Luo J
Science Bulletin. 2015 Sep;60(17):1471-1478
doi: 10.1007/s11434-015-0879-8

Development of a D genome specific marker resource for diploid and hexaploid wheat.
Wang Y, Drader T, Tiwari VK, Dong L, Kumar A, Huo N, Ghavami F, Iqbal MJ, Lazo GR, Leonard J, Gill BS, Kianian SF, Luo MC, Gu YQ.
BMC Genomics. 2015 Aug 28;16:646.
doi: 10.1186/s12864-015-1852-2

A high-resolution physical map integrating an anchored chromosome with the BAC physical maps of wheat chromosome 6B.
Kobayashi F, Wu J, Kanamori H, Tanaka T, Katagiri S, Karasawa W, Kaneko S, Watanabe S, Sakaguchi T, Hanawa Y, Fujisawa H, Kurita K, Abe C, Iehisa JC, Ohno R, Šafář J, Šimková H, Mukai Y, Hamada M, Saito M, Ishikawa G, Katayose Y, Endo TR, Takumi S, Nakamura T, Sato K, Ogihara Y, Hayakawa K, Doležel J, Nasuda S, Matsumoto T, Handa H.
BMC Genomics. 2015 Aug 12;16:595.
doi: 10.1186/s12864-015-1803-y

A high-throughput pipeline for detecting locus-specific polymorphism in hexaploid wheat (Triticum aestivum L.).
Ma J, Stiller J, Zheng Z, Liu YX, Wei Y, Zheng YL, Liu C.
Plant Methods. 2015 Aug 4;11:39.
doi: 10.1186/s13007-015-0082-6

Flow sorting of C-genome chromosomes from wild relatives of wheat Aegilops markgrafii, Ae. triuncialis and Ae. cylindrica, and their molecular organization.
Molnár I, Vrána J, Farkas A, Kubaláková M, Cseh A, Molnár-Láng M, Doležel J.
Ann Bot. 2015 Aug;116(2):189-200.
doi: 10.1093/aob/mcv073

Creating new interspecific hybrid and polyploid crops
Mason AS, Batley J
Trends Biotechnol. 2015 Aug;33(8):436-41.
doi: 10.1016/j.tibtech.2015.06.004

Dynamic evolution of resistance gene analogs in the orthologous genomic regions of powdery mildew resistance gene MlIW170 in Triticum dicoccoides and Aegilops tauschii
Liang Y, Zhang DY, Ouyang S, Xie J, Wu Q, Wang Z, Cui Y, Lu P, Zhang D, Liu ZJ, Zhu J, Chen YX, Zhang Y, Luo MC, Dvorak J, Huo N, Sun Q, Gu YQ, Liu Z.
Theor Appl Genet. 2015 Aug;128(8):1617-29.
doi: 10.1007/s00122-015-2536-7

The genetics of rhizosheath size in a multiparent mapping population of wheat.
Delhaize E, Rathjen TM, Cavanagh CR.
J Exp Bot. 2015 Aug;66(15):4527-36.
doi: 10.1093/jxb/erv223

De novo transcriptome sequencing in Agropyron cristatum to identify available gene resources for the enhancement of wheat.
Zhang J, Liu W, Han H, Song L, Bai L, Gao Z, Zhang Y, Yang X, Li X, Gao A, Li L
Genomics. 2015 Aug;106(2):129-36.
doi: 10.1016/j.ygeno.2015.04.003

Sequencing chromosome 5D of Aegilops tauschii and comparison with its allopolyploid descendant bread wheat (Triticum aestivum)
Akpinar BA, Lucas SJ, Vrána J, Doležel J, Budak H
Plant Biotechnol J. 2015 Aug;13(6):740-52.
doi: 10.1111/pbi.12302.

Understanding and utilizing crop genome diversity via high-resolution genotyping
Voss-Fels K, Snowdon RJ
Plant Biotechnol J. 2015 Aug
doi: 10.1111/pbi.12456

Comparative fine mapping of the Wax 1 (W1) locus in hexaploid wheat.
Lu P, Qin J, Wang G, Wang L, Wang Z, Wu Q, Xie J, Liang Y, Wang Y, Zhang D, Sun Q, Liu Z.
Theor Appl Genet. 2015 Aug;128(8):1595-603.
doi: 10.1007/s00122-015-2534-9

Pushing the boundaries of resistance: insights from Brachypodium-rust interactions.
Figueroa M, Castell-Miller CV, Li F, Hulbert SH, Bradeen JM.
Front Plant Sci. 2015 Jul 30;6:558.
doi: 10.3389/fpls.2015.00558

Determination of growth stages and metabolic profiles in Brachypodium distachyon for comparison of developmental context with Triticeae crops.
Onda Y, Hashimoto K, Yoshida T, Sakurai T, Sawada Y, Hirai MY, Toyooka K, Mochida K, Shinozaki K.
Proc Biol Sci. 2015 Jul 22;282(1811). pii: 20150964.
doi: 10.1098/rspb.2015.0964

Exome Sequencing: Current and Future Perspectives.
Warr A, Robert C, Hume D, Archibald A, Deeb N, Watson M.
G3 (Bethesda). 2015 Jul 2;5(8):1543-50.
doi: 10.1534/g3.115.018564

Genome-wide identification and expression characterization of ABCC-MRP transporters in hexaploid wheat.
Bhati KK, Sharma S, Aggarwal S, Kaur M, Shukla V, Kaur J, Mantri S, Pandey AK.
Front Plant Sci. 2015 Jul 1;6:488.
doi: 10.3389/fpls.2015.00488

Grain-specific reduction in lipoxygenase activity improves flour color quality and seed longevity in common wheat
Dong Z, Feng B, Liang H, Rong C, Zhang K, Cao X, Qin H, Liu X, Wang T, Wang D
Molecular Breeding. 2015 Jul;35(7):1
doi: 10.1007/s11032-015-0347-9

Mass Spectrometry-based Analysis of Whole Grain Phytochemicals
Koistinen VM, Hanhineva K
Critical Reviews in Food Science and Nutrition. 2015 Jul
doi: 10.1080/10408398.2015.1016477

The HSP90-RAR1-SGT1 based protein interactome in barley and stripe rust
Pei H, Sun Q, Hao Q, Lv B, Wu J, Fu D
Physiological and Molecular Plant Pathology. 2015 Jul;91:11-19
doi:10.1016/j.pmpp.2015.02.004

Identification of a stem rust resistance locus effective against Ug99 on wheat chromosome 7AL using a RAD-Seq approach.
Pujol V, Forrest KL, Zhang P, Rouse MN, Hayden MJ, Huang L, Tabe L, Lagudah E
Theor Appl Genet. 2015 Jul;128(7):1397-405.
doi: 10.1007/s00122-015-2514-0

Exploration of microRNAs and their targets engaging in the resistance interaction between wheat and stripe rust.
Feng H, Wang B, Zhang Q, Fu Y, Huang L, Wang X, Kang Z.
Front Plant Sci. 2015 Jun 30;6:469.
doi: 10.3389/fpls.2015.00469

Using linkage maps to correct and scaffold de novo genome assemblies: methods, challenges, and computational tools.
Fierst JL.
Front Genet. 2015 Jun 19;6:220.
doi: 10.3389/fgene.2015.00220

Temporal transcriptome profiling reveals expression partitioning of homeologous genes contributing to heat and drought acclimation in wheat (Triticum aestivum L.).
Liu Z, Xin M, Qin J, Peng H, Ni Z, Yao Y, Sun Q.
BMC Plant Biol. 2015 Jun 20;15:152.
doi: 10.1186/s12870-015-0511-8

Using linkage maps to correct and scaffold de novo genome assemblies: Methods, challenges and computational tool
Fierst JL
Front Genet. 2015 Jun 19;6:220.
doi: 10.3389/fgene.2015.00220

Molecular organization and comparative analysis of chromosome 5B of the wild wheat ancestor Triticum dicoccoides.
Akpinar BA, Yuce M, Lucas S, Vrána J, Burešová V, Doležel J, Budak H.
Sci Rep. 2015 Jun 18;5:10763.
doi: 10.1038/srep10763

The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements
Akpinar BA, Magni F, Yuce M, Lucas SJ, Šimková H, Šafář J, Vautrin S, Bergès H, Cattonaro F, Doležel J, Budak H
BMC Genomics. 2015 Jun 13;16:453.
doi: 10.1186/s12864-015-1641-y

Identification of genome-specific transcripts in wheat-rye translocation lines.
Lee TG, Seo YW.
Genom Data. 2015 Jun 11;5:151-3.
doi: 10.1016/j.gdata.2015.05.045

Heterologous expression and transcript analysis of gibberellin biosynthetic genes of grasses reveals novel functionality in the GA3ox family.
Pearce S, Huttly AK, Prosser IM, Li YD, Vaughan SP, Gallova B, Patil A, Coghill JA, Dubcovsky J, Hedden P, Phillips AL.
BMC Plant Biol. 2015 Jun 5;15:130.
doi: 10.1186/s12870-015-0520-7

Virus induced gene silencing (VIGS) for functional analysis of wheat genes involved in Zymoseptoria tritici susceptibility and resistance.
Lee WS, Rudd JJ, Kanyuka K.
Fungal Genet Biol. 2015 Jun;79:84-8.
doi: 10.1016/j.fgb.2015.04.006

Making the Bread: Insights from Newly Synthesized Allohexaploid Wheat
Li A-L, Geng S-F, Zhang L-Q, Liu D-C, Mao L
Molecular Plant. 2015 Jun;8(6):847-859
Doi: 10.1016/j.molp.2015.02.016

Stress responsive miRNAs and isomiRs in cereals
Budak H, Kantar M, Bulut R, Akpinar BA
Plant Sci. 2015 Jun;235:1-13.
doi: 10.1016/j.plantsci.2015.02.008

Sequence-based ultra-dense genetic and physical maps reveal structural variations of allopolyploid cotton genomes.
Wang S, Chen J, Zhang W, Hu Y, Chang L, Fang L, Wang Q, Lv F, Wu H, Si Z, Chen S, Cai C, Zhu X, Zhou B, Guo W, Zhang T.
Genome Biol. 2015 May 24;16:108.
doi: 10.1186/s13059-015-0678-1

Identification of Leaf Proteins Differentially Accumulated between Wheat Cultivars Distinct in Their Levels of Drought Tolerance.
Cheng Z, Dong K, Ge P, Bian Y, Dong L, Deng X, Li X, Yan Y.
PLoS One. 2015 May 18;10(5):e0125302.
doi: 10.1371/journal.pone.0125302

DroughtDB: an expert-curated compilation of plant drought stress genes and their homologs in nine species.
Alter S, Bader KC, Spannagl M, Wang Y, Bauer E, Schön CC, Mayer KF.
Database (Oxford). 2015 May 15;2015:bav046.
doi: 10.1093/database/bav046

Characterization of repetitive DNA landscape in wheat homeologous group 4 chromosomes.
Garbus I, Romero JR, Valarik M, Vanžurová H, Karafiátová M, Cáccamo M, Doležel J, Tranquilli G, Helguera M, Echenique V.
BMC Genomics. 2015 May 12;16:375.
doi: 10.1186/s12864-015-1579-0

Transcriptomic analysis of wheat near-isogenic lines identifies PM19-A1 and A2 as candidates for a major dormancy QTL.
Barrero JM, Cavanagh C, Verbyla KL, Tibbits JF, Verbyla AP, Huang BE, Rosewarne GM, Stephen S, Wang P, Whan A, Rigault P, Hayden MJ, Gubler F.
Genome Biol. 2015 May 12;16:93.
doi: 10.1186/s13059-015-0665-6

The lycopene β-cyclase plays a significant role in provitamin A biosynthesis in wheat endosperm.
Zeng J, Wang C, Chen X, Zang M, Yuan C, Wang X, Wang Q, Li M, Li X, Chen L, Li K, Chang J, Wang Y, Yang G, He G.
BMC Plant Biol. 2015 May 7;15:112.
doi: 10.1186/s12870-015-0514-5.

Dual use of peptide mass spectra: Protein atlas and genome annotation.
Walley JW, Briggs SP.
Curr Plant Biol. 2015 May 1;2:21-24.

Sequencing consolidates molecular markers with plant breeding practice
Yang H, Li C, Lam HM, Clements J, Yan G, Zhao S.
Theor Appl Genet. 2015 May;128(5):779-95.
doi: 10.1007/s00122-015-2499-8

Origin and Evolution of Wheat and Related Triticeae Species
Feldman M, Levy AA
In: Alien Introgression in Wheat, pp 21-76, 2015
doi: 10.1007/978-3-319-23494-6_2

Novel and conserved heat-responsive microRNAs in wheat (Triticum aestivum L.)
Kumar RR1, Pathak H, Sharma SK, Kala YK, Nirjal MK, Singh GP, Goswami S, Rai RD.
Funct Integr Genomics. 2015 May;15(3):323-48.
doi: 10.1007/s10142-014-0421-0

ConPADE: genome assembly ploidy estimation from next-generation sequencing data.
Margarido GR, Heckerman D.
PLoS Comput Biol. 2015 Apr 16;11(4):e1004229.
doi: 10.1371/journal.pcbi.1004229

Advances in plant proteomics toward improvement of crop productivity and stress resistancex.
Hu J, Rampitsch C, Bykova NV.
Front Plant Sci. 2015 Apr 14;6:209.
doi: 10.3389/fpls.2015.00209

High-throughput physical map anchoring via BAC-pool sequencing.
Cviková K, Cattonaro F, Alaux M, Stein N, Mayer KF, Doležel J, Bartoš J.
BMC Plant Biol. 2015 Apr 11;15:99.
doi: 10.1186/s12870-015-0429-1

Identification and characterization of rye genes not expressed in allohexaploid triticale.
Khalil HB, Ehdaeivand MR, Xu Y, Laroche A, Gulick PJ.
BMC Genomics. 2015 Apr 10;16:281.
doi: 10.1186/s12864-015-1480-x

SNP identification from RNA sequencing and linkage map construction of rubber tree for anchoring the draft genome.
Shearman JR, Sangsrakru D, Jomchai N, Ruang-Areerate P, Sonthirod C, Naktang C, Theerawattanasuk K, Tragoonrung S, Tangphatsornruang S.
PLoS One. 2015 Apr 1;10(4):e0121961.
doi: 10.1371/journal.pone.0121961

Expression profiling identifies differentially expressed genes associated with the fusarium head blight resistance QTL 2DL from the wheat variety Wuhan-1
Long X, Balcerzak M, Gulden S, Cao W, Fedak G, Wei YM, Zheng YL, Somers D, Ouellet T
Physiological and Molecular Plant Pathology. 2015 Apr; 90:1-11
doi:10.1016/j.pmpp.2015.02.002

Phytopathogen emergence in the genomics era
Thynne E, McDonald MC, Solomon PS
Trends Plant Sci. 2015 Apr;20(4):246-55.
doi: 10.1016/j.tplants.2015.01.009

New insights into the wheat chromosome 4D structure and virtual gene order, revealed by survey pyrosequencing.
Helguera M, Rivarola M, Clavijo B, Martis MM, Vanzetti LS, González S, Garbus I, Leroy P, Šimková H, Valárik M, Caccamo M, Doležel J, Mayer KF, Feuillet C, Tranquilli G, Paniego N, Echenique V.
Plant Sci. 2015 Apr;233:200-12.
doi: 10.1016/j.plantsci.2014.12.004

Progress, challenges and the future of crop genomes
Michael TP, VanBuren R
Curr Opin Plant Biol. 2015 Apr;24:71-81
doi:10.1016/j.pbi.2015.02.002

Epigenetic and developmental regulation in plant polyploids.
Song Q, Chen ZJ.
Curr Opin Plant Biol. 2015 Apr;24:101-9.
doi: 10.1016/j.pbi.2015.02.007

A high density GBS map of bread wheat and its application for dissecting complex disease resistance traits.
Li H, Vikram P, Singh RP, Kilian A, Carling J, Song J, Burgueno-Ferreira JA, Bhavani S, Huerta-Espino J, Payne T, Sehgal D, Wenzl P, Singh S.
BMC Genomics. 2015 Mar 19;16:216.
doi: 10.1186/s12864-015-1424-5

Putative interchromosomal rearrangements in the hexaploid wheat (Triticum aestivum L.) genotype 'Chinese Spring' revealed by gene locations on homoeologous chromosomes.
Ma J, Stiller J, Zheng Z, Wei Y, Zheng YL, Yan G, Doležel J, Liu C.
BMC Evol Biol. 2015 Mar 11;15:37.
doi: 10.1186/s12862-015-0313-5

Prospects and limits of marker imputation in quantitative genetic studies in European elite wheat (Triticum aestivum L.).
He S, Zhao Y, Mette MF, Bothe R, Ebmeyer E, Sharbel TF, Reif JC, Jiang Y.
BMC Genomics. 2015 Mar 11;16:168.
doi: 10.1186/s12864-015-1366-y

Expression and characterization of protein disulfide isomerase family proteins in bread wheat.
Kimura S, Higashino Y, Kitao Y, Masuda T, Urade R.
BMC Plant Biol. 2015 Mar 4;15:73.
doi: 10.1186/s12870-015-0460-2

Discoveries and advances in plant and animal genomics.
Appels R, Nystrom J, Webster H, Keeble-Gagnere G.
Funct Integr Genomics. 2015 Mar;15(2):121-9.
doi: 10.1007/s10142-015-0434-3

Stage-specific reprogramming of gene expression characterizes Lr48-mediated adult plant leaf rust resistance in wheat
Dhariwal R, Gahlaut V, Govindraj BR, Singh D, Mathur S, Vyas S, Bandopadhyay R, Khurana JP, Tyagi AK, Prabhu KV, Mukhopadhyay K, Balyan HS, Gupta PK.
Funct Integr Genomics. 2015 Mar;15(2):233-45.
doi: 10.1007/s10142-014-0416-x

Genetic Mapping of Race-Specific Stem Rust Resistance in the Synthetic Hexaploid W7984 × Opata M85 Mapping Population
Dunckel SM, Olson EL, Rouse MN, Bowden RL, Poland JA
Crop Science. 2015 Mar;55(6)
doi:10.2135/cropsci2014.11.0755

Identification of the trehalose-6-phosphate synthase gene family in winter wheat and expression analysis under conditions of freezing stress
Xie DW, Wang XN, Fu LS, Sun J, Zheng W, Li ZF
J Genet. 2015 Mar;94(1):55-65.

Current status and trends of wheat genetic transformation studies in China
He Y, Wang Q, Zeng J, Sun T, Yang GX, He GY
Journal of Integrative Agriculture. 2015 Mar;14(3):438-452
doi:10.1016/S2095-3119(14)60934-5

Constructing the barley model for genetic transformation in Triticeae ,
Lü B, Wu JJ, Fu DL
Journal of Integrative Agriculture. 2015 Mar;14(3):453-468
doi:10.1016/S2095-3119(14)60935-7

An assessment of heavy ion irradiation mutagenesis for reverse genetics in wheat (Triticum aestivum L.).
Fitzgerald TL, Powell JJ, Stiller J, Weese TL, Abe T, Zhao G, Jia J, McIntyre CL, Li Z, Manners JM, Kazan K.
PLoS One. 2015 Feb 26;10(2):e0117369.
doi: 10.1371/journal.pone.0117369

A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes.
Jordan KW, Wang S, Lun Y, Gardiner LJ, MacLachlan R, Hucl P, Wiebe K, Wong D, Forrest KL; IWGS Consortium, Sharpe AG, Sidebottom CH, Hall N, Toomajian C, Close T, Dubcovsky J, Akhunova A, Talbert L, Bansal UK, Bariana HS, Hayden MJ, Pozniak C, Jeddeloh JA, Hall A, Akhunov E.
Genome Biol. 2015 Feb 26;16:48.
doi: 10.1186/s13059-015-0606-4

Genome-wide characterization of developmental stage- and tissue-specific transcription factors in wheat.
Chen ZY, Guo XJ, Chen ZX, Chen WY, Liu DC, Zheng YL, Liu YX, Wei YM, Wang JR.
BMC Genomics. 2015 Feb 25;16:125.
doi: 10.1186/s12864-015-1313-y

Field pathogenomics reveals the emergence of a diverse wheat yellow rust population.
Hubbard A, Lewis CM, Yoshida K, Ramirez-Gonzalez RH, de Vallavieille-Pope C, Thomas J, Kamoun S, Bayles R, Uauy C, Saunders DG.
Genome Biol. 2015 Feb 25;16:23.
doi: 10.1186/s13059-015-0590-8

Precisely mapping a major gene conferring resistance to Hessian fly in bread wheat using genotyping-by-sequencing.
Li G, Wang Y, Chen MS, Edae E, Poland J, Akhunov E, Chao S, Bai G, Carver BF, Yan L.
BMC Genomics. 2015 Feb 21;16:108.
doi: 10.1186/s12864-015-1297-7

Genome-wide distribution comparative and composition analysis of the SSRs in Poaceae.
Wang Y, Yang C, Jin Q, Zhou D, Wang S, Yu Y, Yang L.
BMC Genet. 2015 Feb 15;16:18.
doi: 10.1186/s12863-015-0178-z

Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome.
Pingault L, Choulet F, Alberti A, Glover N, Wincker P, Feuillet C, Paux E.
Genome Biol. 2015 Feb 10;16:29.
doi: 10.1186/s13059-015-0601-9

Pivoting from Arabidopsis to wheat to understand how agricultural plants integrate responses to biotic stress
Harris MO, Friesen TL, Xu SS, Chen MS, Giron D, Stuart JJ.
J Exp Bot. 2015 Feb;66(2):513-31.
doi: 10.1093/jxb/eru465

A wheat CCAAT box-binding transcription factor increases the grain yield of wheat with less fertilizer input.
Qu B, He X, Wang J, Zhao Y, Teng W, Shao A, Zhao X, Ma W, Wang J, Li B, Li Z, Tong Y.
Plant Physiol. 2015 Feb;167(2):411-23.
doi: 10.1104/pp.114.246959

Mapping the glaucousness suppressor Iw1 from wild emmer wheat “PI 481521”
Xu Z, Yuan C, Wang J, Fu D, Wu J
The Crop Journal. 2015 Feb;3(1):37-45
doi:10.1016/j.cj.2014.09.004

Post-genome Sequencing Developments
Ganapathy KN, Rajendrakumar P
In: Sorghum Molecular Breeding, 2015: 155-178
doi: 10.1007/978-81-322-2422-8

Assembling allopolyploid genomes: no longer formidable.
Ming R, Man Wai C.
Genome Biol. 2015 Jan 31;16:27.
doi: 10.1186/s13059-015-0585-5

A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome.
Chapman JA, Mascher M, Buluç 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. 2015 Jan 31;16:26.
doi: 10.1186/s13059-015-0582-8

The draft genome of Tibetan hulless barley reveals adaptive patterns to the high stressful Tibetan Plateau.
Zeng X, Long H, Wang Z, Zhao S, Tang Y, Huang Z, Wang Y, Xu Q, Mao L, Deng G, Yao X, Li X, Bai L, Yuan H, Pan Z, Liu R, Chen X, WangMu Q, Chen M, Yu L, Liang J, DunZhu D, Zheng Y, Yu S, LuoBu Z, Guang X, Li J, Deng C, Hu W, Chen C, TaBa X, Gao L, Lv X, Abu YB, Fang X, Nevo E, Yu M, Wang J, Tashi N.
Proc Natl Acad Sci U S A. 2015 Jan 27;112(4):1095-100.
doi: 10.1073/pnas.1423628112

The draft genome of Tibetan hulless barley reveals adaptive patterns to the high stressful Tibetan Plateau
Zeng X, Long H, Wang Z, Zhao S, Tang Y, Huang Z, Wang Y, Xu Q, Mao L, Deng G, Yao X, Li X, Bai L, Yuan H, Pan Z, Liu R, Chen X, WangMu Q, Chen M, Yu L, Liang J, DunZhu D, Zheng Y, Yu S, LuoBu Z, Guang X, Li J, Deng C, Hu W, Chen C, TaBa X, Gao L, Lv X, Abu YB, Fang X, Nevo E, Yu M, Wang J, Tashi N.
PNAS. 2015 Jan 27;112(4):1095-1100
doi: 10.1073/pnas.1423628112

Prospects for Selecting Wheat with Increased Zinc and Decreased Cadmium Concentration in Grain
Guttieri MJ, Baenziger PS, Frels K, Carver B, Arnall B, Wang S, Akhunov E,Waters BM
Crop Science. 2015 Jan;55(4)
doi:10.2135/cropsci2014.08.0559

The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements.
Altenhoff AM, Škunca N, Glover N, Train CM, Sueki A, Piližota I, Gori K, Tomiczek B, Müller S, Redestig H, Gonnet GH, Dessimoz C.
Nucleic Acids Res. 2015 Jan;43(Database issue):D240-9.
doi: 10.1093/nar/gku1158

Understanding the biochemical basis of temperature-induced lipid pathway adjustments in plants.
Li Q, Zheng Q, Shen W, Cram D, Fowler DB, Wei Y, Zou J.
Plant Cell. 2015 Jan;27(1):86-103. doi: 10.1105/tpc.114.134338

Triticeae resources in Ensembl Plants.
Bolser DM, Kerhornou A, Walts B, Kersey P.
Plant Cell Physiol. 2015 Jan;56(1):e3.
doi: 10.1093/pcp/pcu183

Unlimited Thirst for Genome Sequencing, Data Interpretation, and Database Usage in Genomic Era: The Road towards Fast-Track Crop Plant Improvement.
Dhanapal AP, Govindaraj M.
Genet Res Int. 2015;2015:684321.
doi: 10.1155/2015/684321

Genome-Wide Comparative Analysis of Flowering-Related Genes in Arabidopsis, Wheat, and Barley.
Peng FY, Hu Z, Yang RC.
Int J Plant Genomics. 2015;2015:874361.
doi: 10.1155/2015/874361

2014 -----------------------------------------------

Sequencing of plant genomes - A review
Türkta M, Kurtoğlu KY, Dorado G, Zhang B, Henandez P, Unver T
Turkish Journal of Agriculture and Forestry, 2014, 38:1-16
doi: 10.3906/tar-1409-93

Employment of wheat-rye translocation in wheat improvement and broadening its genetic basis
Jung WJ, Seo YW
Journal of Crop Sscience and Biotechnology, 2014 Dec;17(4):305-313
doi: 10.1007/s12892-014-0086-1

A new genetic and deletion map of wheat chromosome 5A to detect candidate genes for quantitative traits
Gadaleta A, Giancaspro A, Nigro D, Giove SL, Vale G
Molecular Breeding, Dec 2014, Volume 34, Issue 4, pp 1563-1578
doi:10.1007/s11032-014-0183-3

Conserved structure and varied expression reveal key roles of phosphoglucan phosphatase gene starch excess 4 in barley.
Ma J, Jiang QT, Wei L, Yang Q, Zhang XW, Peng YY, Chen GY, Wei YM, Lui C, Zheng YL
Planta. 2014 Dec;240(6):1179-90.
doi: 10.1007/s00425-014-2140-0

Regulation of Zn and Fe transporters by the GPC1 gene during early wheat monocarpic senescence.
Pearce S, Tabbita F, Cantu D, Buffalo V, Avni R, Vazquez-Gross H, Zhao R, Conley CJ, Distelfeld A, Dubcovksy J.
BMC Plant Biol. 2014 Dec 19;14:368.
doi: 10.1186/s12870-014-0368-2

chromoWIZ: a web tool to query and visualize chromosome-anchored genes from cereal and model genomes.
Nussbaumer T, Kugler KG, Schweiger W, Bader KC, Gundlach H, Spannagl M, Poursarebani N, Pfeifer M, Mayer KF.
BMC Plant Biol. 2014 Dec 10;14:348.
doi: 10.1186/s12870-014-0348-6

Polyphenol oxidase as a biochemical seed defense mechanism.
Fuerst EP, Okubara PA, Anderson JV, Morris CF.
Front Plant Sci. 2014 Dec 10;5:689.
doi: 10.3389/fpls.2014.00689

Next-generation sequencing of flow-sorted wheat chromosome 5D reveals lineage-specific translocations and widespread gene duplications.
Lucas SJ, Akpınar BA, Šimková H, Kubaláková M, Doležel J, Budak H.
BMC Genomics. 2014 Dec 9;15:1080.
doi: 10.1186/1471-2164-15-1080

Strategies for transferring resistance into wheat: from wide crosses to GM cassettes.
Wulff BB, Moscou MJ.
Front Plant Sci. 2014 Dec 4;5:692.
doi: 10.3389/fpls.2014.00692

Organization and evolution of transposable elements along the bread wheat chromosome 3B.
Daron J, Glover N, Pingault L, Theil S, Jamilloux V, Paux E, Barbe V, Mangenot S, Alberti A, Wincker P, Quesneville H, Feuillet C, Choulet F.
Genome Biol. 2014;15(12):546.
doi: 10.1186/s13059-014-0546-4

The Na(+) transporter, TaHKT1;5-D, limits shoot Na(+) accumulation in bread wheat.
Byrt CS, Xu B, Krishnan M, Lightfoot DJ, Athman A, Jacobs AK, Watson-Haigh NS, Plett D, Munns R, Tester M, Gilliham M.
Plant J. 2014 Nov;80(3):516-26.
doi: 10.1111/tpj.12651

Association mapping and validation of QTLs for flour yield in the soft winter wheat variety Kitahonami.
Ishikawa G, Nakamura K, Ito H, Saito M, Sato M, Jinno H, Yoshimura Y, Nishimura T, Maejima H, Uehara Y, Kobayashi F, Nakamura T.
PLoS One. 2014 Oct 31;9(10):e111337.
doi: 10.1371/journal.pone.0111337

Extensive pericentric rearrangements in the bread wheat (Triticum aestivum L.) genotype "Chinese Spring" revealed from chromosome shotgun sequence data.
Ma J, Stiller J, Wei Y, Zheng YL, Devos KM, Doležel J, Liu C.
Genome Biol Evol. 2014 Oct 27;6(11):3039-48.
doi: 10.1093/gbe/evu237

Utilization of deletion bins to anchor and order sequences along the wheat 7B chromosome.
Belova T, Grønvold L, Kumar A, Kianian S, He X, Lillemo M, Springer NM, Lien S, Olsen OA, Sandve SR.
Theor Appl Genet. 2014 Sep;127(9):2029-40.
doi: 10.1007/s00122-014-2358-z

Paleogenomics in Triticeae for translational research
Murat F, Pont C, Salse J
Current Plant Biology 2014 Aug; 1:34-39
doi:10.1016/j.cpb.2014.08.003

Whole-genome profiling and shotgun sequencing delivers an anchored, gene-decorated, physical map assembly of bread wheat chromosome 6A.
Poursarebani N, Nussbaumer T, Simková H, Safář J, Witsenboer H, van Oeveren J, Doležel J, Mayer KF, Stein N, Schnurbusch T.
Plant J. 2014 Jul;79(2):334-47.
doi: 10.1111/tpj.12550