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index medicus (26) 26
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genomics (19) 19
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life sciences (16) 16
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plant sciences (15) 15
genomes (14) 14
evolution (13) 13
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polymorphism, single nucleotide (12) 12
genes (11) 11
research (11) 11
vegetal biology (10) 10
analysis (9) 9
chromosomes (9) 9
genotype (9) 9
research article (9) 9
single nucleotide polymorphisms (9) 9
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genetic variation (8) 8
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genome (7) 7
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phylogeny (5) 5
polyploidy (5) 5
wheat (5) 5
[ sdv.bv ] life sciences [q-bio]/vegetal biology (4) 4
arabidopsis-thaliana (4) 4
assembly (4) 4
biological diversity (4) 4
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chromosomes, plant - genetics (4) 4
computational biology (4) 4
fungi (4) 4
gene expression regulation, plant (4) 4
genome, plant - genetics (4) 4
medicine (4) 4
mutation (4) 4
physiological aspects (4) 4
plant genetics (4) 4
polymorphism, single nucleotide - genetics (4) 4
quantitative trait loci (4) 4
selection (4) 4
sequence (4) 4
single-nucleotide polymorphism (4) 4
single-nucleotide polymorphisms (4) 4
tomato (4) 4
tomatoes (4) 4
[ sdv ] life sciences [q-bio] (3) 3
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annotation (3) 3
biochemistry & molecular biology (3) 3
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evolutionary biology (3) 3
expressed sequence tags (3) 3
flowers & plants (3) 3
fruit - genetics (3) 3
fruits (3) 3
gene sequencing (3) 3
genes, plant (3) 3
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1. Full Text Sequence imputation from low density single nucleotide polymorphism panel in a black poplar breeding population
by Pegard, M and Rogier, O and Berard, A and Faivre-Rampant, P and Le Paslier, MC and Bastien, C and Jorge, V and Sanchez, L
BMC GENOMICS, ISSN 1471-2164, 04/2019, Volume 20, Issue 1, pp. 302 - 16
BackgroundGenomic selection accuracy increases with the use of high SNP (single nucleotide polymorphism) coverage. However, such gains in coverage come at high... 
Populus nigra | Genotype Imputation | Low density arrays | ACCURACY | STRATEGIES | PREDICTION | LINKAGE DISEQUILIBRIUM | Whole-Genome Resequencing | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GENETICS & HEREDITY | WHOLE-GENOME ASSOCIATION | WIDE ASSOCIATION | SELECTION | EFFICIENCY | MISSING GENOTYPES | Usage | Nucleotide sequencing | Single nucleotide polymorphisms | Hardy-Weinberg formula | Analysis | DNA sequencing | Linkage disequilibrium | Genomes | Single-nucleotide polymorphism | Gene polymorphism | Marker panels | Density | Genotype & phenotype | Accuracy | Density ratio | Annotations | Mathematical analysis | Quality | Poplar | Population | Trees | Densification | Nucleotide sequence | Redundancy | Breeding | Coverage | Statistical tests | Studies | Algorithms | Gene frequency | Pedigree | Alleles | Software | Polymorphism
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2. Full Text Genome Sequences of Populus tremula Chloroplast and Mitochondrion: Implications for Holistic Poplar Breeding
by Kersten, Birgit and Faivre Rampant, Patricia and Mader, Malte and Le Paslier, Marie-Christine and Bounon, Rémi and Berard, Aurélie and Vettori, Cristina and Schroeder, Hilke and Leplé, Jean-Charles and Fladung, Matthias
PloS one, 2016, Volume 11, Issue 1, p. e0147209
Complete Populus genome sequences are available for the nucleus (P. trichocarpa; section Tacamahaca) and for chloroplasts (seven species), but not for... 
Mitochondria - genetics | Plant Breeding | Populus - genetics | Genome, Plant | Phylogeny | Chloroplasts - genetics | Populus - classification
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3. Full Text Early allopolyploid evolution in the post-neolithic Brassica napus oilseed genome
by Chalhoub, Boulos and Denoeud, France and Liu, Shengyi and Parkin, Isobel A. P and Tang, Haibao and Wang, Xiyin and Chiquet, Julien and Belcram, Harry and Tong, Chaobo and Samans, Birgit and Corréa, Margot and Da Silva, Corinne and Just, Jérémy and Falentin, Cyril and Koh, Chu Shin and Le Clainche, Isabelle and Bernard, Maria and Bento, Pascal and Noel, Benjamin and Labadie, Karine and Alberti, Adriana and Charles, Mathieu and Arnaud, Dominique and Guo, Hui and Daviaud, Christian and Alamery, Salman and Jabbari, Kamel and Zhao, Meixia and Edger, Patrick P and Chelaifa, Houda and Tack, David and Lassalle, Gilles and Mestiri, Imen and Schnel, Nicolas and Le Paslier, Marie-Christine and Fan, Guangyi and Renault, Victor and Bayer, Philippe E and Golicz, Agnieszka A and Manoli, Sahana and Lee, Tae-Ho and Thi, Vinh Ha Dinh and Chalabi, Smahane and Hu, Qiong and Fan, Chuchuan and Tollenaere, Reece and Lu, Yunhai and Battail, Christophe and Shen, Jinxiong and Sidebottom, Christine H. D and Wang, Xinfa and Canaguier, Aurélie and Chauveau, Aurélie and Bérard, Aurélie and Deniot, Gwenaëlle and Guan, Mei and Liu, Zhongsong and Sun, Fengming and Lim, Yong Pyo and Lyons, Eric and Town, Christopher D and Bancroft, Ian and Wang, Xiaowu and Meng, Jinling and Ma, Jianxin and Pires, J. Chris and King, Graham J and Brunel, Dominique and Delourme, Régine and Renard, Michel and Aury, Jean-Marc and Adams, Keith L and Batley, Jacqueline and Snowdon, Rod J and Tost, Jorg and Edwards, David and Zhou, Yongming and Hua, Wei and Sharpe, Andrew G and Paterson, Andrew H and Guan, Chunyun and Wincker, Patrick
Science, ISSN 0036-8075, 08/2014, Volume 345, Issue 6199, pp. 950 - 953
Oilseed rape (Brassica napus L.) was formed similar to 7500 years ago by hybridization between B. rapa and B. oleracea, followed by chromosome doubling, a... 
PLANT | DOMINANCE | GENE | MULTIDISCIPLINARY SCIENCES | COTTON | Rape (Plant) | Genetic research | Botanical research | Polyploidy | Genetic aspects | Research | Hybridization | Evolutionary biology | Genomics | Rape plants | Rape | Brassica | Genes | Crops | Genetics | Evolution | Genomes | Oilseeds | Life Sciences
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4. Full Text De novo construction of a "gene-space" for diploid plant genome rich in repetitive sequences by an iterative Process of Extraction and Assembly of NGS reads (iPEA protocol) with limited computing resources
by Aluome, Christelle and Aubert, Grégoire and Alves Carvalho, Susete and Le Paslier, Marie-Christine and Burstin, Judith and Brunel, Dominique
BMC Research Notes, ISSN 1756-0500, 02/2016, Volume 9, Issue 1, p. 81
The continuing increase in size and quality of the "short reads" raw data is a significant help for the quality of the assembly obtained through various... 
Gene-space | Limited computing resources | Next-generation sequencing NGS | Unigene | Assembly | Iterative process | Repetitive Sequences, Nucleic Acid - genetics | Computational Biology - methods | Diploidy | Reproducibility of Results | Algorithms | Base Sequence | Genomics | Polymorphism, Single Nucleotide - genetics | Genome, Plant | Genotyping Techniques | High-Throughput Nucleotide Sequencing - methods | Peas - genetics | RNA sequencing | Genomes | Research | Single nucleotide polymorphisms | Plant genetics
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5. Full Text Increase in Tomato Locule Number Is Controlled by Two Single-Nucleotide Polymorphisms Located Near WUSCHEL
by Stéphane Muños and Nicolas Ranc and Emmanuel Botton and Aurélie Bérard and Sophie Rolland and Philippe Duffé and Yolande Carretero and Marie-Christine Le Paslier and Corinne Delalande and Mondher Bouzayen and Dominique Brunel and Mathilde Causse
Plant Physiology, ISSN 0032-0889, 8/2011, Volume 156, Issue 4, pp. 2244 - 2254
In tomato (Solarium lycopersicum) fruit, the number of locules (cavities containing seeds that are derived from carpels) varies from two to up to 10 or more.... 
Quantitative trait loci | Phenotypes | Alleles | Plant domestication | Genetic loci | Evolution | Genomes | Plants | Chromosomes | GENETICS, GENOMICS, AND MOLECULAR EVOLUTION | Fruits | LINKAGE DISEQUILIBRIUM | STEM-CELL FATE | SHAPED TOMATO | QUANTITATIVE TRAIT | GENES | SHOOT APICAL MERISTEM | CULTIVATED TOMATOES | DOMESTICATION | ARABIDOPSIS | EXTREME FRUIT SIZE | PLANT SCIENCES | Reproducibility of Results | Genetic Association Studies | Physical Chromosome Mapping | Seeds - genetics | Molecular Sequence Data | Organ Size | Lycopersicon esculentum - anatomy & histology | Plant Proteins - genetics | Phenotype | Genes, Plant - genetics | Base Sequence | Gene Expression Regulation, Plant | Flowers - anatomy & histology | Polymorphism, Single Nucleotide - genetics | Lycopersicon esculentum - genetics | Agriculture | Models, Genetic | Flowers - genetics | Evolution, Molecular | Genetic aspects | Research | Tomatoes | Plant genetics
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6. Full Text A large maize (zea mays L.) SNP genotyping array: Development and germplasm genotyping, and genetic mapping to compare with the B73 reference genome
by Ganal, Martin W and Durstewitz, Gregor and Polley, Andreas and Bérard, Aurélie and Buckler, Edward S and Charcosset, Alain and Clarke, Joseph D and Graner, Eva-Maria and Hansen, Mark and Joets, Johann and Le Paslier, Marie-Christine and McMullen, Michael D and Montalent, Pierre and Rose, Mark and Schön, Chris-Carolin and Sun, Qi and Walter, Hildrun and Martin, Olivier C and Falque, Matthieu
PLoS ONE, ISSN 1932-6203, 12/2011, Volume 6, Issue 12, p. e28334
SNP genotyping arrays have been useful for many applications that require a large number of molecular markers such as high-density genetic mapping, genome-wide... 
DESIGN | LINKAGE DISEQUILIBRIUM | ASSAY | INBRED LINES | BIOLOGY | MARKERS | POPULATIONS | PATTERNS | DIVERSITY | ASSOCIATION | MAP | Zea mays - genetics | Conserved Sequence - genetics | Reproducibility of Results | Genome, Plant - genetics | Genotype | Genetic Markers | Chromosomes, Plant | Polymorphism, Genetic | Base Sequence | Chromosome Mapping - methods | Polymorphism, Single Nucleotide - genetics | Recombination, Genetic - genetics | Software | Genotyping Techniques - methods | Cluster Analysis | Quality Control | Corn | Genomes | Genes | Analysis | Genomics | Haplotypes | Mapping | Maize | Single-nucleotide polymorphism | Density | Germplasm | Conserved sequence | Maps | Genetics | Inbreeding | Chromosomes | Bioinformatics | Assembly | Recombinant | Linkage analysis | Breeding | Markers | Domestication | Genotyping | Gene loci | Gene mapping | Arrays
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7. Full Text The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution
by Badouin, Hélène and Gouzy, Jérôme and Grassa, Christopher J and Murat, Florent and Staton, S. Evan and Cottret, Ludovic and Lelandais-Brière, Christine and Owens, Gregory L and Carrère, Sébastien and Mayjonade, Baptiste and Legrand, Ludovic and Gill, Navdeep and Kane, Nolan C and Bowers, John E and Hubner, Sariel and Bellec, Arnaud and Bérard, Aurélie and Bergès, Hélène and Blanchet, Nicolas and Boniface, Marie-Claude and Brunel, Dominique and Catrice, Olivier and Chaidir, Nadia and Claudel, Clotilde and Donnadieu, Cécile and Faraut, Thomas and Fievet, Ghislain and Helmstetter, Nicolas and King, Matthew and Knapp, Steven J and Lai, Zhao and Le Paslier, Marie-Christine and Lippi, Yannick and Lorenzon, Lolita and Mandel, Jennifer R and Marage, Gwenola and Marchand, Gwenaëlle and Marquand, Elodie and Bret-Mestries, Emmanuelle and Morien, Evan and Nambeesan, Savithri and Nguyen, Thuy and Pegot-Espagnet, Prune and Pouilly, Nicolas and Raftis, Frances and Sallet, Erika and Schiex, Thomas and Thomas, Justine and Vandecasteele, Céline and Varès, Didier and Vear, Felicity and Vautrin, Sonia and Crespi, Martin and Mangin, Brigitte and Burke, John M and Salse, Jérôme and Muños, Stéphane and Vincourt, Patrick and Rieseberg, Loren H and Langlade, Nicolas B
Nature, ISSN 0028-0836, 06/2017, Volume 546, Issue 7656, pp. 148 - 152
The domesticated sunflower, Helianthus annuus L., is a global oil crop that has promise for climate change adaptation, because it can maintain stable yields... 
PHOSPHATIDATE PHOSPHATASE | WILD | ACID | CULTIVATED SUNFLOWER | ANNOTATION | MULTIDISCIPLINARY SCIENCES | SEQUENCE | GENES | HELIANTHUS-ANNUUS | DOMESTICATION | ASTERACEAE | Genome, Plant - genetics | Stress, Physiological - genetics | Genomics | Helianthus - metabolism | Transcriptome - genetics | Sequence Analysis, DNA | Genetic Variation | Sunflower Oil | Gene Expression Regulation, Plant | Plant Oils - metabolism | Gene Duplication - genetics | Flowers - physiology | Acclimatization - genetics | Helianthus - classification | Flowers - genetics | Evolution, Molecular | Helianthus - genetics | Genetic aspects | Gene expression | Observations | Sunflowers | Networks | Climate | Oil and gas exploration | Transcription | Research programs | Genes | Genomes | Gene sequencing | Mining | Botany | Evolution | Genetics | Flowering | Flowers & plants | Assembly | Adaptation | Duplicating milling machines | Reconstruction | Stresses | Architecture | Breeding | Crops | Organs | Genetic diversity | Metabolism | Real time | Stress | Environmental conditions | Resilience | Quantitative genetics | Climate change | Oil | Plant breeding | Oils & fats | Compatibility | Life Sciences | Vegetal Biology
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8. Full Text Megabase Level Sequencing Reveals Contrasted Organization and Evolution Patterns of the Wheat Gene and Transposable Element Spaces
by Frédéric Choulet and Thomas Wicker and Camille Rustenholz and Etienne Paux and Jérome Salse and Philippe Leroy and Stéphane Schlub and Marie-Christine Le Paslier and Ghislaine Magdelenat and Catherine Gonthier and Arnaud Couloux and Hikmet Budak and James Breen and Michael Pumphrey and Sixin Liu and Xiuying Kong and Jizeng Jia and Marta Gut and Dominique Brunel and James A. Anderson and Bikram S. Gill and Rudi Appels and Beat Keller and Catherine Feuillet
The Plant Cell, ISSN 1040-4651, 6/2010, Volume 22, Issue 6, pp. 1686 - 1701
To improve our understanding of the organization and evolution of the wheat (Triticum aestivum) genome, we sequenced and annotated 13-Mb contigs (18.2 Mb)... 
Retrotransposons | Genetic transposition | Genes | Genomics | Corn | Evolution | Genomes | Chromosomes | Sequencing | Rice | MOLECULAR CHARACTERIZATION | RECOMBINATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | RETROTRANSPOSONS | CHROMOSOMES | IDENTIFICATION | PLANT SCIENCES | CELL BIOLOGY | TRITICEAE | GENOME EXPANSION | DNA | MAIZE | RICE | Gene Duplication | Multigene Family | Genes, Plant | Molecular Sequence Data | Genome, Plant | Chromosomes, Plant | Sequence Analysis, DNA | DNA Transposable Elements | Triticum - genetics | Chromosomes, Artificial, Bacterial | Contig Mapping | DNA, Plant - genetics | Evolution, Molecular | Telomere - genetics | Genetic aspects | Transposons | Research | Wheat | Life Sciences | Plants genetics | Genetics
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9. Full Text Characterization of the Poplar Pan-Genome by Genome-Wide Identification of Structural Variation
by Pinosio, Sara and Giacomello, Stefania and Faivre-Rampant, Patricia and Taylor, Gail and Jorge, Veronique and Le Paslier, Marie Christine and Zaina, Giusi and Bastien, Catherine and Cattonaro, Federica and Marroni, Fabio and Morgante, Michele
Molecular Biology and Evolution, ISSN 0737-4038, 10/2016, Volume 33, Issue 10, pp. 2706 - 2719
Many recent studies have emphasized the important role of structural variation (SV) in determining human genetic and phenotypic variation. In plants, studies... 
pan-genome | structural variation | poplar | transposable elements | ARABIDOPSIS-THALIANA | PLANT GENOMES | GENE DUPLICATION | BIOCHEMISTRY & MOLECULAR BIOLOGY | EVOLUTIONARY BIOLOGY | RESISTANCE GENES | EVOLUTION | COPY-NUMBER | GENETICS & HEREDITY | MISSING HERITABILITY | POPULUS-TRICHOCARPA | MAIZE | Genome-Wide Association Study | Genes, Plant | Genomics | Populus - genetics | Structure-Activity Relationship | Genome, Plant | INDEL Mutation | DNA Copy Number Variations | Discoveries
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10. Full Text Phenotypic diversity and association mapping for fruit quality traits in cultivated tomato and related species
by Xu, Jiaxin and Xu, Jiaxin and Ranc, Nicolas and Ranc, Nicolas and Muños, Stéphane and Muños, Stéphane and Rolland, Sophie and Rolland, Sophie and Bouchet, Jean-Paul and Bouchet, Jean-Paul and Desplat, Nelly and Desplat, Nelly and Le Paslier, Marie-Christine and Le Paslier, Marie-Christine and Liang, Yan and Liang, Yan and Brunel, Dominique and Brunel, Dominique and Causse, Mathilde and Causse, Mathilde
Theoretical and Applied Genetics, ISSN 0040-5752, 3/2013, Volume 126, Issue 3, pp. 567 - 581
Association mapping has been proposed as an efficient approach to assist in the identification of the molecular basis of agronomical traits in plants. For this... 
Life Sciences | Biochemistry, general | Biotechnology | Plant Biochemistry | Plant Breeding/Biotechnology | Agriculture | Plant Genetics & Genomics | QTL ANALYSIS | AGRONOMY | CANDIDATE GENES | SOLANUM-LYCOPERSICON | LINE POPULATION | LOCUS | PLANT SCIENCES | HORTICULTURE | GENETICS & HEREDITY | COMPLEX TRAITS | SINGLE-NUCLEOTIDE POLYMORPHISMS | LINKAGE DISEQUILIBRIUM ANALYSIS | GENOME-WIDE ASSOCIATION | FRESH-MARKET TOMATO | Phenotype | Genotype | Lycopersicon esculentum - genetics | Chromosome Mapping | Polymorphism, Single Nucleotide | Genome, Plant | Quantitative Trait Loci | DNA, Plant - genetics | Fruit - genetics | Linkage Disequilibrium | Quantitative genetics | Physiological aspects | Genetic aspects | Research | Tomatoes | Biological diversity
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11. Full Text Whole genome resequencing in tomato reveals variation associated with introgression and breeding events
by Causse, Mathilde and Desplat, Nelly and Pascual, Laura and Le Paslier, Marie-Christine and Sauvage, Christopher and Bauchet, Guillaume and Bérard, Aurélie and Bounon, Rémi and Tchoumakov, Maria and Brunel, Dominique and Bouchet, Jean-Paul
BMC Genomics, ISSN 1471-2164, 11/2013, Volume 14, Issue 1, pp. 791 - 791
Background: One of the goals of genomics is to identify the genetic loci responsible for variation in phenotypic traits. The completion of the tomato genome... 
Sequence | Single nucleotide polymorphism | Genome | Introgression | Tomato | NUMBER | SNP DISCOVERY | LYCOPERSICON VAR. CERASIFORME | FRUIT-QUALITY | SOLANUM-LYCOPERSICON | ESCULENTUM | EXPRESSED SEQUENCE TAGS | CULTIVATED TOMATO | GENETIC DIVERSITY | BIOTECHNOLOGY & APPLIED MICROBIOLOGY | GENETICS & HEREDITY | SINGLE-NUCLEOTIDE POLYMORPHISMS | Breeding | Molecular Sequence Annotation | Heterozygote | Lycopersicon esculentum - genetics | Chromosome Mapping | Polymorphism, Single Nucleotide | Genome, Plant | Chromosomes, Plant - genetics | Sequence Analysis, DNA | INDEL Mutation | DNA Copy Number Variations | Evolution, Molecular | Chromosome mapping | Plant breeding | Genetic aspects | Single nucleotide polymorphisms | Nucleotide sequencing | Tomatoes | Identification and classification | Methods | DNA sequencing | Analysis | Genetic research | Chromosomes | Biotechnology industry
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12. Full Text High throughput SNP discovery and genotyping in hexaploid wheat
by Rimbert, Hélène and Darrier, Benoît and Navarro, Julien and Kitt, Jonathan and Choulet, Frédéric and Leveugle, Magalie and Duarte, Jorge and Rivière, Nathalie and Eversole, Kellye and Le Gouis, Jacques and Davassi, Alessandro and Balfourier, François and Le Paslier, Marie-Christine and Berard, Aurélie and Brunel, Dominique and Feuillet, Catherine and Poncet, Charles and Sourdille, Pierre and Paux, Etienne and BreedWheat Consortium and Int Wheat Genome Sequencing Consor and on behalf The BreedWheat Consortium and International Wheat Genome Sequencing Consortium and on behalf of The International Wheat Genome Sequencing Consortium
PLoS ONE, ISSN 1932-6203, 01/2018, Volume 13, Issue 1, p. e0186329
Because of their abundance and their amenability to high-throughput genotyping techniques, Single Nucleotide Polymorphisms(SNPs) are powerful tools for... 
POLYMORPHISM MARKERS | GENETIC DIVERSITY | PLANT HEIGHT | CORE COLLECTION | ARRAY | EVOLUTION | HIGH-DENSITY | TOLERANCE | MULTIDISCIPLINARY SCIENCES | IDENTIFICATION | SELECTION | Usage | Physiological aspects | Genotype | Genetic aspects | Research | Single nucleotide polymorphisms | High-throughput screening (Biochemical assaying) | Wheat | Breeding | Genomics | Genes | Genetic resources | Genomes | Single-nucleotide polymorphism | Clustering | Consortia | Plant breeding | Genotyping | Genetics | Chromosomes
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