Unlocking the barley genome by chromosomal and comparative genomics

Autor: Burkhard Steuernagel, Kazuhiro Sato, Marie Kubaláková, Takashi Endo, Hiroaki Sakai, Pete E. Hedley, Mihaela Martis, Jenny Morris, Heidrun Gundlach, Andreas Graner, Nils Stein, Matthias Platzer, Tsuyoshi Tanaka, Klaus F. X. Mayer, Jaroslav Dolezel, Jérôme Salse, Marius Felder, Florent Murat, Uwe Scholz, Robbie Waugh, Pavla Suchánková, Stefan Taudien, Takashi Matsumoto, Hui Liu, Thomas Nussbaumer, Hana Šimková, Takeshi Itoh, Stephan K. Roessner
Přispěvatelé: Inst Bioinformat & Syst Biol, Munich Informat Ctr Prot Sequences, Helmholtz-Zentrum München (HZM), Ctr Reg Hana Biotechnol & Agr Res, Institute of Experimental Botany of the Czech Academy of Sciences (IEB / CAS), Czech Academy of Sciences [Prague] (CAS)-Czech Academy of Sciences [Prague] (CAS), Génétique Diversité et Ecophysiologie des Céréales (GDEC), Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP), Lab Plant Genet, Kyoto University [Kyoto], Tsukuba, Université de Tokyo,Faculté d'Agronomie, Inst Plant Sci & Resources, Kurashiki, Okayama University, Bundesministerium fur Bildung und Forschung [0314000], European Union commission [FP7-212019], Ministry of Education, Youth, and Sports of the Czech Republic, European Regional Development Fund [CZ.1.05/2.1.00/01.0007], Institute of Experimental Botany, Okayama University [Okayama], Helmholtz Zentrum München = German Research Center for Environmental Health, Kyoto University
Jazyk: angličtina
Rok vydání: 2011
Předmět:
0106 biological sciences
[SDV.SA]Life Sciences [q-bio]/Agricultural sciences
PSEUDO-RESPONSE-REGULATOR
Sequence analysis
FULL-LENGTH CDNAS
Large-Scale Biology Articles
Centromere
Plant Science
Biology
Genes
Plant
01 natural sciences
Genome
Chromosomes
Plant
Evolution
Molecular
03 medical and health sciences
TRITICUM-AESTIVUM L
Gene Order
ACETYL-COA CARBOXYLASE
GENE-EXPRESSION
POLYPLOWHEAT
3-PHOSPHOGLYCERATE KINASE
PHYLOGENETIC ANALYSIS
HOMOEOLOGOUS GROUP-4
CEREAL GENOMICS
Gene
Triticum
030304 developmental biology
2. Zero hunger
Comparative genomics
Genetics
Gene Rearrangement
0303 health sciences
Oryza sativa
Models
Genetic
Chromosome
food and beverages
Hordeum
Oryza
Cell Biology
Genomics
Sequence Analysis
DNA
biology.organism_classification
pseudo-response-regulator
acetyl-coa carboxylase
triticum-aestivum l
full-length cdnas
gene-expression
polyploid wheat
3-phosphoglycerate kinase
phylogenetic analysis
homoeologous group-4
cereal genomics
Hordeum vulgare
Brachypodium distachyon
Genome
Plant
010606 plant biology & botany
Zdroj: Plant Cell 23, 1249-1263 (2011)
The Plant cell
The Plant cell, American Society of Plant Biologists (ASPB), 2011, 23 (4), pp.1249-1263. ⟨10.1105/tpc.110.082537⟩
Plant Cell
Plant Cell, American Society of Plant Biologists, 2011, 23 (4), pp.1249-1263. ⟨10.1105/tpc.110.082537⟩
The Plant cell, 2011, 23 (4), pp.1249-1263. ⟨10.1105/tpc.110.082537⟩
Plant Cell 4 (23), 1249-1263. (2011)
ISSN: 1040-4651
1532-298X
DOI: 10.1105/tpc.110.082537⟩
Popis: L'article original est publié par The American Society of Plant Biologists; We used a novel approach that incorporated chromosome sorting, next-generation sequencing, array hybridization, and systematic exploitation of conserved synteny with model grasses to assign; similar to 86% of the estimated; similar to 32,000 barley (Hordeum vulgare) genes to individual chromosome arms. Using a series of bioinformatically constructed genome zippers that integrate gene indices of rice (Oryza sativa), sorghum (Sorghum bicolor), and Brachypodium distachyon in a conserved synteny model, we were able to assemble 21,766 barley genes in a putative linear order. We show that the barley (H) genome displays a mosaic of structural similarity to hexaploid bread wheat (Triticum aestivum) A, B, and D subgenomes and that orthologous genes in different grasses exhibit signatures of positive selection in different lineages. We present an ordered, information-rich scaffold of the barley genome that provides a valuable and robust framework for the development of novel strategies in cereal breeding.
Databáze: OpenAIRE
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