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GrainGenes Reference Report: PNA-110-7940

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Reference	PNA-110-7940
Title	A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor.
Journal	Proceedings of the National Academy of Sciences, USA
Year	2013
Volume	110
Pages	7940-7945
Author	[ Hide all but 1 of 31 ] Luo MC Gu YQ You FM Deal KR Ma Y Hu Y Huo N Wang Y Wang J Chen S Jorgensen CM Zhang Y McGuire PE Pasternak S Stein JC Ware D Kramer M McCombie WR Kianian SF Martis MM Mayer KF Sehgal SK Li W Gill BS Bevan MW Simková H Dolezel J Weining S Lazo GR Anderson OD Dvorak J
Abstract	The current limitations in genome sequencing technology require the construction of physical maps for high-quality draft sequences of large plant genomes, such as that of Aegilops tauschii, the wheat D-genome progenitor. To construct a physical map of the Ae. tauschii genome, we fingerprinted 461,706 bacterial artificial chromosome clones, assembled contigs, designed a 10K Ae. tauschii Infinium SNP array, constructed a 7,185-marker genetic map, and anchored on the map contigs totaling 4.03 Gb. Using whole genome shotgun reads, we extended the SNP marker sequences and found 17,093 genes and gene fragments. We showed that collinearity of the Ae. tauschii genes with Brachypodium distachyon, rice, and sorghum decreased with phylogenetic distance and that structural genome evolution rates have been high across all investigated lineages in subfamily Pooideae, including that of Brachypodieae. We obtained additional information about the evolution of the seven Triticeae chromosomes from 12 ancestral chromosomes and uncovered a pattern of centromere inactivation accompanying nested chromosome insertions in grasses. We showed that the density of noncollinear genes along the Ae. tauschii chromosomes positively correlates with recombination rates, suggested a cause, and showed that new genes, exemplified by disease resistance genes, are preferentially located in high-recombination chromosome regions.
External Databases	http://dx.doi.org/doi:10.1073/pnas.1219082110
Locus	AT1D0005 [ Show all 6732 ]
Map Data	Aegilops_tauschii_D_genome_2013
Sequence	AT1D0005 [ Show all 6732 ]

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