Sequencing of 15 622 gene‐bearing BACs clarifies the gene‐dense regions of the barley genome

[EN] Barley (Hordeum vulgare L.) possesses a large and highly repetitive genome of 5.1 Gb that has hindered the development of a complete sequence. In 2012, the International Barley Sequencing Consortium released a resource integrating whole-genome shotgun sequences with a physical and genetic frame...

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Authors: Muñoz Amatriaín, María, Lonardi, Stefano, Luo, Ming‐Cheng, Madishetty, Kavitha, Svensson, Jan T., Moscou, Matthew J., Wanamaker, Steve I., Jiang, Tao, Kleinhofs, Andris 1937-2022, Muehlbauer, Gary J., Wise, Roger Philip, Stein, Nils 1967-, Ma, Yaqin, Rodriguez Campos, Edmundo Mario, Kudrna, Dave, Bhat, Prasanna R., Chao, Shiaoman 1953-, Condamine, Pascal, Heinen, Shane, Resnik, Josh, Wing, Rod A., Witt, Heather N., Alpert, Matthew, Beccuti, Marco, Bozdag, Serdar, Cordero, Francesca, Mirebrahim, Hamid, Ounit, Rachid, Wu, Yonghui, You, Frank M., Zheng, Jie, Šimková, Hana, Dolezel, Jaroslav 1954-, Grimwood, Jane, Schmutz, Jeremy, Duma, Denisa, Altschmied, Lothar, Blake, Tom, Bregitzer, Phil, Cooper, Laurel, Dilbirligi, Muharrem, Falk, Anders, Feiz, Leila, Graner, Andreas 1957-, Gustafson, John Perry 1944-, Hayes, Patrick Milo, Lemaux, Peggy G., Mammadov, Jafar, Close, Timothy James
Format: article
Status:Published version
Publication Date:2015
Country:España
Institution:Universidad de León
Repository:BULERIA. Repositorio Institucional de la Universidad de León
OAI Identifier:oai:buleria.unileon.es:10612/24794
Online Access:https://onlinelibrary.wiley.com/doi/10.1111/tpj.12959
https://hdl.handle.net/10612/24794
Access Level:Open access
Keyword:Biología
Genética
Barley
Hordeum vulgare L.
BAC sequencing
Gene distribution
Recombination frequency
Synteny
Centromere BACs
HarvEST:Barley
Aegilops tauschii
2417.14 Genética Vegetal
Description
Summary:[EN] Barley (Hordeum vulgare L.) possesses a large and highly repetitive genome of 5.1 Gb that has hindered the development of a complete sequence. In 2012, the International Barley Sequencing Consortium released a resource integrating whole-genome shotgun sequences with a physical and genetic framework. However, because only 6278 bacterial artificial chromosome (BACs) in the physical map were sequenced, fine structure waslimited. To gain access to the gene-containing portion of the barley genome at high resolution, we identif ied and sequenced 15 622 BACs representing the minimal tiling path of 72 052 physical-mapped gene-bearing BACs. This generated ~1.7 Gb of genomic sequence containing an estimated 2/3 of all Morex barley genes. Exploration of these sequenced BACs revealed that although distal ends of chromosomes contain mostof thegene-enriched BACs and are characterized by high recombination rates, there are also gene-dense regions with suppressed recombination. We made use of published map-anchored sequence data from Aegilops tauschii to develop a synteny viewer between barley and the ancestor of the wheat D-genome. Except for some notable inversions, there is a high level of collinearity between the two species. The software HarvEST:Barley provides facile access to BAC sequences and their annotations, along with the barleyAe. tauschii synteny viewer. These BAC sequences constitute a resource to improve the efficiency of marker development, map-based cloning, and comparative genomics in barley and related crops. Additional knowledge about regions of the barley genome that are gene-dense but low recombination is particularly relevant

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