SOLVING THE CRE8 GENE PUZZLE, ONE PAN-GENOME PIECE AT A TIME Abstract uri icon

abstract

  • Cereal cyst nematodes (CCN) can cause serious yield losses in wheat. Where effective genes are available for CCN resistance (Cre genes), yield losses can be largely prevented through development and use of resistant cultivars. Several CCN resistance loci have been mapped and are used in marker-assisted wheat breeding. None of the causal genes have been isolated. To identify the causal gene at the Cre8 locus on chromosome 6B, we undertook an iterative process of crossing, marker development, identification of recombinants and assessment of resistance. This provided a highresolution genetic map of the Cre8 region, with 12 markers within 0.4 cM. Anchoring of this map to the International Wheat Genome Sequencing Consortium V1.0 assembly for Chinese Spring chromosome 6B revealed significant inconsistencies in marker order. Comparisons with the Triticum 3.1 assembly of Chinese Spring, which incorporates long reads from PacBio sequencing, resolved some of these inconsistencies and identified new contigs in the region. Analysis of recently generated sequences from Arina, Jagger, Julius, Landmark, Norin 61 and CDC Stanley provided new clues about gene order and new sequence polymorphisms for marker design. The current candidate region for Cre8 contains approximately 800 kb of assembled DNA sequence and 30 high-confidence gene models, including one for a gene that is known to be expressed in roots and for which the predicted product has been implicated in other plant-nematode interactions.

publication date

  • July 2019