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Applied and Environmental Microbiology, April 2008, p. 2349-2359, Vol. 74, No. 8
0099-2240/08/$08.00+0     doi:10.1128/AEM.01866-07
Copyright © 2008, American Society for Microbiology. All Rights Reserved.

Alignment of Genetic and Physical Maps of Gibberella zeae ^{, ,}

Department of Plant Pathology, Throckmorton Plant Sciences Center, Kansas State University, Manhattan, Kansas 66506-5502,¹ Department of Biology, University of Northern Iowa, Cedar Falls, Iowa 50614,² USDA-ARS Plant Science and Entomology Research Unit, Throckmorton Plant Sciences Center, Kansas State University, Manhattan, Kansas 66506-5502³

Received 11 August 2007/ Accepted 2 February 2008

We previously published a genetic map of Gibberella zeae (Fusarium graminearum sensu lato) based on a cross between Kansas strain Z-3639 (lineage 7) and Japanese strain R-5470 (lineage 6). In this study, that genetic map was aligned with the third assembly of the genomic sequence of G. zeae strain PH-1 (lineage 7) using seven structural genes and 108 sequenced amplified fragment length polymorphism markers. Several linkage groups were combined based on the alignments, the nine original linkage groups were reduced to six groups, and the total size of the genetic map was reduced from 1,286 to 1,140 centimorgans. Nine supercontigs, comprising 99.2% of the genomic sequence assembly, were anchored to the genetic map. Eight markers (four markers from each parent) were not found in the genome assembly, and four of these markers were closely linked, suggesting that >150 kb of DNA sequence is missing from the PH-1 genome assembly. The alignments of the linkage groups and supercontigs yielded four independent sets, which is consistent with the four chromosomes reported for this fungus. Two proposed heterozygous inversions were confirmed by the alignments; otherwise, the colinearity of the genetic and physical maps was high. Two of four regions with segregation distortion were explained by the two selectable markers employed in making the cross. The average recombination rates for each chromosome were similar to those previously reported for G. zeae. Despite an inferred history of genetic isolation of lineage 6 and lineage 7, the chromosomes of these lineages remain homologous and are capable of recombination along their entire lengths, even within the inversions. This genetic map can now be used in conjunction with the physical sequence to study phenotypes (e.g., fertility and fitness) and genetic features (e.g., centromeres and recombination frequency) that do not have a known molecular signature in the genome.

Published ahead of print on 8 February 2008.

Supplemental material for this article may be found at http://aem.asm.org/.

Contribution number 08-38-J from the Kansas Agricultural Experiment Station.

This article has been cited by other articles:

• Lee, J., Leslie, J. F., Bowden, R. L. (2008). Expression and Function of Sex Pheromones and Receptors in the Homothallic Ascomycete Gibberella zeae. Eukaryot Cell 7: 1211-1221 [Abstract] [Full Text]