Fig. 2

Centromeres are not located in the longest AT-rich region. All 21 chromosomes are drawn to scale and the ruler indicates the length of the chromosomes (Core chromosomes in Mb, accessory chromosomes in kb). For each chromosome, the GC-content (%GC, red), centromere position as determined by GFP–CenH3 enrichment (Cen, black), coding sequences (CDS, blue) and active or inactive transposable elements (TE, marine) are shown. Centromeres in Z. tritici are small, ranging from 5.57 kb (Cen13) to 13.55 kb (Cen8). Regions with low GC % are enriched with TEs. Centromeres are not located in the longest AT-rich regions for both core (Chr 1-13) and accessory (Chr 14-21) chromosomes. The apparent second, smaller peak on Chr 7 coincides with two rDNA repeats (positions 1,676,706-1,682,207 and 1,684,968–1,690,469, interrupted by a 2.76 kb intergenic spacer). Of ~50 actual repeats only two are included in the current genome assembly, thus identical reads stack at these positions to yield a false CenH3 peak (for details see also Fig. 6)