Sergeeva, E.M., Afonnikov, D.A., Koltunova, M.K., Gusev, V.D., Miroshnichenko, L.A., Vrána, J., Kubaláková, M., Poncet, C., Sourdille, P., Feuillet, C., Doležel, J., Salina, E.A.
THE PLANT GENOME
7(2):
1-16,
2014
Keywords:
Abstract:
The sequencing of individual chromosomes of common wheat
is in progress. The molecular size of wheat chromosome 5B
is nearly 870 Mb (5BL = 580 Mb and 5BS = 290 Mb). We
produced the first low coverage 454-sequencing of the long
and short arms of wheat chromosome 5B (110,793 and 39,695
reads, which compose 8 and 6% of total 5BL and 5BS length,
respectively) and calculated the ratios of the different families
of repetitive sequences, including transposable elements (TEs),
satellite repeats (Afa, pSc119.2, 5S rDNA and 45S rDNA),
and microsatellites, as well as direct and inverted repeat motifs.
The TEs accounted for 70% of the total analyzed nucleotide
sequences. The content of the Cereba retrotransposon family
differed between the two arms of chromosome 5B. Comparing
the reads of chromosome 5B with the data from chromosome
5A, we found the retrotransposons Fatima and Sakura and
DNA transposon Jorge were prevalent in 5B. The hypothetical
coding sequences accounted for 2.0% of the short arm and
2.07% of the long arm. Using in silico mapping, we identified
the regions of synteny with rice and Brachypodium chromosomes
(1,073,526 and 1,767,298 bp aligned, respectively), and the
result was consistent with the data from the expressed sequence
tag (EST) mapping of wheat 5B chromosome to the genomes of
these grasses. Thus, these results show that low coverage survey
sequencing can provide useful information about the composition
and evolution of wheat chromosome 5B.
Fulltext: contact IEB authors
IEB authors: Jaroslav Doležel,
Marie Kubaláková,
Jan Vrána
Čeština
English