Poursarebani, N., Nussbaumer, T., Šimková, H., Šafář, J., Witsenboer, H., van Oeveren, J., Doležel, J., Mayer, K.F.X., Stein, N., Schnurbusch, T.
PLANT JOURNAL
79:
334-347,
2014
Klíčová slova:
bread wheat chromosome 6A, whole-genome profiling, LINEAR TOPOLOGICAL CONTIGS, anchored physical map, bacterial artificial chromosome contigs, technical advance
Abstrakt:
Bread wheat (Triticum aestivum L.) is the most important staple food crop for 35% of the world’s population.
International efforts are underway to facilitate an increase in wheat production, of which the International
Wheat Genome Sequencing Consortium (IWGSC) plays an important role. As part of this effort, we
have developed a sequence-based physical map of wheat chromosome 6A using whole-genome profiling
(WGPTM). The bacterial artificial chromosome (BAC) contig assembly tools FINGERPRINTED CONTIG (FPC) and LINEAR
TOPOLOGICAL CONTIG (LTC) were used and their contig assemblies were compared. A detailed investigation of the
contigs structure revealed that LTC created a highly robust assembly compared with those formed by FPC.
The LTC assemblies contained 1217 contigs for the short arm and 1113 contigs for the long arm, with an L50
of 1 Mb. To facilitate in silico anchoring, WGPTM tags underlying BAC contigs were extended by wheat and
wheat progenitor genome sequence information. Sequence data were used for in silico anchoring against
genetic markers with known sequences, of which almost 79% of the physical map could be anchored. Moreover,
the assigned sequence information led to the ‘decoration’ of the respective physical map with 3359
anchored genes. Thus, this robust and genetically anchored physical map will serve as a framework for the
sequencing of wheat chromosome 6A, and is of immediate use for map-based isolation of agronomically
important genes/quantitative trait loci located on this chromosome.
Fulltext: kontaktujte autory z ÚEB
Autoři z ÚEB: Jaroslav Doležel,
Jan Šafář,
Hana Šimková
Čeština
English