ArticlePlant science : an international journal of experimental plant biology2015
New insights into the wheat chromosome 4D structure and virtual gene order, revealed by survey pyrosequencing.
Article in Plant science : an international journal of experimental plant biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- The Expression ofPlants (Basel, Switzerland) · 2023Article
- Transcriptional gene silencing in bread wheat (Triticum aestivum L.) and its application to regulate male fertility for hybrid seed production.Plant biotechnology journal · 2022Article
- Exome association analysis sheds light onto leaf rust (Puccinia triticina) resistance genes currently used in wheat breeding (Triticum aestivum L.).Plant biotechnology journal · 2020Article
- The improved assembly of 7DL chromosome provides insight into the structure and evolution of bread wheat.Plant biotechnology journal · 2020Article
- Sequencing flow-sorted short arm of Haynaldia villosa chromosome 4V provides insights into its molecular structure and virtual gene order.BMC genomics · 2017Article
- ATGC transcriptomics: a web-based application to integrate, explore and analyze de novo transcriptomic data.BMC bioinformatics · 2017Article
- Single-molecule real-time transcript sequencing facilitates common wheat genome annotation and grain transcriptome research.BMC genomics · 2015Article
- Characterization of repetitive DNA landscape in wheat homeologous group 4 chromosomes.BMC genomics · 2015Article
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Authors and funding
17 authors.
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Abstract
Survey sequencing of the bread wheat (Triticum aestivum L.) genome (AABBDD) has been approached through different strategies delivering important information. However, the current wheat sequence knowledge is not complete. The aim of our study is to provide different and complementary set of data for chromosome 4D. A survey sequence was obtained by pyrosequencing of flow-sorted 4DS (7.2×) and 4DL (4.1×) arms. Single ends (SE) and long mate pairs (LMP) reads were assembled into contigs (223Mb) and scaffolds (65Mb) that were aligned to Aegilops tauschii draft genome (DD), anchoring 34Mb to chromosome 4. Scaffolds annotation rendered 822 gene models. A virtual gene order comprising 1973 wheat orthologous gene loci and 381 wheat gene models was built. This order was largely consistent with the scaffold order determined based on a published high density map from the Ae. tauschii chromosome 4, using bin-mapped 4D ESTs as a common reference. The virtual order showed a higher collinearity with homeologous 4B compared to 4A. Additionally, a virtual map was constructed and ∼5700 genes (∼2200 on 4DS and ∼3500 on 4DL) predicted. The sequence and virtual order obtained here using the 454 platform were compared with the Illumina one used by the IWGSC, giving complementary information.
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