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Isolation and sequence analysis of the wheat B genome subtelomeric DNA.
BMC Genomics. 2009 Sep 05; 10:414.BG

Abstract

BACKGROUND

Telomeric and subtelomeric regions are essential for genome stability and regular chromosome replication. In this work, we have characterized the wheat BAC (bacterial artificial chromosome) clones containing Spelt1 and Spelt52 sequences, which belong to the subtelomeric repeats of the B/G genomes of wheats and Aegilops species from the section Sitopsis.

RESULTS

The BAC library from Triticum aestivum cv. Renan was screened using Spelt1 and Spelt52 as probes. Nine positive clones were isolated; of them, clone 2050O8 was localized mainly to the distal parts of wheat chromosomes by in situ hybridization. The distribution of the other clones indicated the presence of different types of repetitive sequences in BACs. Use of different approaches allowed us to prove that seven of the nine isolated clones belonged to the subtelomeric chromosomal regions. Clone 2050O8 was sequenced and its sequence of 119,737 bp was annotated. It is composed of 33% transposable elements (TEs), 8.2% Spelt52 (namely, the subfamily Spelt52.2) and five non-TE-related genes. DNA transposons are predominant, making up 24.6% of the entire BAC clone, whereas retroelements account for 8.4% of the clone length. The full-length CACTA transposon Caspar covers 11,666 bp, encoding a transposase and CTG-2 proteins, and this transposon accounts for 40% of the DNA transposons. The in situ hybridization data for 2050O8 derived subclones in combination with the BLAST search against wheat mapped ESTs (expressed sequence tags) suggest that clone 2050O8 is located in the terminal bin 4BL-10 (0.95-1.0). Additionally, four of the predicted 2050O8 genes showed significant homology to four putative orthologous rice genes in the distal part of rice chromosome 3S and confirm the synteny to wheat 4BL.

CONCLUSION

Satellite DNA sequences from the subtelomeric regions of diploid wheat progenitor can be used for selecting the BAC clones from the corresponding regions of hexaploid wheat chromosomes. It has been demonstrated for the first time that Spelt52 sequences were involved in the evolution of terminal regions of common wheat chromosomes. Our research provides new insights into the microcollinearity in the terminal regions of wheat chromosomes 4BL and rice chromosome 3S.

Authors+Show Affiliations

Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Science, pr, Lavrentieva 10, Novosibirsk, 630090, Russia. salina@bionet.nsc.ruNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

19732459

Citation

Salina, Elena A., et al. "Isolation and Sequence Analysis of the Wheat B Genome Subtelomeric DNA." BMC Genomics, vol. 10, 2009, p. 414.
Salina EA, Sergeeva EM, Adonina IG, et al. Isolation and sequence analysis of the wheat B genome subtelomeric DNA. BMC Genomics. 2009;10:414.
Salina, E. A., Sergeeva, E. M., Adonina, I. G., Shcherban, A. B., Afonnikov, D. A., Belcram, H., Huneau, C., & Chalhoub, B. (2009). Isolation and sequence analysis of the wheat B genome subtelomeric DNA. BMC Genomics, 10, 414. https://doi.org/10.1186/1471-2164-10-414
Salina EA, et al. Isolation and Sequence Analysis of the Wheat B Genome Subtelomeric DNA. BMC Genomics. 2009 Sep 5;10:414. PubMed PMID: 19732459.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Isolation and sequence analysis of the wheat B genome subtelomeric DNA. AU - Salina,Elena A, AU - Sergeeva,Ekaterina M, AU - Adonina,Irina G, AU - Shcherban,Andrey B, AU - Afonnikov,Dmitry A, AU - Belcram,Harry, AU - Huneau,Cecile, AU - Chalhoub,Boulos, Y1 - 2009/09/05/ PY - 2009/03/13/received PY - 2009/09/05/accepted PY - 2009/9/8/entrez PY - 2009/9/8/pubmed PY - 2009/10/31/medline SP - 414 EP - 414 JF - BMC genomics JO - BMC Genomics VL - 10 N2 - BACKGROUND: Telomeric and subtelomeric regions are essential for genome stability and regular chromosome replication. In this work, we have characterized the wheat BAC (bacterial artificial chromosome) clones containing Spelt1 and Spelt52 sequences, which belong to the subtelomeric repeats of the B/G genomes of wheats and Aegilops species from the section Sitopsis. RESULTS: The BAC library from Triticum aestivum cv. Renan was screened using Spelt1 and Spelt52 as probes. Nine positive clones were isolated; of them, clone 2050O8 was localized mainly to the distal parts of wheat chromosomes by in situ hybridization. The distribution of the other clones indicated the presence of different types of repetitive sequences in BACs. Use of different approaches allowed us to prove that seven of the nine isolated clones belonged to the subtelomeric chromosomal regions. Clone 2050O8 was sequenced and its sequence of 119,737 bp was annotated. It is composed of 33% transposable elements (TEs), 8.2% Spelt52 (namely, the subfamily Spelt52.2) and five non-TE-related genes. DNA transposons are predominant, making up 24.6% of the entire BAC clone, whereas retroelements account for 8.4% of the clone length. The full-length CACTA transposon Caspar covers 11,666 bp, encoding a transposase and CTG-2 proteins, and this transposon accounts for 40% of the DNA transposons. The in situ hybridization data for 2050O8 derived subclones in combination with the BLAST search against wheat mapped ESTs (expressed sequence tags) suggest that clone 2050O8 is located in the terminal bin 4BL-10 (0.95-1.0). Additionally, four of the predicted 2050O8 genes showed significant homology to four putative orthologous rice genes in the distal part of rice chromosome 3S and confirm the synteny to wheat 4BL. CONCLUSION: Satellite DNA sequences from the subtelomeric regions of diploid wheat progenitor can be used for selecting the BAC clones from the corresponding regions of hexaploid wheat chromosomes. It has been demonstrated for the first time that Spelt52 sequences were involved in the evolution of terminal regions of common wheat chromosomes. Our research provides new insights into the microcollinearity in the terminal regions of wheat chromosomes 4BL and rice chromosome 3S. SN - 1471-2164 UR - https://www.unboundmedicine.com/medline/citation/19732459/Isolation_and_sequence_analysis_of_the_wheat_B_genome_subtelomeric_DNA_ L2 - https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-10-414 DB - PRIME DP - Unbound Medicine ER -