A first survey of the rye (Secale cereale) genome composition through BAC end sequencing of the short arm of chromosome 1R

Autor: Tamas Lelley, Pavla Suchánková, Robert Kofler, Catherine Feuillet, Jan Šafář, Jan Bartoš, David Kopecký, Hana Šimková, Christopher D. Town, Jaroslav Doležel, M. Havránková, Etienne Paux
Přispěvatelé: Laboratory of Molecular Cytogenetics and Cytometry, Institute of Experimental Botany of the ASCR, Génétique Diversité et Ecophysiologie des Céréales (GDEC), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Institut National de la Recherche Agronomique (INRA), Department for Agrobiotechnology, Institute for Plant Production Biotechnology, Universität für Bodenkultur Wien [Vienne, Autriche] (BOKU), Department of Cell Biology and Genetics, Palacky University, Centre of the Region Haná for Biotechnological and Agricultural Research [Univ Palacký] (CRH), Faculty of Science [Univ Palacký], Palacky University Olomouc-Palacky University Olomouc-Institute of Experimental Botany of the Czech Academy of Sciences (IEB / CAS), Czech Academy of Sciences [Prague] (CAS)-Czech Academy of Sciences [Prague] (CAS)-Faculty of Science [Univ Palacký], Czech Academy of Sciences [Prague] (CAS)-Czech Academy of Sciences [Prague] (CAS), Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP), Palacky University Olomouc, No. 521/06/P412 and 521/05/ H013 from the Czech Science Foundation and grant No. LC06004 from the Ministry of Education, Youth and Sports of the Czech Republic, Universität für Bodenkultur Wien = University of Natural Resources and Life [Vienne, Autriche] (BOKU)
Jazyk: angličtina
Rok vydání: 2008
Předmět:
0106 biological sciences
Secale
Genetic Markers
Chromosomes
Artificial
Bacterial
DNA
Plant
Molecular Sequence Data
Plant Science
Genes
Plant
01 natural sciences
Genome
Chromosomes
Plant
03 medical and health sciences
lcsh:Botany
Sequence Homology
Nucleic Acid
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology
Genomic library
chromosome
secale céréale
Triticeae
In Situ Hybridization
Fluorescence
030304 developmental biology
Gene Library
Repetitive Sequences
Nucleic Acid
2. Zero hunger
Genetics
0303 health sciences
Vegetal Biology
STRUCTURE DU GENOME
biology
Base Sequence
digestive
oral
and skin physiology
Physical Chromosome Mapping
Computational Biology
food and beverages
GENETIQUE
DONNEE SEQUENCE MOLECULAIRE
SEQUENCE REPETITIVE ACIDE NUCLEIQUE
Triticale
biology.organism_classification
lcsh:QK1-989
Genetic marker
GC-content
Biologie végétale
Genome
Plant
010606 plant biology & botany
Research Article
Zdroj: BMC Plant Biology
BMC Plant Biology, BioMed Central, 2008, 8 (95), 12 p. ⟨10.1186/1471-2229-8-95⟩
BMC Plant Biology 95 (8), 12 p.. (2008)
BMC Plant Biology, Vol 8, Iss 1, p 95 (2008)
ISSN: 1471-2229
Popis: Background Rye (Secale cereale L.) belongs to tribe Triticeae and is an important temperate cereal. It is one of the parents of man-made species Triticale and has been used as a source of agronomically important genes for wheat improvement. The short arm of rye chromosome 1 (1RS), in particular is rich in useful genes, and as it may increase yield, protein content and resistance to biotic and abiotic stress, it has been introgressed into wheat as the 1BL.1RS translocation. A better knowledge of the rye genome could facilitate rye improvement and increase the efficiency of utilizing rye genes in wheat breeding. Results Here, we report on BAC end sequencing of 1,536 clones from two 1RS-specific BAC libraries. We obtained 2,778 (90.4%) useful sequences with a cumulative length of 2,032,538 bp and an average read length of 732 bp. These sequences represent 0.5% of 1RS arm. The GC content of the sequenced fraction of 1RS is 45.9%, and at least 84% of the 1RS arm consists of repetitive DNA. We identified transposable element junctions in BESs and developed insertion site based polymorphism markers (ISBP). Out of the 64 primer pairs tested, 17 (26.6%) were specific for 1RS. We also identified BESs carrying microsatellites suitable for development of 1RS-specific SSR markers. Conclusion This work demonstrates the utility of chromosome arm-specific BAC libraries for targeted analysis of large Triticeae genomes and provides new sequence data from the rye genome and molecular markers for the short arm of rye chromosome 1.
Databáze: OpenAIRE
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