Development of genomic resources for Citrus clementina: Characterization of three deep-coverage BAC libraries and analysis of 46,000 BAC end sequences
Identifieur interne : 000134 ( France/Analysis ); précédent : 000133; suivant : 000135Development of genomic resources for Citrus clementina: Characterization of three deep-coverage BAC libraries and analysis of 46,000 BAC end sequences
Auteurs : Javier Terol [Espagne] ; M Angel Naranjo [Espagne] ; Patrick Ollitrault [France] ; Manuel Talon [Espagne]Source :
- BMC Genomics [ 1471-2164 ] ; 2008.
Abstract
Citrus species constitute one of the major tree fruit crops of the subtropical regions with great economic importance. However, their peculiar reproductive characteristics, low genetic diversity and the long-term nature of tree breeding mostly impair citrus variety improvement. In woody plants, genomic science holds promise of improvements and in the
Three genomic BAC libraries of
In this work, we report the characterization of three BAC libraries from
Url:
DOI: 10.1186/1471-2164-9-423
PubMed: 18801166
PubMed Central: 2561056
Affiliations:
Links toward previous steps (curation, corpus...)
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- to stream Pmc, to step Curation: 000965
- to stream Pmc, to step Checkpoint: 001080
- to stream Ncbi, to step Merge: 000882
- to stream Ncbi, to step Curation: 000882
- to stream Ncbi, to step Checkpoint: 000882
- to stream Main, to step Merge: 002119
- to stream Main, to step Curation: 002060
- to stream Main, to step Exploration: 002060
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Links to Exploration step
PMC:2561056Le document en format XML
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Development of genomic resources for <italic>Citrus clementina</italic>
: Characterization of three deep-coverage BAC libraries and analysis of 46,000 BAC end sequences</title>
<author><name sortKey="Terol, Javier" sort="Terol, Javier" uniqKey="Terol J" first="Javier" last="Terol">Javier Terol</name>
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<author><name sortKey="Naranjo, M Angel" sort="Naranjo, M Angel" uniqKey="Naranjo M" first="M Angel" last="Naranjo">M Angel Naranjo</name>
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<author><name sortKey="Talon, Manuel" sort="Talon, Manuel" uniqKey="Talon M" first="Manuel" last="Talon">Manuel Talon</name>
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<country xml:lang="fr">Espagne</country>
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<front><div type="abstract" xml:lang="en"><sec><title>Background</title>
<p>Citrus species constitute one of the major tree fruit crops of the subtropical regions with great economic importance. However, their peculiar reproductive characteristics, low genetic diversity and the long-term nature of tree breeding mostly impair citrus variety improvement. In woody plants, genomic science holds promise of improvements and in the <italic>Citrus </italic>
genera the development of genomic tools may be crucial for further crop improvements. In this work we report the characterization of three BAC libraries from Clementine (<italic>Citrus clementina</italic>
), one of the most relevant citrus fresh fruit market cultivars, and the analyses of 46.000 BAC end sequences. Clementine is a diploid plant with an estimated haploid genome size of 367 Mb and 2n = 18 chromosomes, which makes feasible the use of genomics tools to boost genetic improvement.</p>
</sec>
<sec><title>Results</title>
<p>Three genomic BAC libraries of <italic>Citrus clementina </italic>
were constructed through <italic>Eco</italic>
RI, <italic>Mbo</italic>
I and <italic>Hind</italic>
III digestions and 56,000 clones, representing an estimated genomic coverage of 19.5 haploid genome-equivalents, were picked. BAC end sequencing (BES) of 28,000 clones produced 28.1 Mb of genomic sequence that allowed the identification of the repetitive fraction (12.5% of the genome) and estimation of gene content (31,000 genes) of this species. BES analyses identified 3,800 SSRs and 6,617 putative SNPs. Comparative genomic studies showed that citrus gene homology and microsyntheny with <italic>Populus trichocarpa </italic>
was rather higher than with <italic>Arabidopsis thaliana</italic>
, a species phylogenetically closer to citrus.</p>
</sec>
<sec><title>Conclusion</title>
<p>In this work, we report the characterization of three BAC libraries from <italic>C. clementina</italic>
, and a new set of genomic resources that may be useful for isolation of genes underlying economically important traits, physical mapping and eventually crop improvement in <italic>Citrus </italic>
species. In addition, BAC end sequencing has provided a first insight on the basic structure and organization of the citrus genome and has yielded valuable molecular markers for genetic mapping and cloning of genes of agricultural interest. Paired end sequences also may be very helpful for whole-genome sequencing programs.</p>
</sec>
</div>
</front>
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