RT article
T1 Development of genomic resources for Citrus clementina: Characterization of three deep-coverage BAC libraries and analysis of 46,000 BAC end sequences
A1 Terol, Javier
A1 Naranjo, Miguel A.
A1 Ollitrault, Patrick
A1 Talón, Manuel
K1 Citrus Species
K1 Putative SNPs
K1 Pinot Noir
K1 Citrus Genome
K1 Putative Code Region
K1 F30  Plant genetics and breeding
K1 Genetic improvement
K1 Citrus
K1 Clementines
K1 Genetic resources
AB Background: Citrus species constitute one of the major tree fruit crops of the subtropical regionswith great economic importance. However, their peculiar reproductive characteristics, low geneticdiversity and the long-term nature of tree breeding mostly impair citrus variety improvement. Inwoody plants, genomic science holds promise of improvements and in the Citrus genera thedevelopment of genomic tools may be crucial for further crop improvements. In this work wereport the characterization of three BAC libraries from Clementine (Citrus clementina), one of themost 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 = 18chromosomes, which makes feasible the use of genomics tools to boost genetic improvement.Results: Three genomic BAC libraries of Citrus clementina were constructed through EcoRI, MboIand HindIII digestions and 56,000 clones, representing an estimated genomic coverage of 19.5haploid genome-equivalents, were picked. BAC end sequencing (BES) of 28,000 clones produced28.1 Mb of genomic sequence that allowed the identification of the repetitive fraction (12.5% of thegenome) and estimation of gene content (31,000 genes) of this species. BES analyses identified3,800 SSRs and 6,617 putative SNPs. Comparative genomic studies showed that citrus genehomology and microsyntheny with Populus trichocarpa was rather higher than with Arabidopsisthaliana, a species phylogenetically closer to citrus.Conclusion: In this work, we report the characterization of three BAC libraries from C.clementina, and a new set of genomic resources that may be useful for isolation of genes underlyingeconomically important traits, physical mapping and eventually crop improvement in Citrus species.In addition, BAC end sequencing has provided a first insight on the basic structure and organizationof the citrus genome and has yielded valuable molecular markers for genetic mapping and cloningof genes of agricultural interest. Paired end sequences also may be very helpful for whole-genomesequencing programs.
PB Springer Nature
SN 1471-2164
YR 2008
FD 2008
LK http://hdl.handle.net/20.500.11939/6285
UL http://hdl.handle.net/20.500.11939/6285
LA en
NO Terol, J., Naranjo, M. A., Ollitrault, P., & Talon, M. (2008). Development of genomic resources for Citrus clementina: characterization of three deep-coverage BAC libraries and analysis of 46,000 BAC end sequences. BMC genomics, 9(1), 423.
DS MINDS@UW
RD Feb 4, 2023