Genome sequencing, assembly and annotation of the carob tree, Ceratonia siliqua (Eudicots:Fabaceae)
Bibi, A. C.; Ioannidis, P.; Bazakos, C.; Kalantidis, K.
Show abstract
The carob tree, Ceratonia siliqua, is an evergreen tree that belongs to the family of Fabaceae. It has been cultivated for thousands of years in Mediterranean countries and thus, has a considerable impact on the nutrition of humans as well as other animals of this region. Despite its importance, genomic resources are still scarce for this plant species. To fill this gap, we undertook the sequencing, assembly and annotation of the carob tree genome, which resulted in the first, nearly chromosome-level assembly for this plant species. The total assembly size is 492 Mbp which is close to the previously estimated genome size. The assembly N50 is 34.99 Mbp, thus showing a high contiguity, which is also evident from the fact that >98% of the assembly is contained in as few as 17 very large contigs. Moreover, both the genome sequence as well as the predicted gene set contain more than 96% of conserved, full-length BUSCOs. Finally, a comparative orthology analysis with 10 other plant species showed that the vast majority of the predicted carob tree genes have orthologs in the other plants and only a small fraction of them appears to be species-specific. Additional analyses are in progress for a more detailed study of the agronomic traits of this important legume.
Matching journals
The top 10 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- The genome of the endangered Macadamia jansenii displays little diversity but represents an 1 important genetic resource for plant breeding 96%
- Genome features of common vetch (Vicia sativa) in natural habitats 95%
- Genome and tissue-specific transcriptome of the tropical milkweed (Asclepias curassavica) 95%
Similar papers in this journal
- The molecular basis of Kale domestication: Transcription profiling of leaves and meristems provides new insights into the evolution of a Brassica oleracea vegetative morphotype 96%
- Temporal Gene Expression in Apical Culms Shows Early Changes in Cell Wall Biosynthesis Genes in Sugarcane 96%
- Oat chromosome and genome evolution defined by widespread terminal intergenomic translocations in polyploids 95%
Similar papers in this journal
- Genome sequencing, de novo assembly and annotation of the commercially important bamboo, Bambusa tulda Roxb. 95%
- A new genome assembly of the pea cultivar Cameor provides resources for functional genomics and genetics 95%
- Chromosome-scale genome assembly of the diploid oat Avena longiglumis reveals the landscape of repetitive sequences, genes and chromosome evolution in grasses 94%
Similar papers in this journal
- A revised view on the evolution of glutamine synthetase isoenzymes in plants 97%
- Genome diversity and phylogeny of the section Alatae of genus Lemna (Lemnaceae), comprising the presumed species Lemna aequinoctialis, Le. perpusilla and Le. aoukikusa 96%
- Comparative Genomics of Six Juglans Species Reveals Patterns of Disease-associated Gene Family Contractions. 95%
Similar papers in this journal
- Genomic and transcriptomic analysis of sacred fig (Ficus religiosa) 97%
- Draft Genome Sequence and intraspecific diversification of the wild crop relative Brassica cretica Lam. using demographic model selection 96%
- Analysis of flavonol regulator evolution in the Brassicaceae reveals MYB12, MYB111 and MYB21 duplications associated with MYB11 and MYB24 gene loss 95%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.