The genome of Prunus mume
Top Cited Papers
Open Access
- 1 January 2012
- journal article
- research article
- Published by Springer Science and Business Media LLC in Nature Communications
- Vol. 3 (1), 1318
- https://doi.org/10.1038/ncomms2290
Abstract
Prunus mume (mei), which was domesticated in China more than 3,000 years ago as ornamental plant and fruit, is one of the first genomes among Prunus subfamilies of Rosaceae been sequenced. Here, we assemble a 280M genome by combining 101-fold next-generation sequencing and optical mapping data. We further anchor 83.9% of scaffolds to eight chromosomes with genetic map constructed by restriction-site-associated DNA sequencing. Combining P. mume genome with available data, we succeed in reconstructing nine ancestral chromosomes of Rosaceae family, as well as depicting chromosome fusion, fission and duplication history in three major subfamilies. We sequence the transcriptome of various tissues and perform genome-wide analysis to reveal the characteristics of P. mume, including its regulation of early blooming in endodormancy, immune response against bacterial infection and biosynthesis of flower scent. The P. mume genome sequence adds to our understanding of Rosaceae evolution and provides important data for improvement of fruit trees.Keywords
This publication has 48 references indexed in Scilit:
- Ectopic expression of a novel peach (Prunus persica) CBF transcription factor in apple (Malus × domestica) results in short-day induced dormancy and increased cold hardinessPlanta, 2011
- The genome of woodland strawberry (Fragaria vesca)Nature Genetics, 2010
- The genome of the domesticated apple (Malus × domestica Borkh.)Nature Genetics, 2010
- Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiationNature Biotechnology, 2010
- TopHat: discovering splice junctions with RNA-SeqBioinformatics, 2009
- The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phylaNature, 2007
- PAML 4: Phylogenetic Analysis by Maximum LikelihoodMolecular Biology and Evolution, 2007
- Development of microsatellite markers in peach [Prunus persica (L.) Batsch] and their use in genetic diversity analysis in peach and sweet cherry (Prunus avium L.)Theoretical and Applied Genetics, 2002
- BLAT—The BLAST-Like Alignment ToolGenome Research, 2002
- Receptor-like kinases from Arabidopsis form a monophyletic gene family related to animal receptor kinasesProceedings of the National Academy of Sciences of the United States of America, 2001