Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.)
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Open Access
- 1 January 2013
- journal article
- research article
- Published by Springer Science and Business Media LLC in Genome Biology
- Vol. 14 (5), R41
- https://doi.org/10.1186/gb-2013-14-5-r41
Abstract
Sacred lotus is a basal eudicot with agricultural, medicinal, cultural and religious importance. It was domesticated in Asia about 7,000 years ago, and cultivated for its rhizomes and seeds as a food crop. It is particularly noted for its 1,300-year seed longevity and exceptional water repellency, known as the lotus effect. The latter property is due to the nanoscopic closely packed protuberances of its self-cleaning leaf surface, which have been adapted for the manufacture of a self-cleaning industrial paint, Lotusan. The genome of the China Antique variety of the sacred lotus was sequenced with Illumina and 454 technologies, at respective depths of 101× and 5.2×. The final assembly has a contig N50 of 38.8 kbp and a scaffold N50 of 3.4 Mbp, and covers 86.5% of the estimated 929 Mbp total genome size. The genome notably lacks the paleo-triplication observed in other eudicots, but reveals a lineage-specific duplication. The genome has evidence of slow evolution, with a 30% slower nucleotide mutation rate than observed in grape. Comparisons of the available sequenced genomes suggest a minimum gene set for vascular plants of 4,223 genes. Strikingly, the sacred lotus has 16 COG2132 multi-copper oxidase family proteins with root-specific expression; these are involved in root meristem phosphate starvation, reflecting adaptation to limited nutrient availability in an aquatic environment. The slow nucleotide substitution rate makes the sacred lotus a better resource than the current standard, grape, for reconstructing the pan-eudicot genome, and should therefore accelerate comparative analysis between eudicots and monocots.Keywords
This publication has 31 references indexed in Scilit:
- Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicotsProceedings of the National Academy of Sciences of the United States of America, 2010
- Origin and Diversification of Basic-Helix-Loop-Helix Proteins in PlantsMolecular Biology and Evolution, 2009
- Plants with double genomes might have had a better chance to survive the Cretaceous–Tertiary extinction eventProceedings of the National Academy of Sciences of the United States of America, 2009
- The Sorghum bicolor genome and the diversification of grassesNature, 2009
- Unraveling ancient hexaploidy through multiply-aligned angiosperm gene mapsGenome Research, 2008
- The Arabidopsis NFYA5 Transcription Factor Is Regulated Transcriptionally and Posttranscriptionally to Promote Drought ResistancePlant Cell, 2008
- The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)Nature, 2008
- The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phylaNature, 2007
- TimeTree: a public knowledge-base of divergence times among organismsBioinformatics, 2006
- The map-based sequence of the rice genomeNature, 2005