A whole genome assembly of Leptospermum scoparium (Myrtaceae) for mānuka research

We assembled the genome of Leptospermum scoparium 'Crimson Glory' using a combination of Illumina paired-end sequencing, high-throughput chromosome conformation capture (Hi-C) and high density genetic mapping. As 'Crimson Glory' is a variety of mānuka, this is the first genome as...

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Bibliographic Details
Published in:New Zealand journal of crop and horticultural science 2019-10, Vol.47 (4), p.233-260
Main Authors: Thrimawithana, Amali H., Jones, Dan, Hilario, Elena, Grierson, Ella, Ngo, Hanh M., Liachko, Ivan, Sullivan, Shawn, Bilton, Timothy P., Jacobs, Jeanne M. E., Bicknell, Ross, David, Charles, Deng, Cecilia, Nieuwenhuizen, Niels, Lopez-Girona, Elena, Tobias, Peri A., Morgan, Ed, Perry, Nigel B., Lewis, David H., Crowhurst, Ross, Davies, Kevin M., Chagné, David, Schwinn, Kathy E.
Format: Article
Language:English
Subjects:
Assembly
Biochemical composition
Biological activity
Biosynthesis
Chromosomes
Disease resistance
Eucalyptus
Flowering
Foliage
Gene mapping
Gene sequencing
Genes
Genetic control
Genomes
Hi-C
Leptospermum scoparium
metagenome
Microbiomes
Myrtaceae
Nectar
Nucleotide sequence
Phenylpropanoids
polyketide
Synteny
tea tree
terpene
Terpenes
triketone
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Summary:We assembled the genome of Leptospermum scoparium 'Crimson Glory' using a combination of Illumina paired-end sequencing, high-throughput chromosome conformation capture (Hi-C) and high density genetic mapping. As 'Crimson Glory' is a variety of mānuka, this is the first genome assembly for a plant species culturally recognised as a treasure (taonga) by the indigenous Māori of Aotearoa New Zealand. The mānuka genome spans a total of 297 Mbp organised in 11 pseudo-chromosomes that are syntenic with the Eucalyptus genome. A large proportion of the genome assembly corresponds to fungal and bacterial sequences, indicating the presence of an associated microbiome. A total of 31,220 protein-coding gene models were detected throughout the genome, including genes involved in biosynthesis of biologically active phenylpropanoids, triketones and terpenes, as well as genes involved in biotic resistance. The mānuka genome sequence will help shed new light on the genetic control of unique characters such as nectar and foliage biochemical composition, flowering time and disease resistance.
ISSN:0114-0671
1175-8783
DOI:10.1080/01140671.2019.1657911