The genome of the endangered Macadamia jansenii displays little diversity but represents an important genetic resource for plant breeding

Plant Direct

Wei Tian¹  Jasmine Haimovitz²  Valentine Murigneux³  Agnelo Furtado⁴  Priyanka Sharma⁴  Bruce Topp⁴  Ardashir Kharabian Masouleh⁴  Mobashwer Alam⁴  Robert J. Henry⁴  Catherine J. Nock⁵ 

[1] BGI‐Shenzhen Shenzhen Guangdong Province China;Dovetail Genomics Scotts Valley CA USA;Genome Innovation Hub University of Queensland Brisbane Australia;Queensland Alliance for Agriculture and Food Innovation University of Queensland Brisbane Australia;Southern Cross Plant Science Southern Cross University Lismore New South Wales Australia;

关键词: endangered species;    genome assembly;    genome diversity;    genome sequencing;    Proteaceae;    wild species;   

DOI  :  10.1002/pld3.364

来源: DOAJ

【 摘 要 】

Abstract Macadamia, a recently domesticated expanding nut crop in the tropical and subtropical regions of the world, is one of the most economically important genera in the diverse and widely adapted Proteaceae family. All four species of Macadamia are rare in the wild with the most recently discovered, M. jansenii, being endangered. The M. jansenii genome has been used as a model for testing sequencing methods using a wide range of long read sequencing techniques. Here, we report a chromosome level genome assembly, generated using a combination of Pacific Biosciences sequencing and Hi‐C, comprising 14 pseudo‐molecules, with a N50 of 52 Mb and a total genome assembly size of 758 Mb of which 56% is repetitive. Completeness assessment revealed that the assembly covered −97.1% of the conserved single copy genes. Annotation predicted 31,591 protein coding genes and allowed the characterization of genes encoding biosynthesis of cyanogenic glycosides, fatty acid metabolism, and anti‐microbial proteins. Re‐sequencing of seven other genotypes confirmed low diversity and low heterozygosity within this endangered species. Important morphological characteristics of this species such as small tree size and high kernel recovery suggest that M. jansenii is an important source of these commercial traits for breeding. As a member of a small group of families that are sister to the core eudicots, this high‐quality genome also provides a key resource for evolutionary and comparative genomics studies.

【 授权许可】

Unknown