Genomic patterns of species diversity and divergence in Eucalyptus

Corey J Hudson; Jules S Freeman; Alexander A Myburg; Brad M Potts; Rene E Vaillancourt

doi:10.1111/nph.13316

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Genomic patterns of species diversity and divergence in Eucalyptus

Journal article

Peer reviewed

Genomic patterns of species diversity and divergence in Eucalyptus

Corey J Hudson, Jules S Freeman, Alexander A Myburg, Brad M Potts and Rene E Vaillancourt

New Phytologist, Vol.206(4), pp.1378-1390

2015

DOI: https://doi.org/10.1111/nph.13316

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Abstract

eucalyptus

gene density

genome-scan

genomic architecture

outlier

population genomics

speciation

tandem gene duplication

Summary: • We examined genome-wide patterns of DNA sequence diversity and divergence among six species of the important tree genus Eucalyptus and investigated their relationship with genomic architecture. • Using c. 90 range-wide individuals of each Eucalyptus species (E. grandis, E. urophylla, E. globulus, E. nitens, E. dunnii and E. camaldulensis), genetic diversity and divergence were estimated from 2840 polymorphic diversity arrays technology markers covering the 11 chromosomes. Species differentiating markers (SDMs) identified in each of 15 pairwise species comparisons, along with species diversity (HHW) and divergence (FST), were projected onto the E. grandis reference genome. • Across all species comparisons, SDMs totalled 1.1-5.3% of markers and were widely distributed throughout the genome. Marker divergence (FST and SDMs) and diversity differed among and within chromosomes. Patterns of diversity and divergence were broadly conserved across species and significantly associated with genomic features, including the proximity of markers to genes, the relative number of clusters of tandem duplications, and gene density within or among chromosomes. • These results suggest that genomic architecture influences patterns of species diversity and divergence in the genus. This influence is evident across the six species, encompassing diverse phylogenetic lineages, geography and ecology.

Details

Title: Genomic patterns of species diversity and divergence in Eucalyptus
Authors: Corey J Hudson (Author) - University of Tasmania
Jules S Freeman (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Alexander A Myburg (Author) - University of Pretoria, South Africa
Brad M Potts (Author) - University of Tasmania
Rene E Vaillancourt (Author) - University of Tasmania
Publication details: New Phytologist, Vol.206(4), pp.1378-1390
Publisher: Wiley-Blackwell Publishing Ltd.
Date published: 2015
DOI: 10.1111/nph.13316
ISSN: 0028-646X
Organisation Unit: University of the Sunshine Coast, Queensland
Language: English
Record Identifier: 99449266902621
Output Type: Journal article

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Collaboration types: Domestic collaboration; International collaboration
Web Of Science research areas: Plant Sciences