Publications by authors named "J Prebble"

Island and mountain systems represent natural laboratories for studies of species radiations, but they often present several challenges for phylogenetic inference and species delimitation. The southern hemisphere forget-me-nots (Myosotis, Boraginaceae) comprise a geologically recent radiation centred in Aotearoa New Zealand, a mountainous archipelago, with about 50 species that are morphologically and ecologically divergent but lack genetic variation sufficient to resolve phylogenetic relationships and species boundaries using standard DNA Sanger sequencing markers, AFLPs, or microsatellites. Many of these Myosotis species are geographically restricted in alpine areas, uncommon or threatened, have polyploid and dysploid genomes, and are of high taxonomic and conservation priority.

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Rewarewa (Knightia excelsa, Proteaceae) is a tree species endemic to Aotearoa New Zealand, with a natural distribution spanning Te Ika-a-Māui (North Island) and the top of Te Waipounamu (South Island). We used the pseudo-chromosome genome assembly of rewarewa as a reference and whole genome pooled sequencing from 35 populations sampled across Aotearoa New Zealand, including trees growing on Māori-owned land, to identify 1,443,255 single nucleotide polymorphisms (SNPs). Four genetic clusters located in the northern North Island (NNI), eastern North Island (NIE), western and southern North Island (NIWS), and the South Island (SI) were identified.

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The very similar appearance of pollen of the New Zealand Myrtaceous taxa Leptospermum scoparium s.l. (mānuka) and Kunzea spp.

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Early to Middle Miocene sea-level oscillations of approximately 40-60 m estimated from far-field records are interpreted to reflect the loss of virtually all East Antarctic ice during peak warmth. This contrasts with ice-sheet model experiments suggesting most terrestrial ice in East Antarctica was retained even during the warmest intervals of the Middle Miocene. Data and model outputs can be reconciled if a large West Antarctic Ice Sheet (WAIS) existed and expanded across most of the outer continental shelf during the Early Miocene, accounting for maximum ice-sheet volumes.

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Article Synopsis
  • Researchers used long read sequencing data from the Knightia excelsa tree, which is important culturally and commercially in New Zealand, to investigate how data type and workflows affect genome assembly accuracy.
  • They found that longer read lengths with lower coverage tended to yield better assemblies compared to shorter reads with higher coverage, highlighting the need for tailored assembly workflows.
  • Their study emphasized the significance of quality metrics in genome assembly and indicated that problems in initial assemblies could not always be fixed by additional data, underscoring the importance of high-quality initial contigs.
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