Sue-Ann Watson’s research while affiliated with James Cook University and other places

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Publications (2)


Schematic overview of the study workflow.
Hi-C heatmap. Pairwise interactions between pairs of chromosomes throughout H. asinina genome assembly. The figure was generated using Juicer³⁵.
Chromosome ideogram. Each pair of ideograms represents one of the sixteen chromosomes in the H. asinina genome. The numbers at the bottom of each ideogram represent the number of the chromosome (i.e. 1 = chr1). The inner heatmap in the left ideogram of each pair represents the gene density (bin size = 0.5 Mb). The inner heatmap in the right ideogram of each pair represents the methylation density (bin size = 0.5 Mb, probability cut-off of 95%). The top colour scale represents the gene density, and the lower scale represents the methylation density. The figure was generated using RIdeogram⁷⁹.
Circos plot of H. asinina genome characteristics. From the outer to the inner layer: (a) 16 chromosome-level scaffolds (values represent length in Mb), (b) GC content, (c) exon content, (d) 5′ untranslated region (UTR) content, (e) 3′ UTR content, (f) Iso-Seq mapping coverage and a photo of H. asinina female specimen that was used for this study. Generated and calculated using TBtools⁸⁰ on the basis of 1 Mb windows.
GenomeScope profile of H. asinina genome. Len: estimated genome length; uniq: overall length of unique, non-repetitive sequences; het: heterozygosity rate; kcov: mean k-mer coverage for first peak; err: error rate; dup: read duplication rate; k: k-mer length (automatically assigned). The figure was generated using GenomeScope 2.074,75.

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Chromosome-scale genome assembly of the tropical abalone (Haliotis asinina)
  • Article
  • Full-text available

September 2024

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76 Reads

Scientific Data

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Ira Cooke

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Sue-Ann Watson

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[...]

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Jan M. Strugnell

Abalone (family Haliotidae) are an ecologically and economically significant group of marine gastropods that can be found in tropical and temperate waters. To date, only a few Haliotis genomes are available, all belonging to temperate species. Here, we provide the first chromosome-scale abalone genome assembly and the first reference genome of the tropical abalone Haliotis asinina. The combination of PacBio long-read HiFi sequencing and Dovetail’s Omni-C sequencing allowed the chromosome-level assembly of this genome, while PacBio Isoform sequencing across five tissue types enabled the construction of high-quality gene models. This assembly resulted in 16 pseudo-chromosomes spanning over 1.12 Gb (98.1% of total scaffolds length), N50 of 67.09 Mb, the longest scaffold length of 105.96 Mb, and a BUSCO completeness score of 97.6%. This study identified 25,422 protein-coding genes and 61,149 transcripts. In an era of climate change and ocean warming, this genome of a heat-tolerant species can be used for comparative genomics with a focus on thermal resistance. This high-quality reference genome of H. asinina is a valuable resource for aquaculture, fisheries, and ecological studies.

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Figure 3. Chromosome ideogram. Each pair of ideograms represents one of the sixteen
Figure 4. Circos plot of H. asinina genome characteristics. From the outer to the inner layer:
Chromosome-scale genome assembly the tropical abalone ( Haliotis asinina )

April 2024

·

43 Reads

Abalone (family Haliotidae) are an ecologically and economically significant group of marine gastropods that can be found in tropical and temperate waters. To date, only a few Haliotis genomes are available, all belonging to temperate species. Here, we provide the first reference genome of the tropical abalone Haliotis asinina . The combination of PacBio long-read HiFi sequencing and Dovetail Omni-C sequencing allowed the chromosome-level assembly of this genome, while PacBio Isoform sequencing across five tissue types enabled the construction of high-quality gene models. This assembly resulted in 16 pseudo-chromosomes spanning over 1.12 Gb (98.1% of total scaffolds length), N50 of 67.09 Mb, the longest scaffold length of 105.96 Mb, and a BUSCO completeness score of 97.6%. This study identified 25,422 protein-coding genes and 61,149 transcripts. In an era of climate change and ocean warming, this genome of a heat-tolerant species can be used for comparative genomics with a focus on thermal resistance. This high-quality reference genome of H. asinina is a valuable resource for aquaculture, fisheries, and ecological studies.