Richard J. Edwards

The tiger shark, Galeocerdo cuvier (Peron & Lesueur, 1822), genome reveals genomic and epigenomic signatures of shark evolution and demographic history

The paper generates the first chromosome-scale genome and methylome for the tiger shark, revealing genomic and epigenomic features of shark evolution and population decline.

A pseudo-phased genome assembly for Hemileia vastatrix reveals an isolate-specific chromosomal haploid trisomy

The paper presents a pseudo-phased genome assembly of H. vastatrix isolate Hv178a, revealing a chromosomal trisomy of chr17 associated with increased virulence.

Genomic prediction of disease resistance provides a path to marker assisted restoration in a wetland foundation tree species

The paper uses genomic data to predict disease resistance in Melaleuca quinquenervia, enabling marker-assisted restoration efforts against myrtle rust.

Host adaptation and genome evolution of the broad host range fungal rust pathogen, Austropuccinia psidii

This study presents a chromosome-level genome of Austropuccinia psidii, revealing its unique genomic features and infection dynamics across diverse hosts.

Genomics and resistance assays inform the management of two tree species being devastated by the invasive myrtle rust pathogen

The paper uses genomics and resistance assays to identify resistant individuals in two tree species affected by myrtle rust, highlighting the potential for genetic breeding programs.

A phased chromosome-level genome resource for a myrtle rust susceptible Syzygium luehmannii

This paper presents a phased chromosome-level genome assembly for Syzygium luehmannii, annotated with NLR resistance genes to study susceptibility to myrtle rust.

A genome assembly and annotation for the Australian alpine skink Bassiana duperreyi using long-read technologies

This paper presents a high-quality chromosome-scale genome assembly for the Australian alpine skink Bassiana duperreyi using long-read technologies, achieving high completeness and providing a resource for sex determination and thermolabile sex reversal studies.

Small but mitey: long-read assembly of a streamlined mite genome from contaminated host plant sequencing data

The paper assembles a high-quality mite genome from contaminated host plant sequencing data, revealing genome streamlining and a novel telomere sequence.

Repeat-rich regions cause false positive detection of NUMTs - a case study in amphibians using an improved cane toad reference genome

Parental assigned chromosomes for cultivated cacao provides insights into genetic architecture underlying resistance to vascular streak dieback

The paper uses parentally phased genomes of Theobroma cacao to identify NLR gene clusters at QTLs associated with resistance to vascular streak dieback.

Is developmental plasticity triggered by DNA methylation changes in the invasive cane toad (Rhinella marina)?

The paper investigates whether DNA methylation changes mediate developmental plasticity in cane toad tadpoles exposed to cannibal or alarm cues, finding distinct methylation patterns for each cue type.

Mitochondrial genome analyses uncover intriguing population structure across the invasive trajectory of an iconic invader

The paper analyzes mitochondrial genomes of cane toads across their invasion trajectory, revealing genetic bottlenecks and previously underestimated diversity in introduced populations.

First in family Rhabdiasidae: the reference-guided genome assembly of an invasive parasite, the cane toad lungworm (Rhabdias pseudosphaerocephala)

This paper assembles the first reference genome for Rhabdias pseudosphaerocephala and uses it to investigate genetic diversity and evolutionary placement within the Rhabdiasidae family.

The Australasian dingo archetype: De novo chromosome-length genome assembly, DNA methylome, and cranial morphology

The paper presents a high-quality chromosome-level genome assembly, DNA methylome, and cranial morphology analysis of an Alpine dingo, supporting its status as an archetype for evolutionary studies.

A high-quality pseudo-phased genome for Melaleuca quinquenervia shows allelic diversity of NLR-type resistance genes

The paper presents a chromosome-level pseudo-phased genome for Melaleuca quinquenervia and identifies allelic diversity in NLR-type resistance genes using a novel pipeline.

A chromosome-level genome resource for studying virulence mechanisms and evolution of the coffee rust pathogen Hemileia vastatrix

The paper presents a chromosome-level genome assembly for the coffee rust pathogen Hemileia vastatrix, revealing gene duplication and potential symbiotic or contaminating fungal genomes.

Transcript- and annotation-guided genome assembly of the European starling

The paper presents two genome assemblies for the European starling, using long-read transcript data and homology-based annotation to improve assembly quality and provide a reference for population genetics.

A phased chromosome-level genome and full mitochondrial sequence for the dikaryotic myrtle rust pathogen, Austropuccinia psidii

The paper presents a chromosome-level phased genome and mitochondrial sequence for the dikaryotic rust fungus Austropuccinia psidii, revealing 18 chromosomes per nucleus and introducing a new tool for chromosome comparison.

Desert Dingo (Canis lupus dingo) genome provides insights into their role in the Australian ecosystem.

The paper presents a desert dingo genome assembly and compares it to domestic dog genomes, identifying structural variants and physiological differences linked to ecological roles.

Chromosome-level de novo genome assembly of Telopea speciosissima (New South Wales waratah) using long-reads, linked-reads and Hi-C

This paper presents a chromosome-level genome assembly for Telopea speciosissima using long-reads, linked-reads, and Hi-C data, along with new tools for genome curation and size estimation.

Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome

The paper presents two high-quality Basenji genome assemblies and compares structural variations across three dog breeds, highlighting the impact of reference genome choice on variant detection.