Dr Abhishek Soni · Plant Genomics

An inward voyage through plants, patterns & possibilities

I read the deep history of life in the genomes of plants — assembling reference genomes, measuring genome-size diversity, and reconstructing the evolutionary tree of the Proteaceae.

EidotheaBanksiaGrevilleaTelopeaMacadamiaProteaceae PHYLOGENY · PROTEACEAE
The Saga So Far — signal received

Reading the genomes of an ancient plant family.

I'm a plant genomics researcher completing my PhD at The University of Queensland, where I study the genomes of the Proteaceae — the ancient family that gave Australia its banksias, grevilleas, waratahs and macadamias. My thesis, Genomic Variations in the Proteaceae, traces how these lineages are built at the level of DNA: assembling reference genomes, measuring genome-size diversity, and reconstructing the family's phylogenetic history under the supervision of Prof. Robert Henry.

Along the way I assembled a haplotype-resolved reference genome for the critically endangered, paleo-endemic Nightcap Oak (Eidothea hardeniana) — combining PacBio HiFi, Oxford Nanopore and Hi-C data to give a threatened tree a genomic foundation for its own conservation.

My path into genomics runs through applied agricultural science — multi-site field trials, horticulture and biosecurity across northern Australia — which is why I care as much about reproducible method and evidence as I do about the deep evolutionary questions.

Genome assembly PacBio HiFi Nanopore Hi-C scaffolding Flow cytometry Phylogenomics RNA-seq Conservation genomics R · Python · HPC
Research — fields of study

Reading life at three scales.

Genomes

Conservation genomics

Building reference genomes for species that don't yet have one. I produced a haplotype-resolved genome of the critically endangered Nightcap Oak from an integrated PacBio HiFi, Nanopore and Hi-C workflow — a foundation for conserving a paleo-endemic tree.

Phylogeny

Proteaceae phylogenomics

Reconstructing how an ancient family diversified — resolving relationships across genera and tracing the origins of the traits that define much of Australia's flora, from plastid assembly to nuclear phylogenomics.

Method

Genome size & flow cytometry

Measuring genomes precisely. I recalibrated flow-cytometry standards for plant genome-size estimation and built protocols that work even from frozen material — improving reproducibility across the field.

Publications — peer-reviewed & open

Selected work.

Manuscripts under review
In review Phylogenetics of the Proteaceae family Soni, A. et al.
In review Genome size diversity in the Proteaceae family Soni, A. et al.
Journey — the trajectory

From field trials to reference genomes.

APR 2022 — MAR 2026
PhD Researcher · Plant Genetics & Genomics
The University of Queensland · Brisbane
Multidisciplinary research across next-generation sequencing, RNA-seq, bioinformatics and flow cytometry; developed reproducible HPC-based workflows for genome assembly, annotation and comparative genomics.
FEB 2025 — APR 2025
Conservation Genomics Placement
Royal Botanic Garden Sydney
Applied genomic and flow-cytometric approaches to threatened Australian plant species, refining genome-size estimation across institutions.
APR 2021 — APR 2022
Senior Technical Officer · Plant Industries
Northern Territory Government · Katherine
Coordinated agricultural R&D and multi-site field trials across up to seven locations, supervising technical staff and supporting crop diversification in northern farming systems.
2019 — 2021
Earlier chapters
Coles (post-harvest QA) · Queensland DAF (integrated weed management)
Fresh-produce quality assurance and biosecurity compliance, alongside master's research on invasive-species management and biocontrol.

Education

2026
PhD · Plant Genetics & Genomics
The University of Queensland — thesis: Genomic Variations in the Proteaceae
2020
MAgrSc · Plant Protection
The University of Queensland

Awards

2022–26
UQ Research Training Program / PhD Scholarship
Competitive doctoral scholarship
2025
UQ PhD Industry Placement Award
Royal Botanic Garden Sydney
2012–17
INSPIRE Scholarship / Fellowship
Awarded to the top 1% of students