Robert James Henry

Poly Pipeline is a spatial transcriptomics workflow validated across polyploid and diploid organisms, demonstrating effectiveness in clustering and co-expression network analysis.

The paper reports chromosome-scale genome assemblies for mango cultivars Kensington Pride and M. laurina, identifying structural variations and genes related to anthracnose resistance and volatile compound biosynthesis.

This study uses genomic and pedigree-based methods to predict breeding values for nut and kernel traits in almond, finding that genomic methods provide slightly better predictions than pedigree-based methods.

The paper uses spatial transcriptomics to investigate the spatial expression of C4 photosynthesis-related genes in wheat grain, finding tissue-specific expression patterns that support the C4 wheat hypothesis.

This study analyzes genetic diversity and heterozygosity in Macadamia species using whole-genome sequencing, finding reduced diversity in domesticated varieties and a correlation between heterozygosity and yield efficiency.

This study uses spatial transcriptomics to map gene expression in developing wheat seeds, revealing radial patterns in the endosperm and subgenome bias in key genes.

PhyloForge integrates micro and macroevolutionary data using diverse genomic signals, offering a versatile tool for phylogenetic analysis across species.

This study identifies chromosomal inversions in mango genomes and shows they accumulate both deleterious and favorable loci, impacting breeding traits.

This paper recalibrates flow cytometry standards for plant genome size estimation using a gapless rice genome assembly, revealing significant overestimations in previous estimates for several plant species.

This study sequenced 166 Macadamia genotypes to analyze genetic diversity and phylogenetic relationships, revealing extensive reticulate evolution and chloroplast capture events.

This paper introduces a flow cytometry protocol using frozen plant material to accurately and precisely measure genome size, eliminating the need for fresh material and enabling efficient genome sequencing.

The paper presents an improved haplotype-resolved genome of rice, identifying over 3,000 new genes through enhanced sequencing technology.

The paper presents high-quality genome assemblies for four Macadamia species, revealing evolutionary history and gene content differences to support plant breeding.

The paper identifies sequence variations in anthocyanin biosynthesis and sweetcorn genes between a novel purple-pericarp super-sweetcorn line and its parents.

The paper analyzes the genome and population genomics of Coffea arabica to reveal its diversification history and breeding-related genetic changes.

The paper analyzes allele-specific expression in sugarcane hybrids using a Beta-Binomial model, finding higher ASE frequencies in hybrids and genotype-specific ASEGs.

The paper reports a high-quality chromosome-level genome assembly of the endangered Macadamia jansenii, revealing low genetic diversity and identifying genes relevant to commercial traits and evolutionary studies.

This paper reports the de novo chromosome-level assembly of the Macadamia jansenii genome using long-read sequencing and HiFiasm, achieving near-complete chromosomes without additional mapping data.

The paper compares recent long-read sequencing methods for plant genome assembly, finding that increased coverage improves assembly quality, though species-specific requirements exist.

This study compares three long-read sequencing technologies for de novo assembly of the Macadamia jansenii genome, evaluating contiguity, accuracy, completeness, cost, and DNA requirements.

The paper presents a chromosome-scale genome assembly and annotation for macadamia, improving contiguity and coverage for genomic studies.