Sarah B. Carey

Identifying, phasing, and structurally annotating sex chromosomes for genome assemblies using CBS-tools

CBS-tools identifies, phases, and annotates sex chromosomes using k-mer analysis from whole-genome sequencing data across multiple species.

Chromosome-level genome assemblies and annotations of Amaranthus spinosus, Amaranthus acanthochiton, Amaranthus arenicola, and Amaranthus floridanus

The paper presents chromosome-level genome assemblies for four Amaranthus species, revealing conserved sex chromosome inversions and providing resources for evolutionary and agronomic research.

An X-linked sex determination mechanism in cannabis and hop

The paper identifies an X-linked sex determination mechanism in cannabis and hop, showing that an X-linked gene involved in ethylene biosynthesis controls female inflorescence development, while the Y chromosome lacks clear sex-determining genes.

Dissecting the regulatory and genomic drivers of the dichogamy determining G-locus in pecan

The paper identifies the genetic drivers of the G-locus in pecan trees using pangenome-integrated quantitative genomics, revealing a Mendelian super-gene responsible for dichogamy.

A haplotype-resolved, chromosome-scale genome assembly for the southern live oak, Quercus virginiana

The paper presents a chromosome-scale, haplotype-resolved genome assembly for Quercus virginiana, contributing to genomic resources for studying hybridization and structural genomic changes in oaks.

Two independent origins of XY sex chromosomes in Asparagus

This study compares the evolution of XY sex chromosomes in two closely related Asparagus clades, revealing distinct genetic mechanisms and timing for the origin of dioecy.

The architecture of resilience: a genome assembly of Myrothamnus flabellifolia sheds light on desiccation tolerance and sex determination

This study presents a chromosome-level genome of Myrothamnus flabellifolia and transcriptomic data, revealing its desiccation tolerance mechanisms and sex determination system.

Testing for the genomic footprint of conflict between life stages in an angiosperm and moss species

The paper examines genomic signals of selection across life stages in plants, finding stronger purifying selection on unbiased genes and synergistic pleiotropy rather than antagonistic pleiotropy.

Domesticated cannabinoid synthases amid a wild mosaic cannabis pangenome

This study constructs a chromosome-scale cannabis pangenome to explore genomic diversity and evolution, revealing low diversity in cannabinoid synthase genes and high diversity in other regions.

Parameterizing Pantherinae: de novo mutation rate estimates from Panthera and Neofelis pedigrees

The paper estimates de novo mutation rates in Panthera and Neofelis species using pedigrees, finding rates between 0.5 and 1.4e-08 per generation per base pair.

ZW sex chromosome structure in Amborella trichopoda

The paper presents a haplotype-resolved genome assembly of Amborella trichopoda, identifying a young ZW sex chromosome system with a 3-Megabase sex-determination region that shows limited degeneration.

A chromosome-scale assembly for dAnjou pear

This paper presents a chromosome-scale, phased genome assembly for the dAnjou pear, revealing gene content and duplication patterns.

A phased, chromosome-scale genome of 'Honeycrisp' apple (Malus domestica)

The paper presents a fully phased, chromosome-scale genome of Honeycrisp apple, providing insights into genetic mechanisms of horticulturally important traits.