The pan-genome and local adaptation of Arabidopsis thaliana

M Kang, H Wu, H Liu, W Liu, M Zhu, Y Han… - Nature …, 2023 - nature.com
Arabidopsis thaliana serves as a model species for investigating various aspects of plant
biology. However, the contribution of genomic structural variations (SVs) and their associate …

A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species range

Q Lian, B Huettel, B Walkemeier, B Mayjonade… - Nature Genetics, 2024 - nature.com
Although originally primarily a system for functional biology, Arabidopsis thaliana has, owing
to its broad geographical distribution and adaptation to diverse environments, developed …

Dynamics of accessible chromatin regions and subgenome dominance in octoploid strawberry

C Fang, N Jiang, SJ Teresi, AE Platts… - Nature …, 2024 - nature.com
Subgenome dominance has been reported in diverse allopolyploid species, where genes
from one subgenome are preferentially retained and are more highly expressed than those …

Pangenome of water caltrop reveals structural variations and asymmetric subgenome divergence after allopolyploidization

X Zhang, Y Chen, L Wang, Y Yuan, M Fang… - Horticulture …, 2023 - academic.oup.com
Abstract Water caltrop (Trapa spp., Lythraceae) is a traditional but currently underutilized
non-cereal crop. Here, we generated chromosome-level genome assemblies for the two …

Allopolyploidy expanded gene content but not pangenomic variation in the hexaploid oilseed Camelina sativa

KA Bird, JR Brock, PP Grabowski, AM Harder… - Genetics, 2025 - academic.oup.com
Myosin storage myopathy (MSM) is a rare skeletal muscle disorder caused by mutations in
the slow muscle/β-cardiac myosin heavy chain (MHC) gene. MSM missense mutations …

[HTML][HTML] Comparative Analysis of Transposable Elements in the Genomes of Citrus and Citrus-Related Genera

Y Wu, F Wang, K Lyu, R Liu - Plants, 2024 - mdpi.com
Transposable elements (TEs) significantly contribute to the evolution and diversity of plant
genomes. In this study, we explored the roles of TEs in the genomes of Citrus and Citrus …

Exploring genetic diversity, population structure, and subgenome differences in the allopolyploid Camelina sativa: implications for future breeding and research …

JR Brock, KA Bird, AE Platts, F Gomez-Cano… - Horticulture …, 2024 - academic.oup.com
Camelina (Camelina sativa), an allohexaploid species, is an emerging aviation biofuel crop
that has been the focus of resurgent interest in recent decades. To guide future breeding …

A haplotype resolved chromosome‐scale assembly of North American wild apple Malus fusca and comparative genomics of the fire blight Mfu10 locus

BN Mansfeld, A Yocca, S Ou, A Harkess… - The Plant …, 2023 - Wiley Online Library
Significance Statement We present a high‐quality, haplotype‐resolved, chromosome‐scale
genome assembly and annotation for Malus fusca, a wild relative of the commercial apple …

Comparative analysis of transposable elements in strawberry genomes of different ploidy levels

K Lyu, J Xiao, S Lyu, R Liu - International Journal of Molecular Sciences, 2023 - mdpi.com
Transposable elements (TEs) make up a large portion of plant genomes and play a vital role
in genome structure, function, and evolution. Cultivated strawberry (Fragaria x ananassa) is …

Combined analysis of transposable elements and structural variation in maize genomes reveals genome contraction outpaces expansion

M Munasinghe, A Read, MC Stitzer, B Song… - PLoS …, 2023 - journals.plos.org
Structural differences between genomes are a major source of genetic variation that
contributes to phenotypic differences. Transposable elements, mobile genetic sequences …