[HTML][HTML] New whole-genome alignment tools are needed for tapping into plant diversity

B Song, ES Buckler, MC Stitzer - Trends in Plant Science, 2023 - cell.com
Genome alignment is one of the most foundational methods for genome sequence studies.
With rapid advances in sequencing and assembly technologies, these newly assembled …

Single-haplotype comparative genomics provides insights into lineage-specific structural variation during cat evolution

KR Bredemeyer, LD Hillier, AJ Harris, GM Hughes… - Nature …, 2023 - nature.com
The role of structurally dynamic genomic regions in speciation is poorly understood due to
challenges inherent in diploid genome assembly. Here we reconstructed the evolutionary …

Are cereal grasses a single genetic system?

M Mascher, MP Marone, M Schreiber, N Stein - Nature Plants, 2024 - nature.com
In 1993, a passionate and provocative call to arms urged cereal researchers to consider the
taxon they study as a single genetic system and collaborate with each other. Since then, that …

NGenomeSyn: an easy-to-use and flexible tool for publication-ready visualization of syntenic relationships across multiple genomes

W He, J Yang, Y Jing, L Xu, K Yu, X Fang - Bioinformatics, 2023 - academic.oup.com
Large-scale comparative genomic studies have provided important insights into species
evolution and diversity, but also lead to a great challenge to visualize. Quick catching or …

[HTML][HTML] Newly identified sex chromosomes in the Sphagnum (peat moss) genome alter carbon sequestration and ecosystem dynamics

AL Healey, B Piatkowski, JT Lovell, A Sreedasyam… - Nature Plants, 2023 - nature.com
Peatlands are crucial sinks for atmospheric carbon but are critically threatened due to
warming climates. Sphagnum (peat moss) species are keystone members of peatland …

[HTML][HTML] The complex polyploid genome architecture of sugarcane

AL Healey, O Garsmeur, JT Lovell, S Shengquiang… - Nature, 2024 - nature.com
Sugarcane, the world's most harvested crop by tonnage, has shaped global history, trade
and geopolitics, and is currently responsible for 80% of sugar production worldwide. While …

[HTML][HTML] Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet

KM Devos, P Qi, BA Bahri, DM Gimode, K Jenike… - Nature …, 2023 - nature.com
Finger millet is a key food security crop widely grown in eastern Africa, India and Nepal.
Long considered a 'poor man's crop', finger millet has regained attention over the past …

Genomic hotspots of chromosome rearrangements explain conserved synteny despite high rates of chromosome evolution in a holocentric lineage

M Escudero, A Marques, K Lucek, AL Hipp - Molecular Ecology, 2023 - Wiley Online Library
Holocentric organisms, unlike typical monocentric organisms, have kinetochore activity
distributed along almost the whole length of the chromosome. Because of this, chromosome …

[HTML][HTML] Long-read, chromosome-scale assembly of Vitis rotundifolia cv. Carlos and its unique resistance to Xylella fastidiosa subsp. fastidiosa

M Huff, AM Hulse-Kemp, BE Scheffler, RC Youngblood… - BMC genomics, 2023 - Springer
Abstract Background Muscadine grape (Vitis rotundifolia) is resistant to many of the
pathogens that negatively impact the production of common grape (V. vinifera), including the …

[HTML][HTML] The genome of the glasshouse plant noble rhubarb (Rheum nobile) provides a window into alpine adaptation

T Feng, B Pucker, T Kuang, B Song, Y Yang… - Communications …, 2023 - nature.com
Glasshouse plants are species that trap warmth via specialized morphology and physiology,
mimicking a human glasshouse. In the Himalayan alpine region, the highly specialized …