[HTML][HTML] Achievements and challenges of genomics-assisted breeding in forest trees: From marker-assisted selection to genome editing

S Ahmar, P Ballesta, M Ali, F Mora-Poblete - International Journal of …, 2021 - mdpi.com
Forest tree breeding efforts have focused mainly on improving traits of economic importance,
selecting trees suited to new environments or generating trees that are more resilient to …

Genomic landscape of the global oak phylogeny

AL Hipp, PS Manos, M Hahn, M Avishai… - New …, 2020 - Wiley Online Library
The tree of life is highly reticulate, with the history of population divergence emerging from
populations of gene phylogenies that reflect histories of introgression, lineage sorting and …

Studying the genetic basis of masting

A Satake, D Kelly - … Transactions of the Royal Society B, 2021 - royalsocietypublishing.org
The mechanisms underlying mast seeding have traditionally been studied by collecting long-
term observational data on seed crops and correlating seedfall with environmental …

PANNZER—a practical tool for protein function prediction

P Törönen, L Holm - Protein Science, 2022 - Wiley Online Library
The facility of next‐generation sequencing has led to an explosion of gene catalogs for
novel genomes, transcriptomes and metagenomes, which are functionally uncharacterized …

Chromosome‐scale genome assembly and insights into the metabolome and gene regulation of leaf color transition in an important oak species, Quercus dentata

WB Wang, XF He, XM Yan, B Ma, CF Lu, J Wu… - New …, 2023 - Wiley Online Library
Quercus dentata Thunb., a dominant forest tree species in northern China, has significant
ecological and ornamental value due to its adaptability and beautiful autumn coloration, with …

[HTML][HTML] High-quality genome and methylomes illustrate features underlying evolutionary success of oaks

VL Sork, SJ Cokus, ST Fitz-Gibbon, AV Zimin… - Nature …, 2022 - nature.com
The genus Quercus, which emerged∼ 55 million years ago during globally warm
temperatures, diversified into∼ 450 extant species. We present a high-quality de novo …

[HTML][HTML] A chromosome-level genome assembly of the Chinese cork oak (Quercus variabilis)

B Han, L Wang, Y Xian, XM Xie, WQ Li… - Frontiers in Plant …, 2022 - frontiersin.org
Quercus variabilis (Fagaceae) is an ecologically and economically important deciduous
broadleaved tree species native to and widespread in East Asia. It is a valuable woody …

[HTML][HTML] ContScout: sensitive detection and removal of contamination from annotated genomes

B Bálint, Z Merényi, B Hegedüs, IV Grigoriev… - Nature …, 2024 - nature.com
Contamination of genomes is an increasingly recognized problem affecting several
downstream applications, from comparative evolutionary genomics to metagenomics. Here …

Hybrid de novo genome assembly of Chinese chestnut (Castanea mollissima)

Y Xing, Y Liu, Q Zhang, X Nie, Y Sun, Z Zhang… - …, 2019 - academic.oup.com
Abstract Background The Chinese chestnut (Castanea mollissima) is widely cultivated in
China for nut production. This plant also plays an important ecological role in afforestation …

A chromosome‐scale genome assembly of the Mongolian oak (Quercus mongolica)

W Ai, Y Liu, M Mei, X Zhang, E Tan… - Molecular Ecology …, 2022 - Wiley Online Library
Abstract Mongolian oak (Quercus mongolica Fisch.) is an ecologically and economically
important white oak species native to and widespread in the temperate zone of East Asia …