A complete telomere-to-telomere assembly of the maize genome

J Chen, Z Wang, K Tan, W Huang, J Shi, T Li, J Hu… - Nature …, 2023 - nature.com
A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of
genomic research. Through generating deep coverage ultralong Oxford Nanopore …

Gapless assembly of maize chromosomes using long-read technologies

J Liu, AS Seetharam, K Chougule, S Ou… - Genome Biology, 2020 - Springer
Creating gapless telomere-to-telomere assemblies of complex genomes is one of the
ultimate challenges in genomics. We use two independent assemblies and an optical map …

Prospects of telomere‐to‐telomere assembly in barley: Analysis of sequence gaps in the MorexV3 reference genome

P Navrátilová, H Toegelová, Z Tulpová… - Plant biotechnology …, 2022 - Wiley Online Library
The first gapless, telomere‐to‐telomere (T2T) sequence assemblies of plant chromosomes
were reported recently. However, sequence assemblies of most plant genomes remain …

TRASH: tandem repeat annotation and structural hierarchy

P Wlodzimierz, M Hong, IR Henderson - Bioinformatics, 2023 - academic.oup.com
Motivation The advent of long-read DNA sequencing is allowing complete assembly of
highly repetitive genomic regions for the first time, including the megabase-scale satellite …

The genetic and epigenetic landscape of the Arabidopsis centromeres

M Naish, M Alonge, P Wlodzimierz, AJ Tock… - Science, 2021 - science.org
INTRODUCTION The centromeres of eukaryotic chromosomes assemble the multiprotein
kinetochore complex and thereby position attachment to the spindle microtubules, allowing …

Differential methylation of genes and retrotransposons facilitates shotgun sequencing of the maize genome

PD Rabinowicz, K Schutz, N Dedhia, C Yordan… - Nature …, 1999 - nature.com
The genomes of higher plants and animals are highly differentiated, and are composed of a
relatively small number of genes and a large fraction of repetitive DNA. The bulk of this …

Telomere-to-telomere assembly of diploid chromosomes with Verkko

M Rautiainen, S Nurk, BP Walenz, GA Logsdon… - Nature …, 2023 - nature.com
Abstract The Telomere-to-Telomere consortium recently assembled the first truly complete
sequence of a human genome. To resolve the most complex repeats, this project relied on …

quarTeT: a telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification

Y Lin, C Ye, X Li, Q Chen, Y Wu, F Zhang… - Horticulture …, 2023 - academic.oup.com
A high-quality genome is the basis for studies on functional, evolutionary, and comparative
genomics. The majority of attention has been paid to the solution of complex chromosome …

Improved maize reference genome with single-molecule technologies

Y Jiao, P Peluso, J Shi, T Liang, MC Stitzer, B Wang… - Nature, 2017 - nature.com
Complete and accurate reference genomes and annotations provide fundamental tools for
characterization of genetic and functional variation. These resources facilitate the …

[HTML][HTML] Linear assembly of a human centromere on the Y chromosome

M Jain, HE Olsen, DJ Turner, D Stoddart… - Nature …, 2018 - nature.com
The human genome reference sequence remains incomplete owing to the challenge of
assembling long tracts of near-identical tandem repeats in centromeres. We implemented a …