Long-read DNA sequencing: recent advances and remaining challenges

PE Warburton, RP Sebra - Annual review of genomics and …, 2023 - annualreviews.org
DNA sequencing has revolutionized medicine over recent decades. However, analysis of
large structural variation and repetitive DNA, a hallmark of human genomes, has been …

Plant genome resequencing and population genomics: Current status and future prospects

B Song, W Ning, D Wei, M Jiang, K Zhu, X Wang… - Molecular Plant, 2023 - cell.com
Advances in DNA sequencing technology have sparked a genomics revolution, driving
breakthroughs in plant genetics and crop breeding. Recently, the focus has shifted from …

Einkorn genomics sheds light on history of the oldest domesticated wheat

HI Ahmed, M Heuberger, A Schoen, DH Koo… - Nature, 2023 - nature.com
Einkorn (Triticum monococcum) was the first domesticated wheat species, and was central
to the birth of agriculture and the Neolithic Revolution in the Fertile Crescent around 10,000 …

Navigating the pitfalls of mapping DNA and RNA modifications

Y Kong, EA Mead, G Fang - Nature Reviews Genetics, 2023 - nature.com
Chemical modifications to nucleic acids occur across the kingdoms of life and carry
important regulatory information. Reliable high-resolution mapping of these modifications is …

Chromosome-scale assembly of the wild wheat relative Aegilops umbellulata

M Abrouk, Y Wang, E Cavalet-Giorsa, M Troukhan… - Scientific Data, 2023 - nature.com
Wild wheat relatives have been explored in plant breeding to increase the genetic diversity
of bread wheat, one of the most important food crops. Aegilops umbellulata is a diploid U …

Exploring the crop epigenome: a comparison of DNA methylation profiling techniques

DR Agius, A Kapazoglou, E Avramidou… - Frontiers in Plant …, 2023 - frontiersin.org
Epigenetic modifications play a vital role in the preservation of genome integrity and in the
regulation of gene expression. DNA methylation, one of the key mechanisms of epigenetic …

Advances in the discovery and analyses of human tandem repeats

MJP Chaisson, A Sulovari… - Emerging topics in …, 2023 - portlandpress.com
Long-read sequencing platforms provide unparalleled access to the structure and
composition of all classes of tandemly repeated DNA from STRs to satellite arrays. This …

Assessing the efficacy of target adaptive sampling long-read sequencing through hereditary cancer patient genomes

W Nakamura, M Hirata, S Oda, K Chiba, A Okada… - npj Genomic …, 2024 - nature.com
Innovations in sequencing technology have led to the discovery of novel mutations that
cause inherited diseases. However, many patients with suspected genetic diseases remain …

A comparison of methods for detecting DNA methylation from long-read sequencing of human genomes

BD Sigurpalsdottir, OA Stefansson, G Holley, D Beyter… - Genome Biology, 2024 - Springer
Background Long-read sequencing can enable the detection of base modifications, such as
CpG methylation, in single molecules of DNA. The most commonly used methods for long …

Chromosome-scale genome assembly of bread wheat's wild relative Triticum timopheevii

S Grewal, C Yang, D Scholefield, S Ashling, S Ghosh… - Scientific Data, 2024 - nature.com
Wheat (Triticum aestivum) is one of the most important food crops with an urgent need for
increase in its production to feed the growing world. Triticum timopheevii (2n= 4x= 28) is an …