Integration of molecular docking analysis and molecular dynamics simulations for studying food proteins and bioactive peptides

A Vidal-Limon, JE Aguilar-Toalá… - Journal of Agricultural …, 2022 - ACS Publications
In silico tools, such as molecular docking, are widely applied to study interactions and
binding affinity of biological activity of proteins and peptides. However, restricted sampling of …

The genomics of coloration provides insights into adaptive evolution

A Orteu, CD Jiggins - Nature Reviews Genetics, 2020 - nature.com
Coloration is an easily quantifiable visual trait that has proven to be a highly tractable system
for genetic analysis and for studying adaptive evolution. The application of genomic …

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 …

The complete reference genome for grapevine (Vitis vinifera L.) genetics and breeding

X Shi, S Cao, X Wang, S Huang, Y Wang… - Horticulture …, 2023 - academic.oup.com
Grapevine is one of the most economically important crops worldwide. However, the
previous versions of the grapevine reference genome tipically consist of thousands of …

A beginner's guide to low‐coverage whole genome sequencing for population genomics

RN Lou, A Jacobs, AP Wilder… - Molecular …, 2021 - Wiley Online Library
Low‐coverage whole genome sequencing (lcWGS) has emerged as a powerful and cost‐
effective approach for population genomic studies in both model and nonmodel species …

Twelve quick steps for genome assembly and annotation in the classroom

H Jung, T Ventura, JS Chung, WJ Kim… - PLoS computational …, 2020 - journals.plos.org
Eukaryotic genome sequencing and de novo assembly, once the exclusive domain of well-
funded international consortia, have become increasingly affordable, thus fitting the budgets …

The changing face of genome assemblies: Guidance on achieving high‐quality reference genomes

A Whibley, JL Kelley, SR Narum - 2021 - Wiley Online Library
The quality of genome assemblies has improved rapidly in recent years due to continual
advances in sequencing technology, assembly approaches, and quality control. In the field …

Natural products of medicinal plants: biosynthesis and bioengineering in post-genomic era

L Guo, H Yao, W Chen, X Wang, P Ye, Z Xu… - Horticulture …, 2022 - academic.oup.com
Globally, medicinal plant natural products (PNPs) are a major source of substances used in
traditional and modern medicine. As we human race face the tremendous public health …

Widespread false gene gains caused by duplication errors in genome assemblies

BJ Ko, C Lee, J Kim, A Rhie, DA Yoo, K Howe, J Wood… - Genome Biology, 2022 - Springer
Background False duplications in genome assemblies lead to false biological conclusions.
We quantified false duplications in popularly used previous genome assemblies for …

The genomics of ecological flexibility, large brains, and long lives in capuchin monkeys revealed with fecalFACS

JD Orkin, MJ Montague… - Proceedings of the …, 2021 - National Acad Sciences
Ecological flexibility, extended lifespans, and large brains have long intrigued evolutionary
biologists, and comparative genomics offers an efficient and effective tool for generating new …