A collinearity-incorporating homology inference strategy for connecting emerging assemblies in the triticeae tribe as a pilot practice in the plant pangenomic era

Y Chen, W Song, X Xie, Z Wang, P Guan, H Peng… - Molecular Plant, 2020 - cell.com
Plant genome sequencing has dramatically increased, and some species even have
multiple high-quality reference versions. Demands for clade-specific homology inference …

[HTML][HTML] Decoding sex: Elucidating sex determination and how high-quality genome assemblies are untangling the evolutionary dynamics of sex chromosomes

L Ramos, A Antunes - Genomics, 2022 - Elsevier
Sexual reproduction is a diverse and widespread process. In gonochoristic species, the
differentiation of sexes occurs through diverse mechanisms, influenced by environmental …

[图书][B] Biological collections: Ensuring critical research and education for the 21st century

National Academies of Sciences, Division on Earth… - 2021 - books.google.com
Biological collections are a critical part of the nation's science and innovation infrastructure
and a fundamental resource for understanding the natural world. Biological collections …

Comparative genomic analysis of the DUF34 protein family suggests role as a metal ion chaperone or insertase

CJ Reed, G Hutinet, V de Crécy-Lagard - Biomolecules, 2021 - mdpi.com
Members of the DUF34 (domain of unknown function 34) family, also known as the NIF3
protein superfamily, are ubiquitous across superkingdoms. Proteins of this family have been …

PlantTribes2: Tools for comparative gene family analysis in plant genomics

EK Wafula, H Zhang, G Von Kuster… - Frontiers in Plant …, 2023 - frontiersin.org
Plant genome-scale resources are being generated at an increasing rate as sequencing
technologies continue to improve and raw data costs continue to fall; however, the cost of …

Venom gene sequence diversity and expression jointly shape diet adaptation in pitvipers

AJ Mason, ML Holding, RM Rautsaw… - Molecular Biology …, 2022 - academic.oup.com
Understanding the joint roles of protein sequence variation and differential expression
during adaptive evolution is a fundamental, yet largely unrealized goal of evolutionary …

Phylogenomics of the ecdysteroid kinase-like (EcKL) gene family in insects highlights roles in both steroid hormone metabolism and detoxification

JL Scanlan, C Robin - Genome Biology and Evolution, 2024 - academic.oup.com
The evolutionary dynamics of large gene families can offer important insights into the
functions of their individual members. While the ecdysteroid kinase-like (EcKL) gene family …

Novel metric for hyperbolic phylogenetic tree embeddings

H Matsumoto, T Mimori… - Biology Methods and …, 2021 - academic.oup.com
Advances in experimental technologies, such as DNA sequencing, have opened up new
avenues for the applications of phylogenetic methods to various fields beyond their …

A genomic panel for studying C3‐C4 intermediate photosynthesis in the Brassiceae tribe

R Guerreiro, VS Bonthala, U Schlüter… - Plant, cell & …, 2023 - Wiley Online Library
Research on C4 and C3‐C4 photosynthesis has attracted significant attention because the
understanding of the genetic underpinnings of these traits will support the introduction of its …

Comparative transcriptional analyses of Pleurotus ostreatus mutants on beech wood and rice straw shed light on substrate-biased gene regulation

H Wu, T Nakazawa, H Xu, R Yang, D Bao… - Applied Microbiology …, 2021 - Springer
Distinct wood degraders occupying their preferred habitats have biased enzyme repertoires
that are well fitted to their colonized substrates. Pleurotus ostreatus, commonly found on …