Red macroalgae in the genomic era

M Borg, SA Krueger‐Hadfield, C Destombe… - New …, 2023 - Wiley Online Library
Rhodophyta (or red algae) are a diverse and species‐rich group that forms one of three
major lineages in the Archaeplastida, a eukaryotic supergroup whose plastids arose from a …

A comprehensive review of scaffolding methods in genome assembly

J Luo, Y Wei, M Lyu, Z Wu, X Liu, H Luo… - Briefings in …, 2021 - academic.oup.com
In the field of genome assembly, scaffolding methods make it possible to obtain a more
complete and contiguous reference genome, which is the cornerstone of genomic research …

Chromosome-level genome assembly reveals homologous chromosomes and recombination in asexual rotifer Adineta vaga

P Simion, J Narayan, A Houtain, A Derzelle… - Science …, 2021 - science.org
Bdelloid rotifers are notorious as a speciose ancient clade comprising only asexual
lineages. Thanks to their ability to repair highly fragmented DNA, most bdelloid species also …

Chromosomal scale assembly of parasitic wasp genome reveals symbiotic virus colonization

J Gauthier, H Boulain, JJFA van Vugt, L Baudry… - Communications …, 2021 - nature.com
Endogenous viruses form an important proportion of eukaryote genomes and a source of
novel functions. How large DNA viruses integrated into a genome evolve when they confer a …

Range-wide differential adaptation and genomic offset in critically endangered Asian rosewoods

TH Hung, T So, B Thammavong… - Proceedings of the …, 2023 - pnas.org
In the billion-dollar global illegal wildlife trade, rosewoods have been the world's most
trafficked wild product since 2005. Dalbergia cochinchinensis and Dalbergia oliveri are the …

Comparative analysis of the Mercenaria mercenaria genome provides insights into the diversity of transposable elements and immune molecules in bivalve mollusks

S Farhat, E Bonnivard, E Pales Espinosa, A Tanguy… - BMC genomics, 2022 - Springer
Abstract Background The hard clam Mercenaria mercenaria is a major marine resource
along the Atlantic coasts of North America and has been introduced to other continents for …

A deep learning-based method enables the automatic and accurate assembly of chromosome-level genomes

Z Jiang, Z Peng, Z Wei, J Sun, Y Luo, L Bie… - Nucleic Acids …, 2024 - academic.oup.com
The application of high-throughput chromosome conformation capture (Hi-C) technology
enables the construction of chromosome-level assemblies. However, the correction of errors …

Orchestrating chromosome conformation capture analysis with Bioconductor

J Serizay, C Matthey-Doret, A Bignaud… - Nature …, 2024 - nature.com
Genome-wide chromatin conformation capture assays provide formidable insights into the
spatial organization of genomes. However, due to the complexity of the data structure, their …

The genome of the reef-building glass sponge Aphrocallistes vastus provides insights into silica biomineralization

WR Francis, M Eitel, S Vargas… - Royal Society …, 2023 - royalsocietypublishing.org
Well-annotated and contiguous genomes are an indispensable resource for understanding
the evolution, development, and metabolic capacities of organisms. Sponges, an …

The brown seaweed Ectocarpus

SM Coelho - 2024 - nature.com
Brown seaweeds are multicellular eukaryotes that have been evolving independently of
animals and plants for more than a billion years. The filamentous brown alga Ectocarpus …