Genomic architecture and introgression shape a butterfly radiation
We used 20 de novo genome assemblies to probe the speciation history and architecture of
gene flow in rapidly radiating Heliconius butterflies. Our tests to distinguish incomplete …
gene flow in rapidly radiating Heliconius butterflies. Our tests to distinguish incomplete …
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
D Mapleson, G Garcia Accinelli, G Kettleborough… - …, 2017 - academic.oup.com
Motivation De novo assembly of whole genome shotgun (WGS) next-generation sequencing
(NGS) data benefits from high-quality input with high coverage. However, in practice, …
(NGS) data benefits from high-quality input with high coverage. However, in practice, …
[HTML][HTML] The ash dieback invasion of Europe was founded by two genetically divergent individuals
…, DGO Saunders, G Garcia Accinelli… - Nature Ecology & …, 2018 - nature.com
Accelerating international trade and climate change make pathogen spread an increasing
concern. Hymenoscyphus fraxineus, the causal agent of ash dieback, is a fungal pathogen …
concern. Hymenoscyphus fraxineus, the causal agent of ash dieback, is a fungal pathogen …
W2RAP: a pipeline for high quality, robust assemblies of large complex genomes from short read data
BJ Clavijo, G Garcia Accinelli, J Wright, D Heavens… - BioRxiv, 2017 - biorxiv.org
Producing high-quality whole-genome shotgun de novo assemblies from plant and animal
species with large and complex genomes using low-cost short read sequencing technologies …
species with large and complex genomes using low-cost short read sequencing technologies …
[HTML][HTML] Multiple wheat genomes reveal global variation in modern breeding
Advances in genomics have expedited the improvement of several agriculturally important
crops but similar efforts in wheat (Triticum spp.) have been more challenging. This is largely …
crops but similar efforts in wheat (Triticum spp.) have been more challenging. This is largely …
An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for …
…, C Schudoma, GG Accinelli, G Kaithakottil… - Genome …, 2017 - genome.cshlp.org
Advances in genome sequencing and assembly technologies are generating many high-quality
genome sequences, but assemblies of large, repeat-rich polyploid genomes, such as …
genome sequences, but assemblies of large, repeat-rich polyploid genomes, such as …
Improving and correcting the contiguity of long-read genome assemblies of three plant species using optical mapping and chromosome conformation capture data
Long-read sequencing can overcome the weaknesses of short reads in the assembly of
eukaryotic genomes; however, at present additional scaffolding is needed to achieve …
eukaryotic genomes; however, at present additional scaffolding is needed to achieve …
A method to simultaneously construct up to 12 differently sized Illumina Nextera long mate pair libraries with reduced DNA input, time, and cost
Long mate pair (LMP) or “jump” libraries are invaluable for producing contiguous genome
assemblies and assessing structural variation. However the consistent production of high …
assemblies and assessing structural variation. However the consistent production of high …
Disentangling the genomic complexity of the Fragilariopsis cylindrus (CCMP1102) genome
KA Hodgkinson, J Wright, GG Accinelli, D Heavens… - bioRxiv, 2022 - biorxiv.org
Fragilariopsis cylindrus CCMP1102 is characterised by a complex genome with significant
levels of heterozygosity between haplotypes, > 35% repeats, and an unknown karyotype. …
levels of heterozygosity between haplotypes, > 35% repeats, and an unknown karyotype. …
[HTML][HTML] A Sequence Distance Graph framework for genome assembly and analysis
L Yanes, GG Accinelli, J Wright, BJ Ward… - …, 2019 - ncbi.nlm.nih.gov
The Sequence Distance Graph (SDG) framework works with genome assembly graphs and
raw data from paired, linked and long reads. It includes a simple deBruijn graph module, and …
raw data from paired, linked and long reads. It includes a simple deBruijn graph module, and …