ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter

SD Jackman, BP Vandervalk, H Mohamadi… - Genome …, 2017 - genome.cshlp.org
The assembly of DNA sequences de novo is fundamental to genomics research. It is the first
of many steps toward elucidating and characterizing whole genomes. Downstream …

TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools

C Monat, S Padmarasu, T Lux, T Wicker, H Gundlach… - Genome biology, 2019 - Springer
Chromosome-scale genome sequence assemblies underpin pan-genomic studies. Recent
genome assembly efforts in the large-genome Triticeae crops wheat and barley have relied …

Phylogenomic analyses of the Tenthredinoidea support the familial rank of Athaliidae (Insecta, Tenthredinoidea)

G Niu, M Budak, EM Korkmaz, Ö Doğan, A Nel, S Wan… - Insects, 2022 - mdpi.com
Simple Summary In the current era of data explosion, the use of genetic information is
increasingly being applied across numerous biological questions. One application has been …

Facilitating the adoption of high‐throughput sequencing technologies as a plant pest diagnostic test in laboratories: A step‐by‐step description

B Lebas, I Adams, M Al Rwahnih, S Baeyen… - EPPO …, 2022 - Wiley Online Library
High‐throughput sequencing (HTS) is a powerful tool that enables the simultaneous
detection and potential identification of any organisms present in a sample. The growing …

Tigmint: correcting assembly errors using linked reads from large molecules

SD Jackman, L Coombe, J Chu, RL Warren… - BMC …, 2018 - Springer
Background Genome sequencing yields the sequence of many short snippets of DNA
(reads) from a genome. Genome assembly attempts to reconstruct the original genome from …

Molecular mechanisms of mutualistic and antagonistic interactions in a plant–pollinator association

R Wang, Y Yang, Y Jing, ST Segar, Y Zhang… - Nature Ecology & …, 2021 - nature.com
Many insects metamorphose from antagonistic larvae into mutualistic adult pollinators, with
reciprocal adaptation leading to specialized insect–plant associations. It remains unknown …

Convergent consequences of parthenogenesis on stick insect genomes

KS Jaron, DJ Parker, Y Anselmetti, P Tran Van… - Science …, 2022 - science.org
The shift from sexual reproduction to parthenogenesis has occurred repeatedly in animals,
but how the loss of sex affects genome evolution remains poorly understood. We generated …

Evaluating Illumina-, Nanopore-, and PacBio-based genome assembly strategies with the bald notothen, Trematomus borchgrevinki

N Rayamajhi, CHC Cheng, JM Catchen - G3, 2022 - academic.oup.com
For any genome-based research, a robust genome assembly is required. De novo assembly
strategies have evolved with changes in DNA sequencing technologies and have been …

Dog10K_Boxer_Tasha_1. 0: a long-read assembly of the dog reference genome

V Jagannathan, C Hitte, JM Kidd, P Masterson… - Genes, 2021 - mdpi.com
The domestic dog has evolved to be an important biomedical model for studies regarding
the genetic basis of disease, morphology and behavior. Genetic studies in the dog have …

Genomic evidence of neo-sex chromosomes in the eastern yellow robin

HM Gan, S Falk, HE Morales, CM Austin… - …, 2019 - academic.oup.com
Background Understanding sex-biased natural selection can be enhanced by access to well-
annotated chromosomes including ones inherited in sex-specific fashion. The eastern …