genome assembly

The paper introduces BITREx, a method using Cas9 nickase to expand tandem gene arrays in yeast and mammalian cells.

This study produces a chromosomal-level genome assembly for westslope cutthroat trout and identifies interspecific chromosomal rearrangements with rainbow trout.

This study presents the first nuclear genome assembly for Zenia insignis, a threatened plant species in the Fabaceae family, providing a resource for phylogenomic research.

The paper presents finished genome assemblies of 15 Variovorax isolates, revealing significant diversity in genome architecture and mechanisms of secondary replicon acquisition.

This study presents the first chromosome-level genome assembly of the 400-year-old Goethe's Palm, providing insights into its TE landscape and miRNA annotation for conservation genomics.

The paper presents a high-quality chromosome-level genome assembly of the American cockroach, Periplaneta americana, using PacBio and Hi-C data, improving upon previous incomplete references.

This paper presents a high-quality chromosome-scale genome assembly for the Australian alpine skink Bassiana duperreyi using long-read technologies, achieving high completeness and providing a resource for sex determination and thermolabile sex reversal studies.

The paper presents the first chromosome-level genome assembly of Flaccisagitta enflata, providing a resource for comparative genomic studies in Chaetognatha and Gnathifera.

The study presents a chromosome-level genome assembly of the Atlas blue butterfly, revealing constraints on chromosome evolution in Lepidoptera through extensive fission and fusion events.

The paper presents a high-quality chromosome-level genome of the king penguin, improving assembly contiguity and annotation for studying genotype-fitness relationships.

This study optimizes a genome editing system for Cupriavidus necator H16, achieving high editing efficiency using an improved SIBR-Cas system.

This study uses high-resolution scRNA-seq to uncover how genomic rearrangements during antigen switching in Trypanosoma brucei depend on repair mechanisms and homologous templates.

The paper analyzes P. knowlesi genomes from Sabah, Malaysia, to identify genetic subpopulations and introgression events linked to environmental factors and host adaptation.

This paper reports the complete genome of Candidatus Paracoxiella cheracis, revealing insights into its pathogenesis and phylogeny within the Coxiellaceae family.

The paper analyzes G-gene heterogeneities in human metapneumovirus (HMPV) and proposes a new genotyping method based on protein length and sequence differences.

Mapler evaluates Hi-Fi long read metagenome assemblies, providing metrics to assess quality and identify bottlenecks in genome reconstruction.

The paper presents chromosomal-level genome assemblies for two clams using PacBio HiFi and Omni-C reads, providing genomic resources for conservation and ecological studies.

GoldPolish-Target polishes targeted regions of genome assemblies, reducing errors and improving accuracy with lower computational demands.

The paper analyzes the genomes of spider monkeys and northern muriquis to assess genetic diversity, load, and divergence, finding no alignment between genetic diversity and endangerment status, higher genetic load in wild populations, and divergence linked to environmental factors.

The paper characterizes a novel iridovirus, BiIV1, associated with cockle mortality, finding it prevalent in moribund cockles and sharing genomic features with other invertebrate iridoviruses.

This paper shows that expressing HP1 homologues in yeast increases chromatin compaction, reducing mutation and recombination rates, and improving the stability of synthetic metabolic circuits.

This study assesses the quality of 474 pathogenic bacterial genomes using completeness, contiguity, and accuracy metrics, highlighting the importance of integrated quality control in public genomic databases.

The paper shows that combining multiple genomic prediction models improves accuracy and reduces errors in predicting crop traits, supporting the Diversity Prediction Theorem.

This study uses 3D reconstruction from 2D images to measure phyllotaxy in sorghum, showing its feasibility for genetic analysis and breeding.

This paper presents a high-quality genome assembly of the hourglass dolphin using Oxford Nanopore sequencing, achieving high contiguity and completeness for marine mammal genomics.

The paper introduces RepTiles, a system for generating random DNA segments for synthetic genomics, enabling the construction of ultra-long synthetic DNA in Physcomitrium patens.

The paper investigates genome dynamics in mosses using chromosome-scale assemblies, finding extensive synteny alongside dynamic gene space driven by de novo gene birth and loss.

The paper presents a high-quality genome assembly for the GIANT Nile tilapia strain, enabling the reconstruction of X and Y haplotypes and identifying sex determination loci on LG23.

The paper assembles and annotates the genomes of two teinturier grapevine varieties, Dakapo and Rubired, providing genetic resources for studying pigmentation and other traits.