genome assembly

Isolation and Genomic Characterization of Myxococcus faecalis Strains from Mangroves in Southeastern Brazil

The paper isolates and characterizes two Myxococcus faecalis strains from mangroves in Brazil, showing genomic similarity to strains from soil and human feces.

Genome-wide Analysis Reveals High Genomic Diversity and Panmixia in Bay Pipefish (Syngnathus leptorhynchus) from Coos Bay, Oregon

This study uses RAD-seq to analyze genomic diversity and population structure in bay pipefish, finding high diversity and panmixia across two locations in Coos Bay.

Optimisation of Weighted Ensembles of Genomic Prediction Models in Maize

This study evaluates three weight optimisation approaches for genomic prediction ensembles in maize, finding that weighted models improve prediction performance when weights differ from equal weights, but no single method clearly outperforms others.

A chromosome-level, haplotype-resolved genome assembly for the barn owl, Tyto alba

The paper presents a chromosome-level, haplotype-resolved genome assembly for the barn owl, resolving microchromosomes and enabling structural variation studies.

Optimizing population simulations to accurately parallel empirical data for digital breeding

This paper improves simulation accuracy for digital breeding by integrating GWAS-derived genetic architecture into trait simulations, achieving high concordance with empirical data.

Morphogenomic description of Cranifera cranifera (Chitwood, 1932) Kloss, 1960 from captive Blaptica dubia Serville, 1838 cockroach

Third nuclear genome for arthropod pinworms (Thelastomatoidea): a PacBio long-read Cranifera cranifera assembly (242 Mb, N50 43 kb, 90.5-94% BUSCO) plus a 24644-base mitogenome and male redescription.

Diversity and genetic structure within a Mexican maize race reveal consistent biocultural processes across geographic scales.

The paper examines genetic diversity and structure within the Olotillo maize race in Mexico, finding that genetic clusters align with geographic origin rather than race identity, and highlights inbreeding and directional selection across scales.

Pipeasm: a tool for automated large chromosome-scale genome assembly and evaluation

Pipeasm automates large chromosome-scale genome assembly using HiFi, ONT, and HiC data, enabling diploid genome assembly with a Snakemake pipeline.

Tracing social mechanisms and interregional connections in Early Bronze Age Societies in Lower Austria

This study analyzes genome-wide data from Early Bronze Age individuals in Lower Austria to explore social structure and genetic relationships, revealing patrilocal society and long-distance genetic connections.

Genetic history of Rus'

This study analyzes genomic data from 200 medieval individuals to reveal the genetic structure and origins of the Rus population, identifying Slavic-related and Fenno-Ugrian components with shared ancestry from ancient Baltic populations.

A trio-binning approach for Cannabis genome de novo assembly reveals extensive structural variation, and defines paralog cohorts with very good resolution

This paper uses trio-binning to assemble the Cannabis genome, revealing structural variation and defining paralog cohorts with high resolution.

An annotated chromosome-level genome assembly ofthe Adzuki bean borer Ostrinia scapulalis (Lepidoptera: Crambidae)

The paper presents a chromosome-level genome assembly for Ostrinia scapulalis, improving upon previous fragmented assemblies and enabling better comparative genomic studies.

Artificial light at night induces stress and affects evolutionary change in bats

This study shows artificial light at night causes molecular stress and genetic changes in bats, affecting their behavior and population connectivity.

Complete telomere-to-telomere genomes of cowpea reveal insights into centromere evolution in Phaseoleae

The paper presents complete telomere-to-telomere cowpea genomes, revealing centromere evolution and subspecies divergence in Phaseoleae.

Cysteine protease cathepsin B promotes high population density-induced mutagenesis, driving genome evolution and competitive growth in response to the crowding stress

This study shows that CPR-4, a homologue of human cathepsin B, induces DNA damage and mutagenesis in C. elegans under crowding stress, leading to increased mutation rates and competitive growth advantages.

RefLA: Efficient reference-guided genome assembly from long reads

RefLA improves genome assembly speed and quality by using a reference genome to guide long-read assembly, outperforming both de novo and fast assemblers.

First genome assemblies of Neotropical Thoracobombus Bumblebees Bombus pauloensis and Bombus pullatus

This study produces high-quality genome assemblies for two Neotropical bumblebee species using long-read sequencing.

Genetic Linkage Studies in F2 Cowpea (Vigna Unguiculata (L.) Walp) Mapping Populations Using Qualitative Morphological and SNP Markers

This paper maps genetic linkage in cowpea using SNP and morphological markers, identifying Mendelian and non-Mendelian inheritance patterns and creating a genetic map for breeding improvement.

Chromosomal Fusions and Evolutionary Forces: Exploring theNeo-Sex Chromosome System of Anolis distichus

This study presents a high-quality genome assembly of Anolis distichus, revealing insights into neo-sex chromosome evolution and differential evolutionary pressures.

High-Quality De Novo Genome Assembly for the Galapagos Endemic Lava Gull Using Oxford Nanopore Technologies

The paper presents a chromosome-level genome assembly for the rare lava gull using Oxford Nanopore sequencing, providing a resource for phylogeography and population genetics studies.

PERFECT PCR: Advancing DNA Data Storage to Near-Maximal Density

This paper introduces PERFECT PCR, a method that improves DNA data storage density and accuracy, achieving 94% of theoretical maximum storage density with significantly lower error rates.

Ancient genomes from the siege and destruction of Middle Bronze Age Roca Vecchia (Apulia, Italy) shed light on Aegean contacts and conflicts

The paper analyzes ancient genomes from Roca Vecchia to determine genetic contributions from Minoans and local populations during the Bronze Age.

A near-complete lamprey genome illuminates ancestral vertebrate innovations

This paper presents a near-complete lamprey genome assembly, revealing gene family expansions and regulatory elements linked to vertebrate innovations.

Caenorhabditis briggsae ancestral genomic hyper-diversity contrasts with globally distributed genome-wide haplotypes

The paper analyzes over 2,000 Caenorhabditis briggsae wild strains to uncover genetic diversity, population structure, and evolutionary mechanisms shaping phenotypic variation.

Telomere-to-telomere reference genome of the common five-lined skink, Plestiodon fasciatus (Squamata: Scincidae)

The paper presents the first telomere-to-telomere, chromosome-level reference genome for the common five-lined skink, providing a highly complete and annotated genome sequence.

Developmental regulators enable rapid and efficient soybean transformation and CRISPR-mediated genome editing

This study develops a method using developmental regulators to improve soybean transformation and CRISPR-mediated genome editing efficiency.

CiFi: Accurate long-read chromosome conformation capture with low-input requirements

CiFi improves Hi-C analysis by combining 3C with PacBio HiFi sequencing, enabling better coverage in repetitive regions and low-input samples.

A genetic platform for a biocementation bacterium

This paper develops a genetic toolkit for Sporosarcina pasteurii, enabling genome modification and uncovering genes involved in biocementation.

Whole genome assembly and annotation of the acorn weevil, Curculio nanulus (Coleoptera: Curculionidae)

The paper generates whole genome assemblies for two Curculio weevil species and annotates their genomes, revealing expanded repetitive elements for comparative genomic studies.

Genome Report: De novo genome assembly of the greater Bermuda land snail, Poecilozonites bermudensis (Mollusca:Gastropoda), confirms ancestral genome duplication

This paper presents the first de novo genome assembly of Poecilozonites bermudensis, confirming an ancestral genome duplication in land snails and supporting evolutionary hypotheses.