Long-read, chromosome-scale assembly of Vitis rotundifolia cv. Carlos and its unique resistance to Xylella fastidiosa subsp. fastidiosa

M Huff, AM Hulse-Kemp, BE Scheffler, RC Youngblood… - BMC genomics, 2023 - Springer
Abstract Background Muscadine grape (Vitis rotundifolia) is resistant to many of the
pathogens that negatively impact the production of common grape (V. vinifera), including the …

Diverse origins of near-identical antifreeze proteins in unrelated fish lineages provide insights into evolutionary mechanisms of new gene birth and protein sequence …

N Rives, V Lamba, CHC Cheng… - Molecular Biology and …, 2024 - academic.oup.com
Determining the origins of novel genes and the mechanisms driving the emergence of new
functions is challenging yet crucial for understanding evolutionary innovations. Recently …

Klumpy: A tool to evaluate the integrity of long‐read genome assemblies and illusive sequence motifs

G Madrigal, BF Minhas… - Molecular ecology …, 2025 - Wiley Online Library
The improvement and decreasing costs of third‐generation sequencing technologies has
widened the scope of biological questions researchers can address with de novo genome …

Genomics of secondarily temperate adaptation in the only non-Antarctic icefish

AG Rivera-Colón, N Rayamajhi… - Molecular biology …, 2023 - academic.oup.com
White-blooded Antarctic icefishes, a family within the adaptive radiation of Antarctic
notothenioid fishes, are an example of extreme biological specialization to both the chronic …

Novel mitochondrial genome rearrangements including duplications and extensive heteroplasmy could underlie temperature adaptations in Antarctic notothenioid …

BF Minhas, EA Beck, CHC Cheng, J Catchen - Scientific reports, 2023 - nature.com
Mitochondrial genomes are known for their compact size and conserved gene order,
however, recent studies employing long-read sequencing technologies have revealed the …

Full-length 16S rRNA gene sequencing by PacBio improves taxonomic resolution in human microbiome samples

E Buetas, M Jordán-López, A López-Roldán, G D'Auria… - BMC genomics, 2024 - Springer
Background Sequencing variable regions of the 16S rRNA gene (≃ 300 bp) with Illumina
technology is commonly used to study the composition of human microbiota. Unfortunately …

Metabolomics approach to understand molecular mechanisms involved in fungal pathogen–citrus pathosystems

E Silva, R Dantas, JC Barbosa, RGS Berlinck, T Fill - Molecular Omics, 2024 - pubs.rsc.org
Citrus is a crucial crop with a significant economic impact globally. However, postharvest
decay caused by fungal pathogens poses a considerable threat, leading to substantial …

Functional annotation and comparative genomics analysis of Balamuthia mandrillaris reveals potential virulence-related genes

A Otero-Ruiz, LZ Rodriguez-Anaya, F Lares-Villa… - Scientific Reports, 2023 - nature.com
Balamuthia mandrillaris is a pathogenic protozoan that causes a rare but almost always fatal
infection of the central nervous system and, in some cases, cutaneous lesions. Currently, the …

Chromosome-Level Genome Assembly and Circadian Gene Repertoire of the Patagonia Blennie Eleginops maclovinus—The Closest Ancestral Proxy of Antarctic …

CHC Cheng, AG Rivera-Colón, BF Minhas, L Wilson… - Genes, 2023 - mdpi.com
The basal South American notothenioid Eleginops maclovinus (Patagonia blennie or
róbalo) occupies a uniquely important phylogenetic position in Notothenioidei as the …

The genome of the cryopelagic Antarctic bald notothen, Trematomus borchgrevinki

N Rayamajhi, AG Rivera-Colón… - G3: Genes …, 2024 - academic.oup.com
Abstract The Antarctic bald notothen, Trematomus borchgrevinki (family Nototheniidae)
occupies a high latitude, ice-laden environment and represents an extreme example of cold …