Hyalomma lusitanicum is a characteristic tick species of the western Mediterranean region, with a well-established distribution across the Iberian Peninsula. It is strongly associated with wild ungulates, particularly red deer, as well as livestock, to which it can transmit a wide range of pathogens, including viruses, bacteria, and protozoa. Here, we present three genomic resources […]
Temporal persistence of admixed phenotypes in a damselfly hybrid zone
In odonates, hybridization has been documented in several species pairs, yet the long-term persistence of hybrid phenotypes remains poorly understood, particularly in Neotropical systems. Here, we investigate a putative hybrid zone between Ischnura capreolus and Ischnura cyane, which overlap along an altitudinal gradient in the Colombian Andes. We combined temporal sampling across sympatric and allopatric […]
Statistical inference of the Tree of Blobs of a phylogenetic network from quartet concordance factors
A phylogenetic network represents evolutionary relationships involving hybridization, gene flow, or admixture. While the full network may not be identifiable from genomic data under common coalescent models, its tree of blobs, depicting only the tree-like portions of the network structure, is. We introduce ECToBlob (Edge Contraction for Tree of Blobs), a new statistically-consistent algorithm to […]
New Protein Function Characterization for Human Paralog Discovery, Scraping the Bottom of the Genomics Barrel
IIncreasing the number of related protein paralogs is important for fully understanding protein relationships, yet it remains challenging for sequences in the twilight zone. Here, we present an integrated homolog detection framework that combines sequence-based (BLASTp, MMseqs2), structure-based (Foldseek), and embedding-distance-based (PROST) similarity metrics to identify additional paralogs. To characterize functionally related protein pairs, we […]
Temporal persistence of admixed phenotypes in a damselfly hybrid zone
In odonates, hybridization has been documented in several species pairs, yet the long-term persistence of hybrid phenotypes remains poorly understood, particularly in Neotropical systems. Here, we investigate a putative hybrid zone between Ischnura capreolus and Ischnura cyane, which overlap along an altitudinal gradient in the Colombian Andes. We combined temporal sampling across sympatric and allopatric […]
Statistical inference of the Tree of Blobs of a phylogenetic network from quartet concordance factors
A phylogenetic network represents evolutionary relationships involving hybridization, gene flow, or admixture. While the full network may not be identifiable from genomic data under common coalescent models, its tree of blobs, depicting only the tree-like portions of the network structure, is. We introduce ECToBlob (Edge Contraction for Tree of Blobs), a new statistically-consistent algorithm to […]
ERGA-BGE reference genomes of Hyalomma lusitanicum and its obligate Francisella endosymbiont as a genomic resource for One Health research
Hyalomma lusitanicum is a characteristic tick species of the western Mediterranean region, with a well-established distribution across the Iberian Peninsula. It is strongly associated with wild ungulates, particularly red deer, as well as livestock, to which it can transmit a wide range of pathogens, including viruses, bacteria, and protozoa. Here, we present three genomic resources […]
New Protein Function Characterization for Human Paralog Discovery, Scraping the Bottom of the Genomics Barrel
IIncreasing the number of related protein paralogs is important for fully understanding protein relationships, yet it remains challenging for sequences in the twilight zone. Here, we present an integrated homolog detection framework that combines sequence-based (BLASTp, MMseqs2), structure-based (Foldseek), and embedding-distance-based (PROST) similarity metrics to identify additional paralogs. To characterize functionally related protein pairs, we […]
O-GlcNAc transferase regulates H2O2 production via p38 MAPK
Idiopathic pulmonary fibrosis (IPF) is a progressive interstitial lung disease characterized by augmented transforming growth factor-beta (TGF-beta) signaling leading to excessive extracellular matrix (ECM) deposition. The fibroblast-to-myofibroblast-transition (FMT) and metabolic reprogramming of lung fibroblasts (HLFs) are essential to IPF pathogenesis, yet the connection between nutrient metabolism and fibrogenesis remains poorly defined. The O-linked N-acetylglucosamine (O-GlcNAc) […]
S-nitrosylation of protein kinase A is required for its activation by GPCRs
Stimulation of many G protein-coupled receptors (GPCRs) increases cyclic adenosine monophosphate (cAMP) and nitric oxide (NO). While cAMP-dependent activation of protein kinase A (PKA) is a central regulatory mechanism, a parallel role for NO in GPCR transduction has not been established. Here we show that upon stimulation of multiple GPCRs in heart, brain, and fat, […]
Proteomic analysis of human leptomeningeal matrisome identifies changes in Alzheimer’s disease
The leptomeninges (arachnoid and pia) are the inner layers of the meninges that envelope the brain. They define the borders of the subarachnoid space (SAS) where cerebrospinal fluid (CSF) circulates. Leptomeninges act as the barrier tissue and contribute to fluid exchange and immune function of the brain. These processes are identified as key factors in […]
S-nitrosylation of protein kinase A is required for its activation by GPCRs
Stimulation of many G protein-coupled receptors (GPCRs) increases cyclic adenosine monophosphate (cAMP) and nitric oxide (NO). While cAMP-dependent activation of protein kinase A (PKA) is a central regulatory mechanism, a parallel role for NO in GPCR transduction has not been established. Here we show that upon stimulation of multiple GPCRs in heart, brain, and fat, […]