Genome assembly of the southern pine beetle ( Dendroctonus frontalis Zimmerman) reveals the origins of gene content reduction in Dendroctonus

Dendroctonus frontalis , also known as southern pine beetle (SPB), represents the most damaging forest pest in the southeastern United States. Strategies to predict, monitor and suppress SPB outbreaks have had limited success. Genomic data are critical to inform on pest biology and to identify molecular targets to develop improved management approaches. Here, we produced a chromosome-level genome assembly of SPB using long-read sequencing data. Synteny analyses confirmed the conservation of the core coleopteran Stevens elements and validated the bona fide SPB X chromosome. Transcriptomic data were used to obtain 39,588 transcripts corresponding to 13,354 putative protein-coding loci. Comparative analyses of gene content across 14 beetle and 3 other insects revealed several losses of conserved genes in the Dendroctonus clade and gene gains in SPB and Dendroctonus that were enriched for loci encoding membrane proteins and extracellular matrix proteins. While lineage-specific gene losses contributed to the gene content reduction observed in Dendroctonus , we also showed that widespread misannotation of transposable elements represents a major cause of the apparent gene expansion in several non- Dendroctonus species. Our findings uncovered distinctive features of the SPB gene complement and disentangled the role of biological and annotation-related factors contributing to gene content variation across beetles.

A reference quality genome assembly for the Jewel scarab Chrysina gloriosa

The jewel scarab Chrysina gloriosa is one of the most charismatic beetles in the United States and is found from the mountains of West Texas to the Southeastern Arizona sky islands. This species is highly sought by professional and amateur collectors worldwide due to its gleaming metallic coloration. However, the impact of the large-scale collection of this beetle on its populations is unknown, and there is a limited amount of genetic information available to make informed decisions about its conservation. As a first step, we present the genome of C. gloriosa, which we reconstructed using a single female specimen sampled from our ongoing effort to document population connectivity and the demographic history of this beetle. Using a combination of long-read sequencing and Omni-C data, we reconstructed the C. gloriosa genome at a near-chromosome level. Our genome assembly consisted of 454 scaffolds spanning 642 MB, with the ten largest scaffolds capturing 98% of the genome. The scaffold N50 was 72 MB, and the BUSCO score was 95.5%. This genome assembly will be an essential tool to accelerate understanding C. gloriosa biology and help make informed decisions for the conservation of Chrysina and other species with similar distributions in this region. This genome assembly will further serve as a community resource for comparative genomic analysis.

Long-Chain Polyunsaturated Fatty Acids Accelerate the Rate of Insulin Aggregation and Enhance Toxicity of Insulin Aggregates

Long-chain polyunsaturated fatty acids (LCPUFAs) are essential components of a human diet. These molecules are critically important for cognitive attention and memory, mood states, coronary circulation, and cirrhosis. However, recently reported findings demonstrated that docosahexaenoic (DHA) and arachidonic acids (ARA), ω-3 and ω-6 LCPUFAs, accelerated the aggregation rates of insulin and α-synuclein, proteins that are directly linked to diabetes type 2 and Parkinson's disease, respectively. Furthermore, both DHA and ARA uniquely altered the structure and toxicity of the corresponding protein aggregates. Our objective is to ascertain whether other LCPUFAs, alongside long-chain unsaturated fatty acid (LCUFA) proteins, exhibit similar effects on amyloidogenic proteins. To explore this matter, we investigated the effect of 10 different LCPUFAs and LCUFAs on the rate of insulin aggregation. We found that all of the analyzed fatty acids strongly accelerated insulin aggregation. Moreover, we found that protein aggregates that were formed in the presence of these fatty acids exerted significantly higher cell toxicity compared with insulin fibrils grown in the lipid-free environment. These findings show that interactions between amyloid-associated proteins and LCPUFAs can be the underlying molecular cause of neurodegenerative diseases.

Recent Advances in Structural Studies of Single-Stranded RNA Bacteriophages

Positive-sense single-stranded RNA (ssRNA) bacteriophages (phages) were first isolated six decades ago. Since then, extensive research has been conducted on these ssRNA phages, particularly those infecting E. coli. With small genomes of typically 3-4 kb that usually encode four essential proteins, ssRNA phages employ a straightforward infectious cycle involving host adsorption, genome entry, genome replication, phage assembly, and host lysis. Recent advancements in metagenomics and transcriptomics have led to the identification of ~65,000 sequences from ssRNA phages, expanding our understanding of their prevalence and potential hosts. This review article illuminates significant investigations into ssRNA phages, with a focal point on their structural aspects, providing insights into the various stages of their infectious cycle.

The effects of chronic exposure to environmentally relevant levels of waterborne cadmium on reproductive capacity and behaviour in fathead minnows

Cadmium (Cd) is a priority pollutant in aquatic ecosystems because of its highly toxic effects at low concentrations. Recent work has highlighted that at sublethal concentrations, Cd can impair the ability of fish to respond to important sensory cues. In the present study, we examined whether chronic exposure to environmentally relevant concentrations of waterborne Cd (1, 2.5 and 5 μg/L) can result in reproductive impairment in fathead minnows (Pimephales promelas) as measured by the standard Organization for Economic Cooperation and Development (OECD) 21-day reproductive assay. In addition, we also evaluated the effects of chronic waterborne Cd exposure on Cd accumulation in target tissues (liver and ovary) and plasma estradiol level in females and on the reproductive behaviour of fathead minnows. We found that the standard endpoints used in the OECD reproductive assays (e.g., egg production, number of spawning attempts, brood size) are more sensitive to Cd exposure than behavioural endpoints; however, the traditional method of interpreting reproductive impairment may underestimate toxic effects. Cadmium accumulation in liver and ovary of fish increased with increasing Cd exposure concentrations; however, plasma estradiol level remained unaffected. Reproductive capacity in fathead minnows decreased at waterborne Cd concentrations as low as 1 μg/L. The findings of our study have important implications for understanding the effects of chronic Cd exposure in metal-impacted feral fish populations.

Sub-lethal increases in salinity affect reproduction in fathead minnows

Salinization poses a threat to many inland aquatic ecosystems, especially in areas where natural processes are compounded by anthropogenic salinization. Though physiological survival can be a challenge for stenohaline freshwater fishes facing increasing salinity, it is important to note that essential and complex activities such as reproduction may be affected well below physiological tolerance limits. Here, we exposed fathead minnows (Pimephales promelas) to four levels of salinity in order to assess any impacts on several egg production and behavioral endpoints. We found significant reductions in total eggs produced, percent fertilization, number of spawning days, clutch size, total time males spent in the nest, and duration of nest care events. Our data demonstrate that salinization can have negative effects on critical reproductive endpoints.

The effects of sub-lethal salinity concentrations on the anti-predator responses of fathead minnows

Salinization, both natural and anthropogenic, of inland waters is a major facet of environmental change, and can have detrimental effects on aquatic systems. Fish facing increasing levels of salinity must do more than simply survive salinization, they must also undertake important behaviours such as predator avoidance. Here, we exposed fathead minnows (Pimephales promelas) to three levels of salinity crossed by three levels of predation risk cues. We found a reduction in pre-stimulus movement and a lowered intensity of anti-predator response for the highest salinity exposure (8000 ppm). We also found that the typical threat-sensitive anti-predator response (an important behaviour conferring fitness advantages) was absent in the two highest salinity exposure treatments. Our data demonstrate that salinization can have negative effects on critical behaviours well below physiological tolerance levels.