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Developing a gene model for the <i>Glutathione S transferase O3</i> ortholog ( <i>GstO3</i> ) in the ASM1815212v1 Genome Assembly (GenBank Accession: GCA_018152125.1) of <i>Drosophila dunni</i> . This ortholog was characterized as part of a developing …
Read PDF<i>Xylophaga dorsalis</i> is a common Atlantic-Mediterranean mollusc that plays a crucial role in deep-sea habitats, where it digests wood that reaches the seabed through a unique symbiosis with specialised bacteria. The reference genome of <i>X. …
Read PDF<h4>Objectives</h4>The spotted or legume pod borer, Maruca vitrata (Lepidoptera: Crambidae), is a global insect pest of many economically important grain and vegetable legume crops. Although the species is believed to have originated in the Indo-Malayan …
Read PDFReptiles exhibit remarkable ecological and physiological diversity, yet genomic resources for this group remain relatively scarce, limiting research on adaptation, evolution, and invasion biology. The common wall gecko, Tarentola mauritanica (Linnaeus, 1758), is a Mediterranean …
Read PDFBACKGROUND: The Asian elephant (Elephas maximus), a keystone species with both ecological and cultural significance, is highly endangered and has disappeared from 95% of its historical range. In this study, we present a chromosome-level assembly …
Read PDFThe northern elephant seal (Mirounga angustirostris) is the largest pinniped species in the northern hemisphere. The species is classified as being of least conservation concern by the IUCN-a triumph of conservation efforts despite hunting pressure …
Read PDFLavandula maroccana Murb., an endemic species of the western Mediterranean, is classified as vulnerable and was added to the International Union for Conservation of Nature (IUCN) Red List in 2020. We assembled and annotated the …
Read PDFFremontodendron (Malvaceae) is a genus of shrubs native to the California Floristic Province (CFP) with dense, stellate trichomes on their leaves (hence the common name "flannelbush"). The current treatment of the genus includes the widespread …
Read PDFMycoheterotrophic plants rely entirely on fungal symbionts for nutrients, yet the role of intraspecific genomic variation in shaping symbiotic adaptation remains unclear. <i>Gastrodia elata</i> is a mycoheterotrophic orchid with multiple cultivated varieties. Here, we generated …
Read PDFFocal and intelligent passerine songbirds, corvids (Aves: Corvidae) have served as models for research on the genomics of hybridization and cognition. Clark's Nutcracker (Nucifraga columbiana), the sole North American member of its genus, is distributed …
Read PDFThe ornate shrew (Sorex ornatus) is a small predatory mammal with a broad distribution in northern, central, and southern California as well as in Baja California, Mexico. The ornate shrew is a highly productive consumer …
Read PDFCarbapenem-resistant Klebsiella pneumoniae (CRKP) is a multidrug-resistant (MDR) pathogen causing severe infections in immunocompromised patients, prompting the exploration of alternative therapies like bacteriophage therapy. In this study, we isolated and characterized a novel halophilic lytic …
Read PDFThe meadowfoams are annual plants in the genus Limnanthes, a group characterized by striking displays of bloom in damp, grassy habitats. The genus is endemic to western North America and, of the seven species and …
Read PDF<h4>Summary</h4>Recent advances in long-read sequencing and genome assembly techniques have enabled the generation of high-quality assemblies, often comprising megabase-scale sequences that span entire chromosomes. This results in longer but fewer sequences per genome, which affects …
Read PDFModern genomics produces billions of sequencing records per run, which are typically stored as gzip-compressed FASTQ files. While this format is widely used, it is not optimal for high-throughput processing due to its reliance on …
Read PDF<h4>Summary</h4>We introduce an in silico PCR (sPCR) method for the assembly of specific genomic regions spanned by PCR primers using raw sequence reads. This allows a user to quickly isolate the exact regions that are …
Read PDFHere, we report the draft whole-genome sequence of <i>Bacillus lehensis</i> M136, isolated from a hyperalkaline spring located in Pangasinan, Philippines. From 24 scaffolds, the total genome assembly length is 3,985,437 bp. Industrially important genes like …
Read PDF<h4>Motivation</h4>The current diagnostic rate of rare diseases through whole-genome sequencing has stabilized at around 30% on average, highlighting the need for improved computational scores to identify pathogenic variants. In 2019, we developed NCBoost, a supervised-learning …
Read PDFWe report the complete <i>de novo</i> genome assembly of <i>Stenotrophomonas</i> sp. strain C-A, isolated from a contaminated culture of <i>Pseudomonas putida</i> KT2440. The genome's annotation may inform how the two organisms interact with one another …
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