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<h4>Background</h4>The soybean cyst nematode (SCN) is a persistent threat to soybean production. SCN populations continually overcome resistant cultivars, causing significant yield losses. Studies conducted with a single reference genome restrict our understanding of intraspecific diversity, …
Read PDF<h4>Background</h4>Apicomplexan parasite, Babesia rossi, is an Ixodid tick-transmitted pathogen that causes the most severe form of canine babesiosis disease. Compared to other Babesia pathogens of dogs, B. rossi exhibits unique pathophysiology, virulence, and a responsiveness …
Read PDFThe Chinese herring (Ilisha elongata) is a commercially and scientifically significant fish species. In this study, we conducted high-precision whole-genome sequencing using two high-throughput platforms: second-generation MGI and third-generation PacBio. Hi-C technology assisted in assembling …
Read PDFThe filarioid nematode <i>Dirofilaria immitis</i> is the causative agent of heartworm disease, a major parasitic infection of canids, felids and occasionally humans. Current prevention relies on macrocyclic lactone-based chemoprophylaxis, but the emergence of drug resistance …
Read PDFAlnus glutinosa is one of only three lineages within the order Fagales capable of establishing root nodule symbiosis (RNS). Although a fragmented genome assembly of A. glutinosa was previously available, its limited quality, combined with …
Read PDF<i>Myxococcus xanthus</i> DZ2, a model myxobacterium, has three reported genome assemblies, including two recent complete assemblies (MxDZ2_Tam and MxDZ2_Nan) from the same culture stock. These assemblies misreported their circular nature and differed by 6.4 kb, …
Read PDFBACKGROUND: The Vespa lineage of hornets demonstrate the potential to displace native species and cause significant damage to US apiculture through predation. In spite of introductions in recent years to North America, eradication efforts have …
Read PDFThe wild relatives of cultivated rice (Oryza sativa L.) represent largely untapped sources of novel genetic material for crop improvement. Here, we present a chromosome-level, haplotype-resolved genome for O. australiensis, an Australian wild rice relative, …
Read PDF<i>Brassica juncea</i> var. <i>tumida</i>, commonly known as Zha Cai, is a pickled stem mustard widely cultivated in southern China. Its most distinctive trait is the swollen stem, which serves as the primary economic organ for …
Read PDFCassava (Manihot esculenta Grantz) is a vital staple crop for millions of people, particularly in Sub-Saharan Africa, where it is a primary source of food and income. However, cassava production is threatened by several viral …
Read PDFThe cattle genome is crucial for understanding ruminant biology, but it remains incomplete. Here we present a telomere-to-telomere haplotype-resolved X chromosome and four autosomes of cattle in a near-complete assembly that is 431 Mb (16%) …
Read PDF<i>Cucumis sativus</i> L., commonly known as cucumber, is an important vegetable crop worldwide, with China as the largest producer, particularly of the North and South China types. While extensive genomic research has focused on the …
Read PDFGenome assembly and structural variation analysis of strawberry varieties are essential for understanding the genetic basis of fruit quality traits, such as fruit texture, organic acid content and aroma. In this study, we employed PacBio …
Read PDF<h4>Background</h4>The current cattle reference genome, derived from a single Hereford cow, does not capture the full spectrum of genetic diversity present within the species. Moreover, detecting structural variations (SVs ≥ 50 nucleotides long) remains challenging …
Read PDF<h4>Background</h4>The current cattle reference genome assembly, a pseudo-linear sequence produced using sequences from a single Hereford cow, represents a limitation when performing genetic studies, especially when investigating the whole spectrum of genetic variations within the …
Read PDFApios americana and Apios priceana are tuber-forming legumes native to North America with ecological value and agricultural potential. The lack of genomic resources has limited comparative studies and crop improvement for these species. Here, we …
Read PDFGenomic medicine relies on single reference genomes that miss crucial genetic diversity, creating diagnostic gaps that disproportionately affect underrepresented populations. Pangenome graphs, collections of diverse genomes represented as interconnected genetic paths, offer a powerful alternative …
Read PDFHuman-driven environmental changes threaten the region's dominant trees. China's fengshui forests harbor ancient trees with cultural and ecological significance, yet their climate resilience remains uncertain. By integrating genome and resequencing data, we investigate the structural …
Read PDFMutations that arise in the shoot apical meristems can become fixed, but typically only in one of the meristem layers. Therefore, in long-lived, clonally propagated species, polymorphic genomes coexist in the form of periclinal chimeras. …
Read PDFWe present the first reference genome of the highly heterozygous autotetraploid Allium porrum (leek). Combining long-read sequencing with single-nucleotide polymorphism (SNP)-array screening of two experimental F1 populations, we generated a genetic map with 11,429 SNP …
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