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Phylogenomics data have grown exponentially over the last decades. It is currently common for genome-wide projects to generate hundreds or even thousands of phylogenetic trees and multiple sequence alignments, which may also be very large …
Read PDFSpecies of the genus <i>Ophidascaris</i> are zoonotic nematodes primarily parasitic in snakes, but limited genomic resources have hindered phylogenetic resolution and species delineation. To date, no ascarid nematodes have been documented in hedgehogs, making this …
Read PDF<b>Background:</b> Semisulcospiridae is a family of freshwater gastropods with over 100 species, primarily distributed in East Asia and North America. They play crucial ecological roles and are of medical importance as intermediate hosts for parasites. …
Read PDFMexico harbors ~45% of world's cacti species richness. Their biogeography and phylogenomics were integrated to elucidate the evolutionary history of the genera <i>Coryphantha</i>, <i>Escobaria</i>, <i>Mammillaria</i>, <i>Mammilloydia</i>, <i>Neolloydia</i>, <i>Ortegocactus</i>, and <i>Pelecyphora</i> (Mammilloid Clade). We analyzed 52 …
Read PDF<h4>Introduction</h4><i>Euphorbia resinifera</i> O. Berg (1863) is an endemic cactiform species from Morocco's arid High Atlas Mountains, valued for its medicinal properties and melliferous importance. It faces conservation challenges from habitat degradation and phylogenetic incongruence between …
Read PDFThe allopolyploid complexes in <i>Crocus</i> series <i>Verni</i> represent taxonomic challenges due to their variable or mostly overlapping morphology with one parental species. Moreover, their diploid ancestors remain unidentified, even with genome-wide SNP data. One such …
Read PDF<i>Lactobacillus mulieris</i> is a recently described species, reportedly isolated from human urine, vagina, and gut. Previous genomic studies of <i>L. mulieris</i> highlighted significant genetic diversity among its strains. To gain a deeper understanding of this …
Read PDF<h4>Background</h4>Parastrongyloides trichosuri Mackerras, 1959 (Nematoda: Strongyloididae) is a facultatively parasitic nematode infecting the common brushtail possum. A previously reported mitochondrial genome (mitogenome) from a Kruger National Park (KNP) isolate (GenBank: NC_028620) is incomplete, lacking the …
Read PDF<h4>Background</h4>Limonium Mill., a genus belonging to the family Plumbaginaceae, is mainly distributed along the Mediterranean coast of Eurasia. It is known for its rich species diversity and remarkable morphological variation, encompassing both herbaceous and semi-shrub …
Read PDFPlants inhabiting arid regions often harbor microbial communities that contribute to their resilience under extreme conditions. Yet, the genomic diversity and functional potential of bacterial endophytes associated with desert-adapted plants, particularly in Africa, remain largely …
Read PDF<h4>Background</h4>Scutellaria, a sub-cosmopolitan genus, stands as one of the Lamiaceae family's largest genera, encompassing approximately 500 species found in both temperate and tropical montane regions. Recognized for its significant medicinal properties, this genus has garnered …
Read PDFRecent theoretical and algorithmic advances in introgression detection, coupled with the growing availability of genome-scale data, have highlighted the widespread occurrence of interspecific gene flow across the tree of life. However, current methods largely depend …
Read PDFThe interplay between historical biogeography and environmental selection shapes the genetic architecture of species; however, their relative contributions in widespread and ecologically important tree species remain poorly understood. In the Sino-Japanese Floristic Region, the East …
Read PDF<h4>Background</h4>The Percidae family comprises many fish species of major importance for aquaculture and fisheries. Based on three new chromosome-scale assemblies in Perca fluviatilis, Perca schrenkii, and Sander vitreus along with additional percid fish reference genomes, …
Read PDFThe recent surge in plant genomic and transcriptomic data has laid a foundation for reconstructing evolutionary scenarios and inferring potential functions of key genes related to plants' development and stress responses. The classical scheme for …
Read PDF<h4>Background</h4>Longer branches in phylogenetic trees usually correspond to accelerated evolutionary rates. However, little is known about the potential correlation between accelerated evolution rates of organisms and their adapation to novel environments. Here, we sampled representative …
Read PDFPrevious phylogenies showed conflicting relationships among the subfamilies and genera within the fern family Ophioglossaceae. However, their classification remains unsettled where contrasting classifications recognize four to 15 genera. Since these treatments are mostly based on …
Read PDF<h4>Background</h4>The human T-cell leukemia virus type 1 (HTLV-1) is a neglected oncogenic retrovirus responsible for adult T-cell leukemia/lymphoma (ATLL) and autoimmune diseases that disproportionately affects marginalized populations worldwide. Peru reports the highest global ATLL incidence, …
Read PDFProbabilistic models such as the sequentially Markovian coalescent have long provided a powerful framework for population genetic inference, enabling reconstruction of demographic history and ancestral relationships from genomic data. However, these methods are inherently specialized, …
Read PDF<i>Pantoea stewartii</i> subsp. <i>stewartii</i> (Pss) is a Gram-negative bacterium causing Stewart wilt, a severe disease in maize. Native to North America, it has spread globally through the maize seed trade. Resistant maize varieties and insecticides …
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