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Simultaneous targeted amplicon deep sequencing and library preparation for a time and cost-effective universal parasite diagnostic sequencing approach
We recently described a targeted amplicon deep sequencing (TADS) strategy that utilizes a nested PCR targeting the 18S rDNA gene of blood-borne...
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Improved 18S rDNA profiling of parasite communities in salmonid tissues using a host blocking primer
Sensitive screening of eukaryotic communities in aquaculture for research and management is limited by the availability of technologies that can...
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Next-generation sequencing amplicon analysis of the genetic diversity of Eimeria populations in livestock and wildlife samples from Australia
Eimeria is an important coccidian enteric parasite that infects a wide range of hosts and can cause substantial economic losses in the poultry and...
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LotuS2: an ultrafast and highly accurate tool for amplicon sequencing analysis
BackgroundAmplicon sequencing is an established and cost-efficient method for profiling microbiomes. However, many available tools to process this...
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Amplicon sequencing allows differential quantification of closely related parasite species: an example from rodent Coccidia (Eimeria)
BackgroundQuantifying infection intensity is a common goal in parasitological studies. We have previously shown that the amount of parasite DNA in...
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Revealing the composition of the eukaryotic microbiome of oyster spat by CRISPR-Cas Selective Amplicon Sequencing (CCSAS)
BackgroundThe microbiome affects the health of plants and animals, including humans, and has many biological, ecological, and evolutionary...
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Plasmodium falciparum population structure inferred by msp1 amplicon sequencing of parasites collected from febrile patients in Kenya
BackgroundMultiplicity of infection (MOI) is an important measure of Plasmodium falciparum diversity, usually derived from the highly polymorphic...
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Concurrent molecular characterization of sand flies and Leishmania parasites by amplicon-based next-generation sequencing
BackgroundPhlebotomine sand flies are vectors of Leishmania parasites, which are the causative agents of leishmaniasis. Herein, we developed an...
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Ultra-accurate microbial amplicon sequencing with synthetic long reads
BackgroundOut of the many pathogenic bacterial species that are known, only a fraction are readily identifiable directly from a complex microbial...
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18S rRNA Gene-Based Piroplasmid PCR: An Assay for Rapid and Precise Molecular Screening of Theileria and Babesia Species in Animals
PurposeThe parasites of genera such as Babesia and Theileria are called piroplasmids due to the pear-shaped morphology of the multiplying parasite...
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Genetic variation of the freshwater snail Indoplanorbis exustus (Gastropoda: Planorbidae) in Thailand, inferred from 18S and 28S rDNA sequences
Indoplanorbis exustus , a freshwater pulmonate snail, is widely distributed in tropical and subtropical zones and plays a significant role as an...
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Sensitive universal detection of blood parasites by selective pathogen-DNA enrichment and deep amplicon sequencing
BackgroundTargeted amplicon deep sequencing (TADS) has enabled characterization of diverse bacterial communities, yet the application of TADS to...
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Sequencing-based analysis of microbiomes
Microbiomes occupy a range of niches and, in addition to having diverse compositions, they have varied functional roles that have an impact on...
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Unraveling metagenomics through long-read sequencing: a comprehensive review
The study of microbial communities has undergone significant advancements, starting from the initial use of 16S rRNA sequencing to the adoption of...
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Validation of Oxford nanopore sequencing for improved New World Leishmania species identification via analysis of 70-kDA heat shock protein
BackgroundLeishmaniasis is a parasitic disease caused by obligate intracellular protozoa of the genus Leishmania . This infection is characterized by...
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Parasites and blood-meal hosts of the tsetse fly in Tanzania: a metagenomics study
BackgroundTsetse flies can transmit various Trypanosoma spp. that cause trypanosomiasis in humans, wild animals, and domestic animals. Amplicon deep...
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Evidence of Plasmodium vivax circulation in western and eastern regions of Senegal: implications for malaria control
BackgroundMalaria elimination in Senegal requires accurate diagnosis of all Plasmodium species. Plasmodium falciparum is the most prevalent species...
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Effects of Lactiplantibacillus plantarum and Lacticaseibacillus paracasei supplementation on the single-cell fecal parasitome in children with celiac disease autoimmunity: a randomized, double-blind placebo-controlled clinical trial
BackgroundLactiplantibacillus plantarum HEAL9 and Lacticaseibacillus paracasei 8700:2 positively affect the fecal bacteriome in children with celiac...
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Development and evaluation of specific polymerase chain reaction assays for detecting Theileria equi genotypes
BackgroundTheileria equi causes equine piroplasmosis, an economically significant disease that affects horses and other equids worldwide. Based on...
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A duplex tetra-primer ARMS-PCR assay to discriminate three species of the Schistosoma haematobium group: Schistosoma curassoni, S. bovis, S. haematobium and their hybrids
BackgroundThe use of applications involving single nucleotide polymorphisms (SNPs) has greatly increased since the beginning of the 2000s, with the...
