Phylogenetic marker
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Echinostomiasis is a neglected disease caused by the intestinal flukes (family Echinostomatidae, suborder Echinostomata) and is common in communities in Asian countries, such as India, Indonesia, the Philippines, China, Malaysia, Singapore, Korea, Japan, Thailand, Laos, Cambodia and Vietnam. The genetic markers from the nuclear ribosomal transcription units are commonly used in genetic studies and phylogenetic analyses.
11p vimulcahy 18-09-2023 5 3 Download
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Chloroplast DNA is a primary source of molecular variations for phylogenetic analysis of photosynthetic eukaryotes. However, the sequencing and analysis of multiple chloroplastic regions is difficult to apply to large collections or large samples of natural populations.
14p vinarcissa 21-03-2023 4 1 Download
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In this study, a new species, P. nana, from northeast Chongqing in the north of the Yangtze River is described and illustrated. Bayesian inference and maximum likelihood analyses based on two nuclear ribosomal DNA regions (ITS and ETS) and three plastid DNA markers (rpl32-trnL, rps16, and trnL-trnF) were carried out to explore the phylogenetic position of the new species within Paraphlomis.
8p lyhuyenthu 31-01-2023 6 2 Download
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"Inter-primer binding site (iPBS) retrotransposon markers provide insights into the genetic diversity and population structure of carrots (Daucus, Apiaceae)" of genetic diversity and population structure are essential as an initial step in conservation and breeding programs for modern crops. Carrot (Daucus spp.) is among the ten most important vegetables worldwide, however, its genetic structure and phylogenetic relationships are not totally deciphered.
10p lyhuyenthu 31-01-2023 3 2 Download
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Grain weight is an important yield component. Selection of advanced lines with heavy grains show high grain sink potentials and strong sink activity, which is an increasingly important objective in wheat breeding programs.
11p vihagrid 30-01-2023 7 3 Download
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DNA barcoding has been widely used to assess species diversity in a variety of ecosystems, including temperate, subtropical, and tropical rain forests. However, due to the difficulties associated with field exploration, most of the species in Truong Sa archipelago have never been barcoded.
8p vilamborghini 12-10-2022 7 4 Download
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Populations of common quail (Coturnix coturnix) have recently been declining in Europe. This is the first study of common quail in eastern Europe using molecular markers. The mtDNA D-loop genetic diversity of common quails migrating through Ukraine was analyzed and compared with that of birds migrating via northern Spain in 2017–2018. In samples from 77 birds, 32 polymorphic sites and 30 haplotypes (H1–H30) were identified, only 4 of which were common for birds sampled in both Ukraine and Spain. Phylogenetic analysis indicated 2 well-supported clades.
4p dolomite36 30-12-2021 10 0 Download
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The common vole Microtus arvalis (Pallas, 1778) is the most widespread Microtus species. It has two forms – the European arvalis form (2n: 46, NF: 84) and the Asian obscurus form (2n: 46, NF: 72). The present study aimed to clarify the taxonomic status of M. arvalis populations distributed in Eastern Turkey, Europe and Asia by analysing two mitochondrial (CYTB and COX1) and one nuclear (IRBP) markers.
17p dolomite36 30-12-2021 12 0 Download
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This study was done to assess the occurrence of virulence factors and correlation of phylogenetic grouping in ESBLs producing E. coli isolates from Palestine. Twenty-seven ESBLs producing E. coli isolates were collected between April and June 2013 from three hospitals in Gaza. Detection of genes encoding virulence factors, pathogenicity associated island marker (PAI) and phylogenetic groups were studied by PCR. The correlation of E. coli phylogenetic grouping with the virulence factors in the isolates was studied.
6p mudbound 10-12-2021 10 1 Download
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In this study, Edwardsiella strains were differentially classified into four species by a phylogenomics construction based on the pan-genome analysis. Edwardsiella species were correctly classified by pan-genome analysis (core gene, dispensable gene, singleton gene) of 15 complete genomes.
3p viwilliamleiding 10-12-2021 16 1 Download
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Eastern Mediterranean is considered as a center of diversity of Cynodon spp. (Bermudagrass). Phylogenetic analysis from diploids to hexaploids can help our understanding underlying mechanism of polyploidization. Inter-primer binding site (iPBS) markers amplify highly polymorphic long terminal repeat retrotransposons. The objectives were to (1) investigate associations between ploidy level and genetic diversity based on iPBS markers and (2) correlate between similarity matrices of iPBS retrotransposon marker and four nuclear molecular marker systems for Cynodon accessions’ genetic analyses.
13p tudichquannguyet 29-11-2021 9 1 Download
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Skeletonema species are prominent primary producers, some of which can also cause massive harmful algal blooms (HABs) in coastal waters under specific environmental conditions. Nevertheless, genomic information of Skeletonema species is currently limited, hindering advanced research on their role as primary producers and as HAB species. Mitochondrial genome (mtDNA) has been extensively used as “super barcode” in the phylogenetic analyses and comparative genomic analyses. However, of the 21 accepted Skeletonema species, full-length mtDNAs are currently available only for a single species, S.
14p vilarryellison 29-10-2021 5 0 Download
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Complete mitochondrial genomes are much better suited for the taxonomic identification and phylogenetic studies of nematodes than morphology or traditionally-used molecular markers, but they remain unavailable for the entire Camallanidae family (Chromadorea).
17p vilarryellison 29-10-2021 12 1 Download
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Simple sequence repeats (SSR), also called microsatellites, have been widely used as genetic markers, and have been extensively studied in some model insects. At present, the genomes of more than 100 insect species are available. However, the features of SSRs in most insect genomes remain largely unknown.
10p vilarryellison 29-10-2021 7 0 Download
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Inferring phylogenetic trees for newly recovered genomes from metagenomic samples is very useful in determining the identities of uncultivated microorganisms. Even though 16S ribosomal RNA small subunit genes have been established as “gold standard” markers for inferring phylogenetic trees, they usually cannot be assembled very well in metagenomes due to shared regions among 16S genes. Using single-copy marker genes to build genome trees has become increasingly popular for uncultivated species.
10p vilarryellison 29-10-2021 9 1 Download
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Salmonella enterica is a significant foodborne pathogen, which can be transmitted via several distinct routes, and reports on acquisition of antimicrobial resistance (AMR) are increasing. To better understand the association between human Salmonella clinical isolates and the potential environmental/animal reservoirs, whole genome sequencing (WGS) was used to investigate the epidemiology and AMR patterns within Salmonella isolates from two adjacent US states.
14p vitzuyu2711 29-09-2021 20 1 Download
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Due to the recent domestication of peanut from a single tetraploidization event, relatively little genetic diversity underlies the extensive morphological and agronomic diversity in peanut cultivars today. To broaden the genetic variation in future breeding programs, it is necessary to characterize germplasm accessions for new sources of variation and to leverage the power of genome-wide association studies (GWAS) to discover markers associated with traits of interest.
17p visilicon2711 20-08-2021 16 1 Download
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Atractylodes DC is the basic original plant of the widely used herbal medicines “Baizhu” and “Cangzhu” and an endemic genus in East Asia. Species within the genus have minor morphological differences, and the universal DNA barcodes cannot clearly distinguish the systemic relationship or identify the species of the genus.
12p vilichoo2711 25-06-2021 9 1 Download
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Physalis L. is a genus of herbaceous plants of the family Solanaceae, which has important medicinal, edible, and ornamental values. The morphological characteristics of Physalis species are similar, and it is difficult to rapidly and accurately distinguish them based only on morphological characteristics.
14p vijichea2711 28-05-2021 10 1 Download
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The creation and use of molecular markers for the recognition and exploitation of DNA polymorphism is one of the most important developments in the field of molecular biology. Molecular markers, due to their consistency, low cost and effortless use have become a popular tool for a variety of applications including gene tagging, phylogenetic and genetic diversity analysis and genome mapping.
16p trinhthamhodang11 27-04-2021 10 1 Download