• Multilocus sequence typing (MLST) is a technique in molecular biology for the typing of multiple loci, using DNA sequences of internal fragments of multiple housekeeping genes to characterize isolates of microbial species. (wikipedia.org)
  • MLST directly measures the DNA sequence variations in a set of housekeeping genes and characterizes strains by their unique allelic profiles. (wikipedia.org)
  • Quoting Staphylococcus aureus as an example, seven housekeeping genes are used in MLST typing. (wikipedia.org)
  • Thus both the number and type of housekeeping genes interrogated by MLST may differ from species to species. (wikipedia.org)
  • For each of these housekeeping genes, the different sequences are assigned as alleles and the alleles at the loci provide an allelic profile. (wikipedia.org)
  • This does not use the assigned alleles, but instead concatenates the sequences of the gene fragments of the housekeeping genes and uses this concatenated sequence to determine phylogenetic relationships. (wikipedia.org)
  • Additional multilocus sequence analysis, including sequences of the housekeeping genes rpoA , recA , pyrH , gyrB and ftsZ , and DNA-DNA hybridization experiments indicated that the strains were distinct from currently known species of the genus Vibrio and confirmed the clustering of the three isolates. (microbiologyresearch.org)
  • In order to investigate which phytoplasmas constitute discrete, species-level taxa, several strains were analysed by comparing their 16S rRNA gene sequences and a set of five housekeeping genes. (uibk.ac.at)
  • To resolve phylogenetic relationships among ries of bacterial clonal complexes by using concatenated isolates, we sequenced 68 isolates from Europe and North sequences of housekeeping genes when within-loci and America at 1 chromosomal locus (16S-23S ribosomal RNA between-loci recombinations are infrequent ( 5 ). (cdc.gov)
  • In the final analysis step of MLST, the relatedness of isolates are made by comparing allelic profiles. (wikipedia.org)
  • Alternatively, the relatedness of isolates can also be analysed with MultiLocus Sequence Analysis (MLSA). (wikipedia.org)
  • Sequencing and evolutionary analyses of four genes in an additional 42 isolates representing 23 serotypes confirmed branch specific positive selection and recombination patterns. (biomedcentral.com)
  • CONCLUSIONS: Genomic data can be used to characterise bacterial isolates in many different ways but it can also be efficiently exploited for evolutionary or functional studies. (ox.ac.uk)
  • The new isolates formed a distinct clade, which was most closely related to Leptospira borgpetersenii, in multilocus sequence analysis using concatenated sequences of the genes rpoB, recA, fusA, gyrB, leuS and sucA. (nih.gov)
  • Analysis of average nucleotide identity and genome-to-genome distances, which have recently been proposed as reliable substitutes for classical DNA-DNA hybridization, further confirmed that these isolates should be classified as representatives of a novel species. (nih.gov)
  • The present study was taken up to explore 16S rRNA gene sequence to develop methods that can be used for preliminary identification and can supplement the existing methods for identification of clinically-relevant isolates of the genus Streptococcus . (biomedcentral.com)
  • N. meningitidis isolates were evaluated for antibiotic susceptibility and characterised by whole genome sequencing. (bmj.com)
  • Genetic relationships among the meningococcal carriage isolates were determined using core genome multilocus sequence typing analysis. (bmj.com)
  • Whole-genome sequencing was performed on selected MDRE isolates to identify phylogroups and antibiotic resistance-encoding genes were identified with NCBI's AMRfinder tool. (biomedcentral.com)
  • Of the 20 MDRE isolates from infants that were sequenced, multilocus sequence typing revealed that 6/20 (30%) were clustered on the same branch as MDRE isolates found in the respective mothers. (biomedcentral.com)
  • All sequenced isolates for mothers (47) and infants (20) had at least one ESBL-producing gene. (biomedcentral.com)
  • The genetic homogeneity of ospC -A isolates was confi rmed agent, Borrelia burgdorferi , a spirochete that parasitizes by sequences at 6 additional chromosomal housekeeping vertebrates, is transmitted by hard-bodied ticks through- loci ( gap, alr, glpA, xylB, ackA, and tgt ). (cdc.gov)
  • Since its introduction for the research of evolutionary history, MLST has been used not only for human pathogens but also for plant pathogens. (wikipedia.org)
  • The principle of MLST is simple: the technique involves PCR amplification followed by DNA sequencing. (wikipedia.org)
  • The workflow of MLST involves: 1) data collection, 2) data analysis and 3) multilocus sequence analysis. (wikipedia.org)
  • We identify a set of 2,882 core genes clusters based on 73 publicly available Salmonella enterica genomes and evaluate their value as typing targets, comparing whole genome typing and traditional methods such as 16S and MLST. (biomedcentral.com)
  • Today, the most widely used typing methods for bacterial genomes include multilocus sequence typing (MLST), pulsed field gel electrophoresis (PFGE), sequencing of 16S rRNA genes, and multilocus variable-number of tandem-repeat analysis (MLVA). (biomedcentral.com)
  • The system builds on the widely used mlstdbNet software, developed for the storage and distribution of multilocus sequence typing (MLST) data, and incorporates the capacity to define and identify any number of loci and genetic variants at those loci within the stored nucleotide sequences. (ox.ac.uk)
  • We developed a multilocus sequence typing scheme (MLST) for tracking epidemics of " Ca . Phytoplasma palmicola," which is responsible for coconut lethal yellowing disease (CLYD) on the African continent. (uibk.ac.at)
  • MLST analysis applied to diseased coconut samples collected in western and eastern African countries also showed the existence of three distinct populations of " Ca . Phytoplasma palmicola" with low intrapopulation diversity. (uibk.ac.at)
  • Multilocus sequence typing (MLST) is the use of DNA dorferi ( 9 , 10 ). (cdc.gov)
  • These loci can be further organised into 'schemes' for isolate characterisation or for evolutionary or functional analyses. (ox.ac.uk)
  • This was inferred from sequence analysis of rrs (16S rRNA) and other genetic loci and suggests that they belong to a novel species. (nih.gov)
  • To evaluate the genetic diversity and population structure of I. lacunosa populations, we amplified inter-simple sequence repeats loci by polymerase chain reaction (ISSR-PCR) of 64 accessions using 14 ISSR primers for Ipomoea. (scirp.org)
  • Whereas 16S rRNA gene sequence similarity values were >97.5 %, the proposed threshold to distinguish two 'Candidatus Phytoplasma' taxa, phylogenetic analysis of the combined sequences of the tuf, rplV-rpsC, rplF-rplR, map and uvrB-degV genetic loci showed that two discrete phylogenetic clusters could be clearly distinguished. (uibk.ac.at)
  • Here we obtained a well-resolved polymorphism type of intergenic spacer (IGS) sequence phylogeny of B. burgdorferi sensu stricto clonal complexes (corresponding to the ospC- A and -B groups) is associated by using multilocus sequence typing at housekeeping loci with hematogenous dissemination in patients with early as well as loci under adaptive evolution. (cdc.gov)
  • Divergence time, population size, time of gene flow, distance of outgroup and number of loci were examined in a sensitivity analysis. (biomedcentral.com)
  • Rapid and reliable sub-typing of bacterial pathogens is important for identification of outbreaks and monitoring of trends in order to establish population structure and to study the evolution among bacterial genomes especially within and between the outbreak strains. (biomedcentral.com)
  • Whole-Genome Sequencing of Pathogens in Saliva : A Target-Enrichment Approach for SARS-CoV-2. (cdc.gov)
  • Streptococcus is an economically important genus as a number of species belonging to this genus are human and animal pathogens. (biomedcentral.com)
  • New DNA sequencing technologies have enabled detailed comparative genomic analyses of entire genera of bacterial pathogens. (biomedcentral.com)
  • All three human pathogens carry a 70-kb pYV virulence plasmid (also known as pCD), which carries the Ysc type III secretion system and Yops effectors [ 18 - 20 ], that is not detected in non-pathogenic species. (biomedcentral.com)
  • Five Salmonella genome sequences, representing a broad host range serotype (Typhimurium), two host restricted serotypes (Typhi [two genomes] and Paratyphi) and one host adapted serotype (Choleraesuis) were used to identify core genome genes that show evidence for recombination and positive selection. (biomedcentral.com)
  • Genomic variation within the core genome is useful for investigating molecular evolution and providing candidate genes for bacterial genome typing. (biomedcentral.com)
  • Currently there are more than a hundred bacterial species for which sufficient genomic data are available to estimate the species core-genome (that is, there are at least three genomes sequenced from the same species) [ 14 ]. (biomedcentral.com)
  • Assessment of metrics in next-generation sequencing experiments for use in core-genome multilocus sequence type. (cdc.gov)
  • BACKGROUND: The opportunities for bacterial population genomics that are being realised by the application of parallel nucleotide sequencing require novel bioinformatics platforms. (ox.ac.uk)
  • The recent development of second generation sequencing platforms (reviewed by Mardis [ 7 , 8 ] and Shendure [ 7 , 8 ]) offers an opportunity to change the direction of microbial genomics, enabling the rapid genome sequencing of large numbers of strains of both pathogenic and non-pathogenic strains. (biomedcentral.com)
  • A regional query of such a database, based on the sequencing of a single specimen or environmental genomics using pyrosequencing technology [ 13 ], would allow researchers to compare diversity, uniqueness and complementarity at a far more rapid rate than morphological taxonomy alone. (biomedcentral.com)
  • Work on the genomics of marine organisms tries to focus on basic evolutionary questions but also on practical solutions to questions about how to preserve and protect the diverse life in the sea. (stanford.edu)
  • The core genes--the genes that are conserved in all (or most) members of a genus or species--are potentially good candidates for investigating genomic variation in phylogeny and epidemiology. (biomedcentral.com)
  • In Chapter 2, to understand signal evolution across a broad range of taxa, a strongly supported phylogenetic hypothesis is needed and I estimate a new multi-locus phylogeny using Sanger sequencing. (ku.edu)
  • Furthermore, despite the numerous works that contributed to understanding the molecular phylogeny of Boophis many aspects of their evolutionary relationships remain insufficiently supported and a complete Sanger multi-locus phylogeny had not been estimated. (ku.edu)
  • COI gene tree obtained by Maximum Likelihood and Bayesian have identical topologies agreeing with a multilocus phylogeny reconstructed in a previous work on Calisto and placing the new taxon as sister of C. hysius . (mapress.com)
  • The complete sequence of gyrA gene from 77 strains are reported in this study and analyzed in the context of publicly available sequences from N. meningitidis of other CCs as well as other Neisseria species. (biomedcentral.com)
  • Some clusters contain sequences from other Neisseria species. (biomedcentral.com)
  • Recombination within N.meningitidis strains and between Neisseria species was identified in SimPlot analysis. (biomedcentral.com)
  • Bacterial meningitis can be caused by several types of bacteria including Streptococcus pneumonia or Neisseria meningitidis ( N.meningitidis ). (biomedcentral.com)
  • More recent studies have also suggested high rates of recombination within the Neisseria genus ( Didelot & Maiden, 2010 ). (peerj.com)
  • Nowadays, the production of full Wolbachia genomes does not require the physical isolation of the bacterial strains from their respective hosts, and the bacterium is often sequenced as a by-catch of host genomic projects. (bvsalud.org)
  • Additionally, structures of D. planctonicum and D. hangangense strains were different type in Box-B and V3 region. (e-algae.org)
  • A group of strains representing species of the genus Leptospira, isolated from patients with leptospirosis in Mayotte (Indian Ocean), were previously found to be considerably divergent from other known species of the genus Leptospira. (nih.gov)
  • Draft genomes of the strains were also analysed to study the DNA relatedness with other species of the genus Leptospira. (nih.gov)
  • We studied the polymorphism of the lfb1 gene sequences in an exhaustive database, to facilitate the identification of Leptospira strains. (bvsalud.org)
  • On the basis of 16S rRNA gene sequencing, the three strains formed a cluster within the genus Vibrio and were most closely related to Vibrio pectenicida DSM 19585 T (97.9 % similarity). (microbiologyresearch.org)
  • Furthermore, the strains that are sharing the sequence of 4 or more genes (identified as a number for convenience) among the 7 genes used to determine STs could be classified into the same clonal complex (CC) [ 3 ]. (biomedcentral.com)
  • We found identical Salmonella sequence types in human, animal, and environmental samples in the same locality, which demonstrates the great potential of the applied tools to trace back outbreak strains. (biomedcentral.com)
  • We collected draft genome sequence data and associated metadata data on 76 N. gonorrhoeae strains from around the globe and searched for known determinants of antibiotics resistance within the strains. (peerj.com)
  • For this, it identifies and clusters co-localized genes encoding proteins of secretion systems using sequence similarity search with Hidden Markov Model (HMM) protein profiles. (bvsalud.org)
  • The genus has been divided into different groups based on 16S rRNA gene sequence similarity. (biomedcentral.com)
  • Antimicrobial susceptibility was determined by the agar dilution method, and bla(ESBL) genes were sequenced. (visavet.es)
  • Virulence and antimicrobial resistance genes, sequence type, and cluster analysis were investigated using WGS data. (biomedcentral.com)
  • With the advent and advancement of DNA based molecular studies over the last few decades, species, genera, families and orders of Ascomycota have been subjected to rapid taxonomic changes. (researchgate.net)
  • Genomic surveillance and improved molecular typing of Bordetella pertussis using wgMLST. (applied-maths.com)
  • We discuss amplicon-based DNA barcoding and metabarcoding for the analysis of community diversity and molecular gut content analysis for assessing predator-prey relationships. (springer.com)
  • This study compares the results of aerobic culturing and molecular testing (culture-free 16S ribosomal DNA sequencing), and it examines the relative abundance score that is generated by the molecular test and the usefulness of the relative abundance score in predicting the likelihood that the same organism would be detected by culture. (lookformedical.com)
  • doi:10.1016/S0304-4017(03)00206-1 L. David Sibley / Veterinary Parasitology 115 (2003) 185-198 relationship is supported both by morphological comparisons (presence of sub-cortical alve-olar membranes) and by molecular analyses based on conserved protein sequences or smallsubunit (SSU) rRNA sequences. (pdfmedarticles.com)
  • Conserved genes are present across bacterial genomes of the same species (or genus). (biomedcentral.com)
  • The deepest branching species in the genus, Y. ruckeri , causative agent of red mouth disease in fish, has the smallest genome (3.7 Mb), although it shares the same core set of approximately 2,500 genes as the other members of the species, whose genomes range in size from 4.3 to 4.8 Mb. (biomedcentral.com)
  • Here we describe the deployment of new sequencing technology to extensively sample eight genomes from the Yersinia genus of the family Enterobacteriaceae. (biomedcentral.com)
  • In this study we designed a set of PCR primers for the mitochondrial 12S ribosomal DNA sequence based on 64 complete mitochondrial genomes and then tested their efficacy. (lookformedical.com)
  • Alignment of sequences was performed for the excised mitochondrial 12S ribosomal DNA sequences, and conserved regions were identified for all 64 mitochondrial genomes. (lookformedical.com)
  • Looking to the future, the pairing of integrative taxonomy approaches with multi-locus genomic sequencing and phenomic techniques, such as transcriptomics and proteomics, holds great potential to resolve many unknowns in fungal taxonomic classification. (frontiersin.org)
  • The aim of this study was to develop, refine and evaluate an alternative methodology, which enables better preservation of large numbers of individual schistosome larval stages and eggs collected in low resource endemic areas, to provide PCR-quality DNA for multi-locus genetic analysis. (imperial.ac.uk)
  • These factors caused phylogenetics to enter an era of multi-locus analysis and is facilitated by availability of whole-genome sequencing [ 3 ]. (biomedcentral.com)
  • The markers generated exploring 16S rRNA gene sequences provided useful tool that can be further used for identification of different species of the genus Streptococcus . (biomedcentral.com)
  • Whole genome sequencing reveals the genomic diversity, taxonomic classification, and evolutionary relationships of the genus Nocardia. (cdc.gov)
  • To contribute to the taxonomic progress and integration of bioacoustic data, I describe a new species of Boophis by using these multiple lines of evidence and also suggesting future research to understand the evolution of advertisement calls in the genus. (ku.edu)
  • Next to descriptive taxonomic work, he's intrigued by the effect of recent technological developments (e.g DNA-sequencing technology) on our understanding of algal species boundaries, global diversity estimates, biodiversity patterns and current taxonomic practices. (marinespecies.org)
  • In addition to the grapevine flavescence dorée phytoplasmas, other members of taxonomic group 16SrV phytoplasmas infect grapevines, alders and species of the genera Clematis and Rubus in Europe. (uibk.ac.at)
  • For the most variable core genes, the variance in amino acid sequences is higher than for the corresponding nucleotide sequences, suggesting that there is a positive selection towards mutations leading to amino acid changes. (biomedcentral.com)
  • For these taxa, identification and classification were confirmed with comprehensive descriptions, colour illustrations and multi-gene phylogenetic analyses. (researchgate.net)
  • Traditional phylogenetic analyses that assume a bifurcating tree fails to model complicated evolutionary processes such as incomplete lineage sorting (ILS), gene flow, and horizontal gene transfer [ 1 ]. (biomedcentral.com)
  • suggested that planktic and benthic mat-forming Anabaena can be classified using 16S rRNA phylogenetic analysis. (e-algae.org)
  • A more recent line of interest concerns our focus on the interplay of algal community structure, evolutionary relatedness of the composing species and functional trait diversity. (marinespecies.org)
  • The population structure and evolutionary forces within the pathogen population were analyzed. (peerj.com)
  • Early work by O'Rourke & Stevens (1993) using electrophoretic analysis of enzymes of the pathogen and serological methods suggested that gonococci have a non-clonal sexual or panmictic population structure. (peerj.com)
  • Although Nanopore sequencing has increasingly been used in microbial metagenomics as long reads greatly improve the assembly quality of MAGs, the recommended DNA quantity usually exceeds the recoverable amount of DNA of environmental samples. (bvsalud.org)
  • Overall, the genus Dolichospermum is characterized by morphological characteristics, such as types of trichomes, length and width, shape, position of akinetes, morphology of vegetative cells and heterocytes, and existence of mucilaginous sheath, etc. (e-algae.org)
  • A first version of this trait database lists life history, ecological and morphological characteristics of all European seaweed genera (~ 800 genera). (marinespecies.org)
  • In the last two decades, DNA barcoding, the sequencing of short species-specific amplicons, has considerably simplified community analyses (Hebert et al. (springer.com)
  • To strike the balance between the acceptable identification power, time and cost for the strain typing, about seven to eight house-keeping genes are commonly used in the laboratories. (wikipedia.org)
  • A series of profiles can then be the identification marker for strain typing. (wikipedia.org)
  • nov. is proposed, with 200901116(T) ( = CIP 110703(T) = DSM 28999(T)) as the type strain. (nih.gov)
  • nov. (type strain PP-203 T = CECT 7398 T = DSM 21433 T ) is proposed. (microbiologyresearch.org)
  • An intracellular bacterium, strain IAST, was observed to infect several species of the plant-parasitic nematode genus Xiphinema (Xiphinema astaregiense, Xiphinema incertum, Xiphinema madeirense, Xiphinema pachtaicum, Xiphinema parapachydermum and Xiphinema vallense). (uibk.ac.at)
  • These results support the proposal of IAST as a new species, although its obligate intracellular and obligate endosymbiont nature prevented isolation of a definitive type strain. (uibk.ac.at)
  • The phylogenetic position of Sycidiphaga was demonstrated through sequencing four gene regions of COI , Cyt b , 28s D3-D5 and EF-1α genes and conducting a phylogenetic analysis of available sequences for the subfamily. (mapress.com)
  • Systematics and evolutionary biogeography of the genus Halimeda (Chlorophyta), with emphasis on the Indian Ocean. (marinespecies.org)
  • A comparative recombination analysis of human coronaviruses and implications for the SARS-CoV-2 pandemic. (cdc.gov)
  • Harmonization of whole-genome sequencing for outbreak surveillance of Enterobacteriaceae and Enterococci. (applied-maths.com)
  • BIGSdb: Scalable analysis of bacterial genome variation at the population level. (ox.ac.uk)
  • We use simulations to compare the statistical performance of Mongrail with that of an existing composite likelihood method (NewHybrids) and apply the method to analyze genome sequence data for hybridizing species of barred and spotted owls. (nfshost.com)
  • These involve comparing the barcode to sequence data from known species, as well as ancillary meta-data such as geography, observations and photographs. (biomedcentral.com)
  • This segregation was validated using species-specific signatures and in-silico restriction enzyme analysis. (biomedcentral.com)
  • In this chapter, we describe a complete pipeline of analysis, starting from (i) the integration of information from a reference set of experimentally studied systems, (ii) the identification of conserved proteins and the construction of their HMM protein profiles, (iii) the definition and optimization of "macsy-models," and (iv) their use and online distribution as tools to search genomic data for secretion systems of interest. (bvsalud.org)
  • Ultrastructural analysis of the bacterium showed cells that appear as mostly irregular, slightly curved rods with rounded ends, 0.8-1.2 µm wide and 2.5-6.0 µm long, possessing a typical Gram-negative cell wall. (uibk.ac.at)
  • Unlike microbial studies, where analysis of the 16S ribosomal DNA sequence is standard, the best gene for metazoan metagenetics is less clear. (lookformedical.com)
  • Vol 63: Ribosomal DNA Sequence Heterogeneity Reflects Intraspecies Phylogenies and Predicts Genome Structure in Two Contrasting. (lookformedical.com)
  • However, traditional Sanger sequencing-based DNA barcoding protocols can be prohibitively expensive and laborious when large community samples have to be processed. (springer.com)
  • The framework based analysis was used to segregate Streptococcus spp. (biomedcentral.com)
  • The genus Streptococcus consists of spherical Gram positive bacteria belonging to the class Bacilli and the order Lactobacillales [ 1 ]. (biomedcentral.com)
  • Since many species belonging to the genus Streptococcus are associated with various pathological conditions, different protocols have been used for their identification. (biomedcentral.com)
  • In the data collection step, definitive identification of variation is obtained by nucleotide sequence determination of gene fragments. (wikipedia.org)
  • In the data analysis step, all unique sequences are assigned allele numbers and combined into an allelic profile and assigned a sequence type (ST). If new alleles and STs are found, they are stored in the database after verification. (wikipedia.org)
  • A huge set of data is produced during the sequencing and identification process so bioinformatic techniques are used to arrange, manage, analyze and merge all of the biological data. (wikipedia.org)
  • RESULTS: The Bacterial Isolate Genome Sequence Database (BIGSDB) is a scalable, open source, web-accessible database system that meets these needs, enabling phenotype and sequence data, which can range from a single sequence read to whole genome data, to be efficiently linked for a limitless number of bacterial specimens. (ox.ac.uk)
  • Species diversity can be inferred using multiple data types, however, results based on genetic data can be at odds with patterns of phenotypic variation. (mdpi.com)
  • Build data systems that link various data sources and allow for automated, more efficient data analysis and visualization. (cdc.gov)
  • have produced data that suggest that the presence of Entamoeba- another gut-associated eukaryotic genus comprising multiple species of varying pathogencitiy-is strongly correlated with microbial composition and diversity. (blastocystis.net)
  • J. K. Triplett and Clark, L. G., "Hybridization in the Temperate Bamboos (Poaceae: Bambusoideae: Arundinarieae): A Phylogenetic Study Using AFLPs and cpDNA Sequence Data" , Systematic Botany, vol. 46, no. 1, pp. 48-69, 2021. (iastate.edu)
  • Specifically, PrioriTree provides a suite of functions to generate input files for-and summarize output from-BEAST analyses for performing robust Bayesian inference, data-cloning analyses and assessing the relative and absolute fit of candidate discrete-geographic (prior) models to empirical datasets. (nfshost.com)
  • This method is designed to be used on either one of two types of data: (1) sequence alignment where there is only one or a few samples per taxa, or (2) SNP data where the frequency of each allele in each population is known. (biomedcentral.com)
  • The price and time for whole genome sequencing will soon be in the same range as the traditional typing methods mentioned above. (biomedcentral.com)
  • I also develop the acoustic analysis pipeline used for acquiring frequency traits from thousands of calls rapidly, where these methods will be used in Chapter 5. (ku.edu)
  • Phenotypic diversity of rhizobia has been studied by several methods, particularly numerical analysis, enzyme pattern and serological study. (benthamscience.com)
  • Steve has lectured extensively on human-induced evolutionary change, has used genetic detective work to identify whales, seahorses, rockfish and sharks for sale in retail markets, and is developing genomic methods to help find ocean species resistant to climate change. (stanford.edu)
  • Among the earliest methods to detect gene flow are a homoplasy-based analysis that finds taxa that are intermediate between putative parent species [ 9 ], and a gene tree comparison that identifies locus divergence younger than the species' divergence [ 10 ]. (biomedcentral.com)
  • Other genes (atpD, lepA and recA) also separated this species from its closest relatives using a multilocus sequence analysis approach. (uibk.ac.at)
  • Numerical taxonomy of various genera of yeasts. (microbiologyresearch.org)
  • We highlight the relevance of eco-evolutionary theory used in conjunction with integrative taxonomy approaches to improve the understanding of interactions between environment, ecology, and evolution that give rise to distinct species boundaries. (frontiersin.org)
  • We found that costs related to site loss (considered loss of evolutionary history measured as loss of barcode PD) were not significantly different from predictions made either a) using standard morphology-based taxonomy, or b) measured using a nuclear marker. (biomedcentral.com)
  • Methodology/Principal Findings A total of the 64 complete mitochondrial genome sequences representing all metazoan classes available in GenBank were downloaded using the NCBI Taxonomy Browser. (lookformedical.com)
  • We sequenced the lfb1 gene amplification products from 170 biological samples collected from 2019 to 2021: 110 from humans and 60 from dogs. (bvsalud.org)
  • Parallel samples from 51 chronic wounds were studied using aerobic culturing and 16S DNA sequencing for the identification of bacteria. (lookformedical.com)
  • The production of Wolbachia genomic DNA free of contamination from host DNA, as required for Wolbachia-targeted sequencing, was then only possible after the amplification and extraction of a large amount of clonal Wolbachia DNA. (bvsalud.org)
  • Analysis of the global population structure of Paenibacillus larvae and outbreak investigation of American foulbrood using a stable wgMLST scheme. (applied-maths.com)
  • J. C. Huang and M. Sun, "Genetic Diversity and Relationships of Sweet Potato and Its Wild Relatives in Ipomoea series Batatas (Convolvulaceae) as Revealed by Inter-Simple Sequence Repeat (ISSR) and Restriction Analysis of Chloroplast DNA," Theoretical and Applied Genetics, Vol. 100, No. 7, 2000, pp. 1050-1060. (scirp.org)
  • Global subtype diversity, spatial distribution patterns, and phylogenetic analysis of Avian influenza virus in water. (cdc.gov)
  • High-throughput sequencing (HTS), particularly DNA metabarcoding, enables community-wide analyses of diversity and interactions at unprecedented scales and at a fraction of the cost that was previously possible. (springer.com)
  • The backbone in this type of research is the recognition that studies revealing a large contrast between the microbiomes of populations in developing countries and those of populations in urban industrialised areas have shown that geography is an important factor associated with the gut microbiome, but that such studies yet have to disentangle the effects of factors such as climate, diet, host genetics, hygiene and parasitism. (blastocystis.net)
  • Identification of genes with different degrees of variation is important especially in trend analysis. (biomedcentral.com)
  • In Chapter 1, I describe a new species of Boophis that is morphologically cryptic with its sister species but differs remarkably in advertisement call, which underlines the importance of call variation in the genus. (ku.edu)