Sentences with phrase «sequences from»

Comparative analysis of genome sequences from four strains of the Buchnera aphidicola Mp endosymbion of the green peach aphid, Myzus persicae

We present 42 new Y - chromosomal sequences from diverse Indian tribal and non-tribal populations, including the Jarawa and Onge from the Andaman Islands, which are analysed within a calibrated Y - chromosomal phylogeny incorporating South Asian (in total 305 individuals) and worldwide (in total 1286 individuals) data from the 1000 Genomes Project.

One particularly surprising finding observed in sequences from chromosomes 2 and 4 was the amount of gene duplication.

Protein sequences from 3D7 reference P. falciparum strain were truncated to remove endogenous signal peptides and sequences corresponding to GPI anchors.

This annotation was used to query 107 whole genome sequences from 19 breeds and identified over 5500 alleles across the 550 genes of the seven AR loci: the IG heavy, kappa, and lambda loci; and the TR alpha, beta, gamma, and delta loci.

Conclusions: There were some strong phylogenetic links with sequences from samples collected in geographically proximal regions, with some of the samples from the same time - period resulting to small clusters at the tree - end points.

By comparing genome sequences from carefully chosen organisms, scientists are able to identify specific DNA sequences that have been conserved throughout the evolution of different species, which is a strong indicator that these sequences reflect functionally important regions of the genome.

A position - specific scoring matrix (PSSM) was created by aligning sequences from the five classes of known qnr -, qnrS1 (BAD88776) using ClustalW 2.0 [50].

Many of these entities collect DNA and RNA sequences from scientific papers and genome projects.

Moreover, the viral sequences from XMRV - positive patients lacked the level of genetic diversity expected for retroviral infections [1], [14], implying that XMRV may have arisen from sample contamination and not true viral infection.

Here, we perform a comprehensive investigation using 3,059 newly generated low - depth whole - genome sequences from eight European isolates and two matched general populations, together with published data from the 1000 Genomes Project and UK10K.

Here, we investigate whether the contemporary HG strategy was already present in the Upper Paleolithic (UP), using complete genome sequences from Sunghir, a site dated to ~ 34 thousand years BP (kya) containing multiple anatomically modern human (AMH) individuals.

Viral gene sequences from an enlarged set of about 200 Epstein - Barr virus (EBV) strains including many primary isolates have been used to investigate variation in key viral genetic regions, particularly LMP1, Zp, gp350, EBNA1 and the BART miRNA cluster 2.

Future studies, including data from larger sample sizes of wild - born and geographically well - defined individuals, and full Y - chromosome sequences from bonobos, gorillas and orangutans, promise to further our understanding of population histories, male - biased behaviours, mutation processes, and the functions of Y - chromosomal genes.

From genomic and epigenomic sequences from a subset of the populations, we see changes in methylation patterns between the evolved populations over-represented in some functional categories of genes, which is consistent with some of these differences being adaptive.

After extensively characterizing the 47 - kb deleted region and flanking sequences from the wild - type mouse genome, we found evidence for only one gene sequence in the deleted region.

Here, we present whole - genome sequences from 10 individuals excavated close to Cambridge in the East of England, ranging from the late Iron Age to the middle Anglo - Saxon period.

All sequences from the ISFinder [52] were downloaded (2565 sequences, 19 families of insertion sequences).

No mutants of these genes exist in a large database of parasite sequences from uncultured clinical samples.

By performing a meta - analysis of rare coding variants in whole - exome sequences from 4,133 schizophrenia cases and 9,274 controls, de novo mutations in 1,077 family trios, and copy number variants from 6,882 cases and 11,255 controls, we show that individuals with schizophrenia carry a significant burden of rare, damaging variants in 3,488 genes previously identified as having a near - complete depletion of loss - of - function variants.

Intriguingly, this clade also comprised epidemiologically unrelated isolate sequences from the UK and Denmark dating back as early as 2011.

This dataset contains millions of genomic sequences from a diverse set of rice varieties that, when combined with phenotyping observations, gene expression, and other information, provides an important step in establishing gene - trait associations, building predictive models, and applying these models to breeding.

Using exome sequences from 3222 British - Pakistani individuals with high parental relatedness, we estimate a mutation rate of 1.45 ± 0.05 × 10 -LRB--8) per base pair per generation in autosomal coding sequence, with a corresponding non-crossover gene conversion rate of 8.75 ± 0.05 × 10 -LRB--6) per base pair per generation.

Complete genome sequences from more than a thousand organisms as well as data from large - scale protein structure determination projects are also publicly available.

They then scanned multiple RNA sequences from the sample, and used genetic databases to help them decide which candidate sequence would be best suited for its purpose as a broad Zika reference.

For known Boule homologs, DNA sequences from various species were retrieved from the literature and the Genbank database.

(C) Based on the sequences from mammals and insects, the consensus RRM sequences (RNP1 and RNP 2) for Boule are likely representative of bilaterian Boule.

Facilitating the interface between the discovery of new sequences from the Human Genome Project and the designation of the derived entities as functional biological targets and potential drug targets;

Although the diversity of sponges and their uncertain phylogeny make it doubtful that any single species can reveal the intricacies of early animal evolution, comparison of the A. queenslandica draft genome with sequences from other species can provide a conservative estimate of the genome of the common ancestor of all animals and the timing and nature of the genomic events that led to the origin and early evolution of animal lineages.

Genetic Analysis of HIV Genomic DNA Sequences from Phenotypic and Antigen - specific CD4 + T Cell Subsets

Sequences from first settlers reveal rapid evolution in Icelandic mtDNA pool.

It can be used to glean a bulk of entire mitochondrial sequences from GenBank database instantly.

Tracing the Route of Modern Humans out of Africa by Using 225 Human Genome Sequences from Ethiopians and Egyptians.

Claimed DNA sequences from dinosaur bones were found to result from this process and the Mungo sequence shows features common in damaged DNA.

Yet, 8 % of the human genome is based on exogenous sequences from retroviruses [54].

Sequences from ten to thousands of units long consisting of adenine (A), cytosine (C), guanine (G), and thymine (T), are scattered around the genome.

Our supermatrix expands upon these previous studies by bringing together sequences from a wide array of molecular studies, supplemented by new data for four genes, to yield a single primate phylogeny with strong support for the monophyly of most primate genera, families, and higher - level taxa (Primates, Strepsirrhini, Lemuriformes, Lorisiformes, Haplorhini, Tarsiiformes, Simiiformes, Catarrhini, Platyrrhini).

He presented a talk about the high - quality genome sequences from three important food crops in the gourd family at the Cucurbita workshop.

«People have been successful in retrieving collagen sequences from specimens dating up to 4 million years old, and this is just the start,» said University of York Professor Matthew Collins, whose lab did the sequencing work.

cDNA libraries, which consist of plasmids that over-express coding sequences from a given cell type or organism, have been used in a similar manner to Cas9 activators.

This periodicity is reminiscent of the nucleosomal protection patterns characterized for DNA sequences from other fossil material (21).

MHRP's molecular epidemiologists played a key role on a research team that analyzed the HIV - 1 genome sequences from infected volunteers in the Step HIV vaccine trial.

DENV - 3 genotype III sequences from Asia are significantly divergent from those from the Americas due to their geographical separation and subsequent speciation.

We have developed a novel method for acquiring haplotypic sequences from long PCR products using simple, high - throughput techniques.

Scalable metagenomics alignment research tool (SMART): a scalable, rapid, and complete search heuristic for the classification of metagenomic sequences from complex sequence populations — Aaron Y Lee — BMC Bioinformatics — 2016

Researchers isolated and then analyzed the HIV - 1 whole genome sequences from 68 newly infected volunteers in the Step study.

The Vertebrate Genome Annotation (Vega) database (http://vega.sanger.ac.uk) has been designed to be a community resource for browsing manual annotation of finished sequences from a variety of vertebrate genomes.

Our reference genome has been assembled from DNA sequences from Sally, processed from 2012 - 2014.

Shannon entropy analysis of the NS5 polymerase mature protein revealed that a G374E mutation, in a region that contributes to interferon resistance in other flaviviruses by interfering with JAK - STAT signaling was present in both the Asian and American sequences from the 2007 - 2008 Venezuelan outbreak, but was absent in the sequences from the 2001 Venezuelan outbreak.

In this study, researchers analyzed imaging sequences from a total of 89 women who were, on average, approximately 48 years old.