BLAST r © (Basic Local Alignment Search Tool) is a set of similarity search programs designed to explore all of the available sequence databases regardless of whether the query is protein or DNA. The standard nucleotide-nucleotide BLAST [blastN] has relatively low sensitivity because of the poor information density of nucleotide sequences. The standard protein-protein BLAST [blastP] is much mor...

Whole-genome sequencing (WGS) could potentially provide a single platform for extracting all the information required to predict an organism's phenotype. However, its ability to provide accurate predictions has not yet been demonstrated in large independent studies of specific organisms. In this study, we aimed to develop a genotypic prediction method for antimicrobial susceptibilities. The who...

Bioinformatic tools have become essential to biologists in their quest to understand the vast quantities of sequence data, and now whole genomes, which are being produced at an ever increasing rate. Much of these sequence data are single-pass sequences, such as sample sequences from organisms closely related to other organisms of interest which have already been sequenced, or cDNAs or expressed...

BACKGROUND Smithia conferta Sm. is an annual herb widely used in Indian traditional medical practice and commonly known as "Lakshman booti" in Sanskrit. Morphological resemblance among the species of genus Smithia Aiton. leads to inaccurate identification and adulteration. This causes inconsistent therapeutic effects and also affects the quality of herbal medicine. AIM This study aimed to gen...

Because rice is the major source of food for half of the world population, a comprehensive understanding of its genome will have a tremendous impact on the status of agriculture in the Twenty-first Century. The Rice Genome Research Program (RGP) has undertaken an extensive rice genome analysis since its initial launching in 1991 that has resulted in the establishment of a catalog of rice genes,...

MOTIVATION The BLAST software package for sequence comparison speeds up homology search by preprocessing a query sequence into a lookup table. Numerous research studies have suggested that preprocessing the database instead would give better performance. However, production usage of sequence comparison methods that preprocess the database has been limited to programs such as BLAT and SSAHA that...

Abstract Phylogenetic analyses of sequences the nuc rDNA small subunit (18S), internal transcribed spacer (ITS1-5.8S-ITS2 = ITS), and large (28S) region (= 18S-ITS-28S), as well this concatenated with largest RNA polymerase II ( RPB1 ) gene, proved that species originally described Acaulospora polonica (phylum Glomeromycota represents a new genus family ancient order Archaeosporales, here intro...

In a survey in 2020, Salix babylonica trees displaying symptoms of phyllody, little leaves, and dieback were observed Xinjiang province China. Nested PCRs carried out using universal primer pairs for 16 S rRNA tuf genes, detected the presence phytoplasmas symptomatic trees, while no amplification was found symptomless trees. Blastn phylogenetic analyses showed that belong to species ‘Candidatus...

In this study, a novel Escherichia coli-specific bacteriophage, vB_EcoM_IME392, was isolated from chicken farm sewage in Qingdao, China. The genome of IME392 found by next-generation sequencing to be 116,460 base pairs length with G+C content 45.4% (GenBank accession number MH719082). BLASTn results revealed that only 2% the sequence shows similarity known phage sequences GenBank database, whic...