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A set of six LAMP primers were designed based on the matrix gene sequence of PPRV to amplify the target RNA by incubation at 63 °C for 60 min with Bst DNA polymerase and reverse transcriptase.
The matrix gene sequence of the outlier clade-b specimen (NHRC_393) reveals -AGT- as serine (S) codon 31 of the M2 peptide, a genotype consistent with an amantadine-sensitive phenotype.
We note that results of assays using inactivated influenza virus vaccines identify detected type A matrix gene sequences are most closely (and correctly) matched by matrix gene sequence records from the A/Puerto Rico/8/34 (H1N1) master donor strain that is used for gene segment re-assortment to select for the inactivated vaccine strains.
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The RPM-Flu microarray includes four influenza virus matrix gene detector tiles, representing matrix gene sequences from selected reference strains of A/H1N1(human), A/H3N2(human), A/H5N1 avian) and B(human) types and subtypes.
However for each of the human and avian subtypes of type A influenza viruses, it is generally the case that all three of the corresponding type A matrix gene detector tiles generate very similar and overlapping specimen-specific matrix gene sequences.
This example of the integrity of RPM-Flu assay-generated target pathogen gene sequencing for detection and identification is reinforced by results for the other specific hemagglutinin, neuraminidase, and matrix gene sequences from the same RPM-Flu assay of the same aliquot of FluMist vaccine.
Primers and probe were designed based on the matrix gene sequences from most animal and human A influenza virus subtypes.
Also noteworthy are subtractive cDNA libraries enriched with hundreds of putative organic matrix gene sequences [ 18, 19].
Nucleotide and amino acid phylogenetic analysis of partial matrix gene sequences of the buffalo isolates and six field BPIV3 isolates from bovines in Argentina were studied.
Partial identity of the viral matrix gene sequences with wild type sequence was found in the blood of some recipients, which were analyzed using cDNA sequencing (Additional file 1: Figure S1) which provided direct evidence of viremia.
Virus RNA was extracted and tested for all influenza types and specific subtypes by using a series of PCRs specific for matrix gene sequences of influenza A and B viruses.
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