A second possibility to explain the higher prevalence of sequence variation in the surfaceloops is that that region of the VSG polypeptide is more tolerant of sequence variation than the remainder of the VSG polypeptide.
This prompted us to examine the prevalence and sequence diversity of these proteins in a panel of N. meningitidis disease isolates.
We have examined three genes encoding antigens (NadA, GNA1030 and GNA2091) included in a novel vaccine, i.e. the 5 Component Vaccine against Meningococcus B (5CVMB), in terms of gene prevalence and sequence variations.
Recently prevalence of sequence with potential to form G4 DNA was noted outside telomeres across the whole human genome [22], particularly within promoters in human [9], [23] and other mammals [10], chicken [24] and several bacteria [8] suggesting the possibility of G4 DNA as a cis-regulatory site.
Additional file 1: Sample selection, county level prevalence and sequence typing data.
The prevalence of sequence errors among existing Ambystoma assemblies necessitated development of a quality-controlled manual editing methodology to minimize error rates within AESTdb contig sequences.
Prevalence and sequence types likely vary between cattle, sheep and goats and only part of the epidemiological system of C. burnetii is presented here.
To assess the prevalence and sequence variation of mitochondrial genes in the transcriptome data, we used the annotated mitochondrial genome for O. princeps [ GenBank: NC005358] as a reference for read mapping (CLC Genomics Workbench v.5.5, similarity = 0.90, length fraction 0.5).
Disease prevalence and sequence data should be directly linked to provide a denominator to help determine whether undersampling or oversampling are truly occurring, which would allow for correction of sampling numbers across regions.
The Promoter Analysis and Interaction Network Toolset (PAINT, v 3.6) identifies common upstream transcription factor binding sequences in a list of genes and compares the prevalence of sequences within the set to that expected to be found by chance in a given list of transcription regulatory elements (TREs) http://www.dbi.tju.edu/dbi/tools/paint/[ 20, 21].
Prevalence of sequences from Ascomycotina is likely to reflect a greater genome sequencing effort in this taxonomic group, rather than a higher occurrence of the GH11 family among Ascomycotina.
