Consensus insertion/deletions and amino acid variations of all coding and noncoding regions of the SARS-CoV-2 Omicron clades, including the XBB and BQ.1 lineages.

The currently dominant Omicron variant of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has swiftly diverged into clades. To predict the probable impact of these clades, the consensus insertions/deletions (indels) and amino acid substitutions of the whole genome of clades were compared with the original SARS-CoV-2 strain. The evolutionary history of representatives of clades and lineages was inferred using the maximum-likelihood method and tested using the bootstrap method.

Whole-Genome Comparison of Representatives of All Variants of SARS-CoV-2, Including Subvariant BA.2 and the GKA Clade.

Since its discovery at the end of 2019, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has rapidly evolved into many variants, including the subvariant BA.2 and the GKA clade. Genomic clarification is needed for better management of the current pandemic as well as the possible reemergence of novel variants.

A large cluster of human infections of in Bali, Indonesia.

A cluster of 18 inpatients and 21 outpatients with a major complaint of meningitis and a history of sharing traditional delicacies of raw pork and pig blood in a village festival led to the suspicion of meningitis in Sibang Kaja Village, Badung, Bali, Indonesia. We conducted an investigation and case finding to prevent human fatalities. Demography and laboratory examinations of the inpatients were recorded.

Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron.

The prolonged global spread and community transmission of severe acute respiratory syndrome virus 2 (SARS-CoV-2) has led to the emergence of variants and brought questions regarding disease severity and vaccine effectiveness. We conducted simple bioinformatics on the spike gene of a representative of each variant. The data show that a number of polymorphic amino acids are located mostly on the amino-terminal side of the S1/S2 cleavage site.

Cloning, heterologous expression, and characterization of a novel thioesterase from natural sample.

A novel thioesterse gene was successfully cloned and sequenced directly from natural sample of Domas Hot Spring, West Java, Indonesia. Homological analysis of the sequence showed that the gene appeared high homology to thioesterase genes with the highest to a putative thioesterase gene from uncultured at 66% identity. However, phylogenetic analysis showed that the protein was separated from the branch with other known thioesterases.