Staphylococcus aureus from patients with chronic rhinosinusitis show minimal genetic association between polyp and non-polyp phenotypes

Background: Staphylococcus aureus has a high prevalence in chronic rhinosinusitis (CRS) patients and is suggested to play a more etiopathogenic role in CRS patients with nasal polyps (CRSwNP), a severe form of the CRS spectrum with poorer surgical outcomes. We performed a microbial genome-wide association study (mGWAS) to investigate whether S. aureus isolates from CRS patients have particular genetic markers associated with CRS with nasal polyps (CRSwNP) or CRS without nasal polyps (CRSsNP). Methods: Whole genome sequencing was performed on S. aureus isolates collected from 28 CRSsNP and 30 CRSwNP patients. A mGWAS approach was employed using large-scale comparative genomics to identify genetic variation within our dataset. Results: Considerable genetic variation was observed, with > 90,000 single nucleotide polymorphisms (SNPs) sites identified. There was little correlation with CRS subtype based on SNPs and Insertion/Delection (Indels). One indel was found to significantly correlate with CRSwNP and occurred in the promoter region of a bacitracin transport system ATP-binding protein. Additionally, two variants of the highly variable superantigen-like (SSL) proteins were found to significantly correlate with each CRS phenotype. No significant association with other virulence or antibiotic resistance genes were observed, consistent with previous studies. Conclusion: To our knowledge this study is the first to use mGWAS to investigate the contribution of microbial genetic variation to CRS presentations. Utilising the most comprehensive genome-wide analysis methods available, our results suggest that CRS phenotype may be influenced by genetic factors other than specific virulence mechanisms within the S. aureus genome

Significance of Halimeda bioherms to the global carbonate budget based on a geological sediment budget for the Northern Great Barrier Reef, Australia

Since the correlation between carbon dioxide (CO2) levels and global temperatures was established in the ice core records, quantifying the components of the global carbon cycle has become a priority with a view to constraining models of the climate system. The marine carbonate budget is still not adequately constrained and the quantitative significance of the calcareous green alga Halimeda still remains particularly poorly understood. Previously, it has been suggested that Halimeda bioherms on the shelf of the Great Barrier Reef may contain a volume of carbonate equal to or greater than that contained within the shelf edge coral reefs. This study uses published datasets to test this hypothesis in the Northern Great Barrier Reef (NGBR) province. It is estimated that Halimeda bioherms on the outer shelf of the NGBR contain at least as much (and up to four times more) CaCO3 sediment as the adjacent ribbon reef facies. Globally, if these findings are even only partially applicable, the contribution of shallow water carbonate sediments to the global carbon budget based on coral reefs alone is currently substantially underestimated