Global analysis of mutations driving microevolution of a heterozygous diploid fungal pathogen

This is the final published version, available from the National Academy of Sciences via the DOI in this recordThe sequence reported in this paper has been deposited in the NCBI Sequence Read Archive, https://www.ncbi.nlm.nih.gov/bioproject (BioProject ID PRJNA345600).Candida albicans is a heterozygous diploid yeast that is a commensal of the human gastrointestinal tract and a prevalent opportunistic pathogen. Here, whole-genome sequencing was performed on multiple C. albicans isolates passaged both in vitro and in vivo to characterize the complete spectrum of mutations arising in laboratory culture and in the mammalian host. We establish that, independent of culture niche, microevolution is primarily driven by de novo base substitutions and frequent short-tract loss-of-heterozygosity events. An average base-substitution rate of ∼1.2 × 10−10 per base pair per generation was observed in vitro, with higher rates inferred during host infection. Large-scale chromosomal changes were relatively rare, although chromosome 7 trisomies frequently emerged during passaging in a gastrointestinal model and was associated with increased fitness for this niche. Multiple chromosomal features impacted mutational patterns, with mutation rates elevated in repetitive regions, subtelomeric regions, and in gene families encoding cell surface proteins involved in host adhesion. Strikingly, de novo mutation rates were more than 800-fold higher in regions immediately adjacent to emergent loss-of-heterozygosity tracts, indicative of recombinationinduced mutagenesis. Furthermore, genomes showed biased patterns of mutations suggestive of extensive purifying selection during passaging. These results reveal how both cell-intrinsic and cell-extrinsic factors influence C. albicans microevolution, and provide a quantitative picture of genome dynamics in this heterozygous diploid species.National Institute of Health (NIH)Burroughs Wellcome FundSigma Delta Epsilon-Graduate Women in ScienceWellcome Trust/Massachusetts Institute of TechnologyNational Institute of Allergy and Infectious Diseases, NIH, Department of Health and Human Service

Petrogenesis and Tectonic Implications of the Cryogenian I-Type Granodiorites from Gabgaba Terrane (NE Sudan)

The widely distributed granitic intrusions in the Nubian Shield can provide comprehensive data for understanding its crustal evolution. We present new bulk-rock geochemistry and isotopic (zircon U-Pb and Lu-Hf) data from the Haweit granodiorites in the Gabgaba Terrane (NE Sudan). The dated zircons presented a 206Pb/238U Concordia age of 718.5 ± 2.2 Ma, indicating that they crystallized during the Cryogenian. The granodiorites contain both biotite and amphibole as the main mafic constituents. The samples exhibit metaluminous (A/CNK = 0.84–0.94) and calc-alkaline signatures. Their mineralogical composition and remarkable low P2O5, Zr, Ce, and Nb concentrations confirm that they belong to I-type granites. They exhibit subduction-related magma geochemical characters such as enrichment in LILEs and LREEs and depletion in HFSEs and HREEs, with a low (La/Yb)N ratio (3.0–5.9) and apparent negative Nb anomaly. The positive Hf(t) values (+7.34 to +11.21) and young crustal model age (TDMC = 734–985 Ma) indicates a juvenile composition of the granodiorites. The data suggest that the Haweit granodiorites may have formed from partially melting a juvenile low-K mafic source. During subduction, the ascending asthenosphere melts might heat and partially melt the pre-existing lower crust mafic materials to generate the Haweit granodiorites in the middle segment of the Nubian Shield. © 2023 by the authors.King Saud University, KSUThis research was supported by Researchers Supporting Project number (RSP2023R496), King Saud University, Riyadh, Saudi Arabia. The author AE would like to thank “Dunarea de Jos” University of Galati, Romania, INPOLDE infrastructure, for the material and technical support.This research was supported by Researchers Supporting Project number (RSP2023R496), King Saud University, Riyadh, Saudi Arabia. The author A.E. would like to thank “Dunarea de Jos” University of Galati, Romania, INPOLDE infrastructure, for the material and technical support. The authors would like to thank the editors and the reviewers for their precious time, detailed and constructive reviews, and additional comments which significantly improved the manuscript

An updated assessment of trends and variability in total and extreme rainfall in the western Pacific

Rainfall records for 23 countries and territories in the western Pacific have been collated for the purpose of examining trends in total and extreme rainfall since 1951. For some countries this is the first time that their data have been included in this type of analysis and for others the number of stations examined is more than twice that available in the current literature. Station trends in annual total and extreme rainfall for 1961-2011 are spatially heterogeneous and largely not statistically significant. This differs with the results of earlier studies that show spatially coherent trends that tended to reverse in the vicinity of the South Pacific Convergence Zone (SPCZ). We infer that the difference is due to the Interdecadal Pacific Oscillation switching to a negative phase from about 1999, largely reversing earlier rainfall changes. Trend analyses for 1981-2011 show wetter conditions in the West Pacific Monsoon (WPM) region and southwest of the mean SPCZ position. In the tropical North Pacific it has become wetter west of 160°E with the Intertropical Convergence Zone/WPM expanding northwards west of 140°E. Northeast of the SPCZ and in the central tropical Pacific east of about 160°E it has become drier. Our findings for the South Pacific subtropics are consistent with broader trends seen in parts of southern and eastern Australia towards reduced rainfall. The relationship between total and extreme rainfall and Pacific basin sea surface temperatures (SSTs) has been investigated with a focus on the influence of the El Niño-Southern Oscillation (ENSO). We substantiate a strong relationship between ENSO and total rainfall and establish similar relationships for the threshold extreme indices. The percentile-based and absolute extreme indices are influenced by ENSO to a lesser extent and in some cases the influence is marginal. Undoubtedly, larger-scale SST variability is not the only influence on these indices. © 2013 Bureau of Meteorology (Australia). International Journal of Climatology published by John Wiley & Sons Ltd on behalf of Royal Meteorological Society