A new K-Ar illite dating application to constrain the timing of subduction in West Sarawak, Borneo

The timing of subduction is a fundamental tectonic problem for tectonic models, yet there are few direct geological proxies for constraining it. However, the matrix of a tectonic mélange formed in a subduction-accretion setting archives the physical/chemical attributes at the time of deformation during the subduction-accretion process. Thus, the deformation age of the matrix offers the possibility to directly constrain the period of the subduction-accretion process. Here we date the Lubok Antu tectonic mélange and the overlying Lupar Formation in West Sarawak, Borneo by K-Ar analysis of illite. The ages of authigenic illite cluster around 60 Ma and 36 Ma. The maximum temperatures calculated by vitrinite reflectance values suggest that our dating results were not affected by external heating. Thus, the ages of authigenic illite represent the deformation age of the mélange matrix and the timing of the Rajang Unconformity, indicating that the subduction in Sarawak could have continued until ca. 60 Ma and the thermal and/or fluid flow events triggered by a major uplift of the Rajang Group occurred at ca. 36 Ma. Furthermore, this study highlights the potential of using the tectonic mélange to extract the timeframe of subduction zone episodic evolution directly.

Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins

The rate of evolution differs between protein sites and changes with time. However, the link between these two phenomena remains poorly understood. Here, we design a phylogenetic approach for distinguishing pairs of amino acid sites that evolve concordantly, i.e., such that substitutions at one site trigger subsequent substitutions at the other; and also pairs of sites that evolve discordantly, so that substitutions at one site impede subsequent substitutions at the other. We distinguish groups of amino acid sites that undergo coordinated evolution and evolve discordantly from other such groups. In mitochondrion-encoded proteins of metazoans and fungi, we show that concordantly evolving sites are clustered in protein structures. By analysing the phylogenetic patterns of substitutions at concordantly and discordantly evolving site pairs, we find that concordant evolution has two distinct causes: epistatic interactions between amino acid substitutions and episodes of selection independently affecting substitutions at different sites. The rate of substitutions at concordantly evolving groups of protein sites changes in the course of evolution, indicating episodes of selection limited to some of the lineages. The phylogenetic positions of these changes are consistent between proteins, suggesting common selective forces underlying them.

Socio-demographic and clinical predictors of outcome to long-term treatment with lithium in bipolar disorders: a systematic review of the contemporary literature and recommendations from the ISBD/IGSLI Task Force on treatment with lithium

Objective To identify possible socio-demographic and clinical factors associated with Good Outcome (GO) as compared with Poor Outcome (PO) in adult patients diagnosed with Bipolar Disorder (BD) who received long-term treatment with lithium. Methods A comprehensive search of major electronic databases was performed to identify relevant studies that included adults patients (18 years or older) with a diagnosis of BD and reported sociodemographic and/or clinical variables associated with treatment response and/or with illness outcome during long-term treatment to lithium (> = 6 months). The quality of the studies was scored using the Quality Assessment Tool for Observational Cohort and Cross-Sectional Studies from the National Institute of Health. Results Following review, 34 publications (from 31 independent datasets) were eligible for inclusion in this review. Most of them (n = 25) used a retrospective design. Only 11 studies were graded as good or borderline good quality. Forty-three potential predictors of outcome to lithium were identified. Four factors were associated with PO to lithium: alcohol use disorder; personality disorders; higher lifetime number of hospital admissions and rapid cycling pattern. Two factors were associated with GO in patients treated with lithium: good social support and episodic evolution of BD. However, when the synthesis of findings was limited to the highest (good or borderline good) quality studies (11 studies), only higher lifetime number of hospitalization admissions remained associated with PO to lithium and no associations remained for GO to lithium. Conclusion Despite decades of research on lithium and its clinical use, besides lifetime number of hospital admissions, no factor being consistently associated with GO or PO to lithium was identified. Hence, there remains a substantial gap in our understanding of predictors of outcome of lithium treatment indicating there is a need of high quality research on large representative samples.

Source apportionment of PM_2.5 in Shanghai based on hourly organic molecular markers and other source tracers

Identification of various emission sources and quantification of their contributions comprise an essential step in formulating scientifically sound pollution control strategies. Most previous studies have been based on traditional offline filter analysis of aerosol major components (usually inorganic ions, elemental carbon – EC, organic carbon – OC, and elements). In this study, source apportionment of PM2.5 using a positive matrix factorization (PMF) model was conducted for urban Shanghai in the Yangtze River Delta region, China, utilizing a large suite of molecular and elemental tracers, together with water-soluble inorganic ions, OC, and EC from measurements conducted at two sites from 9 November to 3 December 2018. The PMF analysis with inclusion of molecular makers (i.e., MM-PMF) identified 11 pollution sources, including 3 secondary-source factors (i.e., secondary sulfate; secondary nitrate; and secondary organic aerosol, SOA, factors) and 8 primary sources (i.e., vehicle exhaust, industrial emission and tire wear, industrial emission II, residual oil combustion, dust, coal combustion, biomass burning, and cooking). The secondary sources contributed 62.5 % of the campaign-average PM2.5 mass, with the secondary nitrate factor being the leading contributor. Cooking was a minor contributor (2.8 %) to PM2.5 mass while a significant contributor (11.4 %) to the OC mass. Traditional PMF analysis relying on major components alone (PMFt) was unable to resolve three organics-dominated sources (i.e., biomass burning, cooking, and SOA source factors). Utilizing organic tracers, the MM-PMF analysis determined that these three sources combined accounted for 24.4 % of the total PM2.5 mass. In PMFt, this significant portion of PM mass was apportioned to other sources and thereby was notably biasing the source apportionment outcome. Backward trajectory and episodic analysis were performed on the MM-PMF-resolved source factors to examine the variations in source origins and composition. It was shown that under all episodes, secondary nitrate and the SOA factor were two major source contributors to the PM2.5 pollution. Our work has demonstrated that comprehensive hourly data of molecular markers and other source tracers, coupled with MM-PMF, enables examination of detailed pollution source characteristics, especially organics-dominated sources, at a timescale suitable for monitoring episodic evolution and with finer source breakdown.

Fluid Dynamics in a Thrust Fault Inferred from Petrology and Geochemistry of Calcite Veins: An Example from the Southern Pyrenees

Petrographic and geochemical analyses (δ18O, δ13C, 87Sr/86Sr, clumped isotopes, and elemental composition) coupled with field structural data of synkinematic calcite veins, fault rocks, and host rocks are used to reconstruct the episodic evolution of an outstanding exposed thrust zone in the Southern Pyrenees and to evaluate the fault behavior as a conduit or barrier to fluid migration. The selected thrust displaces the steeply dipping southern limb of the Sant Corneli-Bóixols anticline, juxtaposing a Cenomanian-Turonian carbonate unit against a Coniacian carbonate sequence. Successive deformation events are recorded by distinct fracture systems and related calcite veins, highlighting (i) an episodic evolution of the thrust zone, resulting from an upward migration of the fault tip (process zone development) before growth of the fault (thrust slip plane propagation), and (ii) compartmentalization of the thrust fault zone, leading to different structural and fluid flow histories in the footwall and hanging wall. Fractures within the footwall comprise three systematically oriented fracture sets (F1, F2, and F3), each sealed by a separate generation calcite cement, and a randomly oriented fracture system (mosaic to chaotic breccia), cemented by the same cements as fracture sets F1 and F2. The formation of fractures F1 and F2 and the mosaic to chaotic breccia is consistent with dilatant fracturing within the process zone (around the fault tip) during initial fault growth, whereas the formation of the latest fracture system points to hybrid shear-dilational failure during propagation of the fault. The continuous formation of different fracture systems and related calcite cementation phases evidences that the structural permeability in the footwall was transient and that the fluid pathways and regime evolved due to successive events of fracture opening and calcite cementation. Clumped isotopes evidence a progressive increase in precipitation temperatures from around 50°C to 117°C approximately, interpreted as burial increase linked to thrust sheet emplacement. During this period, the source of fluid changed from meteoric fluids to evolved meteoric fluids due to the water-rock interaction at increasing depths and temperatures. Contrary to the footwall, within the hanging wall, only randomly oriented fractures are recognized and the resulting crackle proto-breccia is sealed by a later and different calcite cement, which is also observed in the main fault plane and in the fault core. This cement precipitated from formation fluids, at around 95°C, that circulated along the fault core and in the hanging wall block, again supporting the interpretation of compartmentalization of the thrust structure. The integration of these data reveals that the studied thrust fault acted as a transverse barrier, dividing the thrust zone into two separate fluid compartments, and a longitudinal drain for migration of fluids. This study also highlights the similarity in deformation processes and mechanisms linked to the evolution of fault zones in compressional and extensional regimes involving carbonate rocks.

Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins

The rate of evolution differs between protein sites and changes with time. However, the link between these two phenomena remains poorly understood. Here, we design a phylogenetic approach for distinguishing pairs of amino acid sites that undergo coordinated evolution, i.e., such that substitutions at one site trigger subsequent substitutions at the other; and also pairs of sites that undergo discordant evolution, so that substitutions at one site impede subsequent substitutions at the other. We distinguish groups of amino acid sites that undergo coordinated evolution and evolve discordantly from other such groups. In mitochondrially encoded proteins of metazoans and fungi, we show that concordantly evolving sites are clustered in protein structures. Moreover, the substitution rates within individual concordant groups themselves change in the course of evolution, and phylogenetic positions of these changes are consistent between proteins, suggesting common selective forces underlying them.Author summaryEvolution in most protein sites is constrained by alleles in other sites, this phenomena is called epistasis. Generally, newly arisen allele, if it would not be lost, increases its fitness with time due to adaptive mutations occurred in other sites in the process called the entrenchment. Thus, we expect that the evolution of sites would be coordinated, such that mutations in sites rapidly follow each other on phylogenetic lineages. Indeed, we have observed such coordinated evolution of sites in five proteins encoded in the mitochondria genomes of metazoan and fungi. Unexpectedly, coordinated evolution is observed only for nearby sites on protein structures, such that each protein could be partitioned into several groups of concordantly evolving sites. Evolution of sites from different groups is discordant, i.e. their mutations repel each other into different phylogenetic lineages or clades. Thus, the proteins encoded in mitochondrial genome consist of the sort of structural blocks like elements of the LEGO kit. Some of them have functional specialization, e.g. some blocks are associated with interfaces between proteins composing respiratory complexes.

Episodic evolution of a eukaryotic NADK repertoire of ancient provenance

NAD kinase (NADK) is the sole enzyme that phosphorylates nicotinamide adenine dinucleotide (NAD+/NADH) into NADP+/NADPH, which provides the chemical reducing power in anabolic (biosynthetic) pathways. While prokaryotes typically encode a single NADK, eukaryotes encode multiple NADKs. How these different NADK genes are all related to each other and those of prokaryotes is not known. Here we conduct phylogenetic analysis of NADK genes and identify major clade-defining patterns of NADK evolution. First, almost all eukaryotic NADK genes belong to one of two ancient eukaryotic sister clades corresponding to cytosolic ("cyto") and mitochondrial ("mito") clades. Secondly, we find that the cyto-clade NADK gene is duplicated in connection with loss of the mito-clade NADK gene in several eukaryotic clades or with acquisition of plastids in Archaeplastida. Thirdly, we find that horizontal gene transfers from proteobacteria have replaced mitochondrial NADK genes in only a few rare cases. Last, we find that the eukaryotic cyto and mito paralogs are unrelated to independent duplications that occurred in sporulating bacteria, once in mycelial Actinobacteria and once in aerobic endospore-forming Firmicutes. Altogether these findings show that the eukaryotic NADK gene repertoire is ancient and evolves episodically with major evolutionary transitions.