Horizontal transfer of tRNA genes to mitochondrial plasmids facilitates gene loss from fungal mitochondrial DNA.

Fungal and plant mitochondria are known to exchange DNA with retroviral plasmids. Transfer of plasmid DNA to the organellar genome is best known and occurs through wholesale insertion of the plasmid. Less well known is the transfer of organellar DNA to plasmids, in particular tRNA genes. Presently, it is unknown whether fungal plasmids can adopt mitochondrial functions such as tRNA production through horizontal gene transfer. In this paper, we studied the exchange of DNA between fungal linear plasmids and fungal mtDNA, mainly focusing on the basidiomycete family Lyophyllaceae. We report at least six independent transfers of complete tRNA genes to fungal plasmids. Furthermore, we discovered two independent cases of loss of a tRNA gene from a fungal mitochondrial genome following transfer of such a gene to a linear mitochondrial plasmid. We propose that loss of a tRNA gene from mtDNA following its transfer to a plasmid creates a mutualistic dependency of the host mtDNA on the plasmid. We also find that tRNA genes transferred to plasmids encode codons that occur at the lowest frequency in the host mitochondrial genomes, possibly due to a higher number of unused transcripts. We discuss the potential consequences of mtDNA transfer to plasmids for both the host mtDNA and the plasmid.

Deciphering the Variability in Mg/Ca and Stable Oxygen Isotopes of Individual Foraminifera.

Foraminifera are commonly used in paleoclimate reconstructions as they occur throughout the world's oceans and are often abundantly preserved in the sediments. Traditionally, foraminifera-based proxies like δ18O and Mg/Ca are analyzed on pooled specimens of a single species. Analysis of single specimens of foraminifera allows reconstructing climate variability on timescales related to El Niño-Southern Oscillation or seasonality. However, quantitative calibrations between the statistics of individual foraminifera analyses (IFA) and climate variability are still missing. We performed Mg/Ca and δ18O measurements on single specimens from core top sediments from different settings to better understand the signal recorded by individual foraminifera. We used three species of planktic foraminifera (Globigerinoidesruber (s.s.), T. sacculifer, and N. dutertrei) from the Indo-Pacific Warm Pool and one species (G. ruber (pink)) from the Gulf of Mexico. Mean values for the different species of Mg/Ca versus calculated δ18O temperatures agree with published calibration equations. IFA statistics (both mean and standard deviation) of Mg/Ca and δ18O between the different sites show a strong relationship indicating that both proxies are influenced by a common factor, most likely temperature variations during calcification. This strongly supports the use of IFA to reconstruct climate variability. However, our combined IFA data for the different species only show a weak relationship to seasonal and interannual temperature changes, especially when seasonal variability increases at a location. This suggests that the season and depth habitat of the foraminifera strongly affect IFA variability, such that ecology needs to be considered when reconstructing past climate variability.

Episodic release of CO2 from the high-latitude North Atlantic Ocean during the last 135 kyr.

Antarctic ice cores document glacial-interglacial and millennial-scale variability in atmospheric pCO2 over the past 800 kyr. The ocean, as the largest active carbon reservoir on this timescale, is thought to have played a dominant role in these pCO2 fluctuations, but it remains unclear how and where in the ocean CO2 was stored during glaciations and released during (de)glacial millennial-scale climate events. The evolution of surface ocean pCO2 in key locations can therefore provide important clues for understanding the ocean's role in Pleistocene carbon cycling. Here we present a 135-kyr record of shallow subsurface pCO2 and nutrient levels from the Norwegian Sea, an area of intense CO2 uptake from the atmosphere today. Our results suggest that the Norwegian Sea probably acted as a CO2 source towards the end of Heinrich stadials HS1, HS4 and HS11, and may have contributed to the increase in atmospheric pCO2 at these times.

Pliocene oceanic seaways and global climate.

Tectonically induced changes in oceanic seaways had profound effects on global and regional climate during the Late Neogene. The constriction of the Central American Seaway reached a critical threshold during the early Pliocene ~4.8-4 million years (Ma) ago. Model simulations indicate the strengthening of the Atlantic Meridional Overturning Circulation (AMOC) with a signature warming response in the Northern Hemisphere and cooling in the Southern Hemisphere. Subsequently, between ~4-3 Ma, the constriction of the Indonesian Seaway impacted regional climate and might have accelerated the Northern Hemisphere Glaciation. We here present Pliocene Atlantic interhemispheric sea surface temperature and salinity gradients (deduced from foraminiferal Mg/Ca and stable oxygen isotopes, δ18O) in combination with a recently published benthic stable carbon isotope (δ13C) record from the southernmost extent of North Atlantic Deep Water to reconstruct gateway-related changes in the AMOC mode. After an early reduction of the AMOC at ~5.3 Ma, we show in agreement with model simulations of the impacts of Central American Seaway closure a strengthened AMOC with a global climate signature. During ~3.8-3 Ma, we suggest a weakening of the AMOC in line with the global cooling trend, with possible contributions from the constriction of the Indonesian Seaway.

Australian shelf sediments reveal shifts in Miocene Southern Hemisphere westerlies.

Global climate underwent a major reorganization when the Antarctic ice sheet expanded ~14 million years ago (Ma) (1). This event affected global atmospheric circulation, including the strength and position of the westerlies and the Intertropical Convergence Zone (ITCZ), and, therefore, precipitation patterns (2-5). We present new shallow-marine sediment records from the continental shelf of Australia (International Ocean Discovery Program Sites U1459 and U1464) providing the first empirical evidence linking high-latitude cooling around Antarctica to climate change in the (sub)tropics during the Miocene. We show that Western Australia was arid during most of the Middle Miocene. Southwest Australia became wetter during the Late Miocene, creating a climate gradient with the arid interior, whereas northwest Australia remained arid throughout. Precipitation and river runoff in southwest Australia gradually increased from 12 to 8 Ma, which we relate to a northward migration or intensification of the westerlies possibly due to increased sea ice in the Southern Ocean (5). Abrupt aridification indicates that the westerlies shifted back to a position south of Australia after 8 Ma. Our midlatitude Southern Hemisphere data are consistent with the inference that expansion of sea ice around Antarctica resulted in a northward movement of the westerlies. In turn, this may have pushed tropical atmospheric circulation and the ITCZ northward, shifting the main precipitation belt over large parts of Southeast Asia (4).

Northern hemisphere glaciation during the globally warm early Late Pliocene.

The early Late Pliocene (3.6 to ∼3.0 million years ago) is the last extended interval in Earth's history when atmospheric CO2 concentrations were comparable to today's and global climate was warmer. Yet a severe global glaciation during marine isotope stage (MIS) M2 interrupted this phase of global warmth ∼3.30 million years ago, and is seen as a premature attempt of the climate system to establish an ice-age world. Here we propose a conceptual model for the glaciation and deglaciation of MIS M2 based on geochemical and palynological records from five marine sediment cores along a Caribbean to eastern North Atlantic transect. Our records show that increased Pacific-to-Atlantic flow via the Central American Seaway weakened the North Atlantic Current and attendant northward heat transport prior to MIS M2. The consequent cooling of the northern high latitude oceans permitted expansion of the continental ice sheets during MIS M2, despite near-modern atmospheric CO2 concentrations. Sea level drop during this glaciation halted the inflow of Pacific water to the Atlantic via the Central American Seaway, allowing the build-up of a Caribbean Warm Pool. Once this warm pool was large enough, the Gulf Stream-North Atlantic Current system was reinvigorated, leading to significant northward heat transport that terminated the glaciation. Before and after MIS M2, heat transport via the North Atlantic Current was crucial in maintaining warm climates comparable to those predicted for the end of this century.