Paleomagnetic and paleoenvironmental implications of magnetofossil occurrences in late Miocene marine sediments from the Guadalquivir Basin, SW Spain

Although recent studies have revealed more widespread occurrences of magnetofossils in pre-Quaternary sediments than have been previously reported, their significance for paleomagnetic and paleoenvironmental studies is not fully understood. We present a paleo- and rock-magnetic study of late Miocene marine sediments recovered from the Guadalquivir Basin (SW Spain). Well-defined paleomagnetic directions provide a robust magnetostratigraphic chronology for the two studied sediment cores. Rock magnetic results indicate the dominance of intact magnetosome chains throughout the studied sediments. These results provide a link between the highest-quality paleomagnetic directions and higher magnetofossil abundances. We interpret that bacterial magnetite formed in the surface sediment mixed layer and that these magnetic particles gave rise to a paleomagnetic signal in the same way as detrital grains. They, therefore, carry a magnetization that is essentially identical to a post-depositional remanent magnetization, which we term a bio-depositional remanent magnetization. Some studied polarity reversals record paleomagnetic directions with an apparent 60-70 kyr recording delay. Magnetofossils in these cases are interpreted to carry a biogeochemical remanent magnetization that is locked in at greater depth in the sediment column. A sharp decrease in magnetofossil abundance toward the middle of the studied boreholes coincides broadly with a major rise in sediment accumulation rates near the onset of the Messinian salinity crisis (MSC), an event caused by interruption of the connection between the Mediterranean Sea and the Atlantic Ocean. This correlation appears to have resulted from dilution of magnetofossils by enhanced terrigenous inputs that were driven, in turn, by sedimentary changes triggered in the basin at the onset of the MSC. Our results highlight the importance of magnetofossils as carriers of high-quality paleomagnetic and paleoenvironmental signals even in dominantly terrigenous sediments.This study was funded by the Guadaltyc project (MINECO, CGL2012–30875), ARC grant DP120103952, and NSFC grant 41374073

Paleomagnetic and paleoenvironmental implications of magnetofossil occurrences in late Miocene marine sediments from the Guadalquivir Basin, SW Spain.

Although recent studies have revealed more widespread occurrences of magnetofossils in pre-Quaternary sediments than have been previously reported, their significance for paleomagnetic and paleoenvironmental studies is not fully understood. We present a paleo- and rock-magnetic study of late Miocene marine sediments recovered from the Guadalquivir Basin (SW Spain). Well-defined paleomagnetic directions provide a robust magnetostratigraphic chronology for the two studied sediment cores. Rock magnetic results indicate the dominance of intact magnetosome chains throughout the studied sediments. These results provide a link between the highest-quality paleomagnetic directions and higher magnetofossil abundances. We interpret that bacterial magnetite formed in the surface sediment mixed layer and that these magnetic particles gave rise to a paleomagnetic signal in the same way as detrital grains. They, therefore, carry a magnetization that is essentially identical to a post-depositional remanent magnetization, which we term a bio-depositional remanent magnetization. Some studied polarity reversals record paleomagnetic directions with an apparent 60-70 kyr recording delay. Magnetofossils in these cases are interpreted to carry a biogeochemical remanent magnetization that is locked in at greater depth in the sediment column. A sharp decrease in magnetofossil abundance toward the middle of the studied boreholes coincides broadly with a major rise in sediment accumulation rates near the onset of the Messinian salinity crisis (MSC), an event caused by interruption of the connection between the Mediterranean Sea and the Atlantic Ocean. This correlation appears to have resulted from dilution of magnetofossils by enhanced terrigenous inputs that were driven, in turn, by sedimentary changes triggered in the basin at the onset of the MSC. Our results highlight the importance of magnetofossils as carriers of high-quality paleomagnetic and paleoenvironmental signals even in dominantly terrigenous sediments

Reflooding and repopulation of the Mediterranean Sea after the Messinian Salinity Crisis: Benthic foraminifera assemblages and stable isotopes of Spanish basins

Benthic foraminiferal, sedimentological, and stable isotope analyses performed on early Zanclean sediments from Alboran Basin ODP Site 976 and southern Spanish land-based sections in the Malaga, Nijar and Sorbas basins have enabled the reconstruction of Mediterranean environmental conditions immediately after the Messinian Salinity Crisis. The presence at the Miocene – Pliocene boundary of dark layers, often enriched in organic matter, suggests that the Zanclean reflooding has created water column stratification, and reduced bottom-water oxygen levels. Considering that such dark layers are recorded at both deep and marginal settings far away from the Gibraltar gateway/s, a Mediterranean-scale water-mass stratification must have occurred. This stratification could be the result of saline Atlantic waters sinking into a less saline Mediterranean Basin still under the influence of the Paratethys. Our early Zanclean benthic δ18O data show that the Mediterranean water budget was indeed less negative than at present, explaining the lower salinity of the basin. However, the Atlantic values of the benthic δ13C registered in the Alboran basin suggest that bottom-water renewal rates were quite high during the early Zanclean, preventing the reduction of δ13C at the seafloor as observed in the Messinian records. Zanclean benthic foraminiferal repopulation sequences show similarities with recovery from low-oxic episodes during sapropel deposition. These observations, paired with the gradual deepening of the basins, suggests that the Zanclean reflooding led to a progressive shift from stressed and unstable environments towards benthic associations typical of efficient circulation and bottom water ventilation

SolCyc: a database hub at the Sol Genomics Network (SGN) for the manual curation of metabolic networks in Solanum and Nicotiana specific databases

SolCyc is the entry portal to pathway/genome databases (PGDBs) for major species of the Solanaceae family hosted at the Sol Genomics Network. Currently, SolCyc comprises six organism-specific PGDBs for tomato, potato, pepper, petunia, tobacco and one Rubiaceae, coffee. The metabolic networks of those PGDBs have been computationally predicted by the pathologic component of the pathway tools software using the manually curated multi-domain database MetaCyc (http://www.metacyc.org/) as reference. SolCyc has been recently extended by taxon-specific databases, i.e. the family-specific SolanaCyc database, containing only curated data pertinent to species of the nightshade family, and NicotianaCyc, a genus-specific database that stores all relevant metabolic data of the Nicotiana genus. Through manual curation of the published literature, new metabolic pathways have been created in those databases, which are complemented by the continuously updated, relevant species-specific pathways from MetaCyc. At present, SolanaCyc comprises 199 pathways and 29 superpathways and NicotianaCyc accounts for 72 pathways and 13 superpathways. Curator-maintained, taxon-specific databases such as SolanaCyc and NicotianaCyc are characterized by an enrichment of data specific to these taxa and free of falsely predicted pathways. Both databases have been used to update recently created Nicotiana-specific databases for Nicotiana tabacum, Nicotiana benthamiana, Nicotiana sylvestris and Nicotiana tomentosiformis by propagating verifiable data into those PGDBs. In addition, in-depth curation of the pathways in N.tabacum has been carried out which resulted in the elimination of 156 pathways from the 569 pathways predicted by pathway tools. Together, in-depth curation of the predicted pathway network and the supplementation with curated data from taxon-specific databases has substantially improved the curation status of the species\u2013specific N.tabacum PGDB. The implementation of this strategy will significantly advance the curation status of all organism-specific databases in SolCyc resulting in the improvement on database accuracy, data analysis and visualization of biochemical networks in those species

The Johnson-Segalman model with a diffusion term in Couette flow

We study the Johnson-Segalman (JS) model as a paradigm for some complex fluids which are observed to phase separate, or ``shear-band'' in flow. We analyze the behavior of this model in cylindrical Couette flow and demonstrate the history dependence inherent in the local JS model. We add a simple gradient term to the stress dynamics and demonstrate how this term breaks the degeneracy of the local model and prescribes a much smaller (discrete, rather than continuous) set of banded steady state solutions. We investigate some of the effects of the curvature of Couette flow on the observable steady state behavior and kinetics, and discuss some of the implications for metastability.Comment: 14 pp, to be published in Journal of Rheolog

Evidence of early bottom water current flow after the Messinian Salinity Crisis in the Gulf of Cadiz

Highlights • Stratigraphic framework over the Miocene-Pliocene boundary at IODP Site U1387. • Abrupt sedimentary changes over the Miocene-Pliocene boundary. • Clear hints for onset of Mediterranean Outflow after the Messinian Salinity Crisis. • Evidence of bottom water currents in contouritic sedimentation and elevated Zr/Al. • Quiet, hemipelagic sediment deposition during the Messinian in the Gulf of Cadiz. Abstract Integrated Ocean Drilling Program (IODP) Expedition 339 cored multiple sites in the Gulf of Cadiz in order to study contourite deposition resulting from Mediterranean Outflow water (MOW). One hole, U1387C, was cored to a depth of 865.6 meters below seafloor (mbsf) with the goal of recovering the Latest Miocene to Pliocene transition in order to evaluate the history of MOW immediately after the end of the Messinian Salinity Crisis. To understand this history, an accurate age model for the succession is needed, but is challenging to construct, because the Miocene-Pliocene boundary is not marked by a clear biostratigraphic event in the Atlantic and coring gaps occur within the recovered stratigraphic record. These limitations are overcome by combining a variety of chronostratigraphic datasets to construct an age-model that fits the currently available age indicators and demonstrates that coring in Hole U1387C did indeed recover the Miocene-Pliocene boundary at around 826 mbsf. This boundary is associated with a distinct and abrupt change in depositional environment. During the latest Messinian, hemipelagic sediments exhibiting precession-induced climate variability were deposited. These are overlain by Pliocene sediments deposited at a much higher sedimentation rate, with much higher and more variable XRF-scanning Zr/Al ratios than the underlying sediment, and that show evidence of winnowing, particle sorting and increasing grain size, which we interpret to be related to the increasing flow of MOW. Pliocene sedimentary cyclicity is clearly visible in both the benthic δ18O record and the Zr/Al data and is probably also precessionally controlled. Two contouritic bigradational sandy-beds are revealed above the third sedimentary cycle of the Pliocene. On the basis of these results, we conclude that sedimentation associated with weak Mediterranean-Atlantic exchange, began in the Gulf of Cadiz virtually at or shortly after the Miocene-Pliocene boundary

Magnetobiochronology of lower Pliocene marine sediments from the lower Guadalquivir Basin: insights into the tectonic evolution of the Strait of Gibraltar area

The Gibraltar Arc is a complex tectonic region, and several competing models have been proposed to explain its evolution. We studied the sedimentary fill of the Guadalquivir Basin to identify tectonic processes that were occurring when the reopening of the Strait of Gibraltar led to the reestablishment of Mediterranean outflow. We present a chronostratigraphic framework for the Lower Pliocene sediments from the lower Guadalquivir Basin (SW Spain). The updated chronology is based on magnetobiostratigraphic data from several boreholes. Our results show that the studied interval in the La Matilla core is in the early Pliocene section, providing better constraints on the sedimentary evolution of the basin during that period. Migrating depositional facies led to a younger onset of sandy deposition basinward. At the northwestern passive margin, a 0.7 m.y. period of sedimentary bypass related to a sharp decrease in sedimentation rates and lower sea levels resulted from the tectonic uplift of the forebulge. In contrast, high sedimentation rates with continuous deep-marine sedimentation are recorded at the basin center due to continuous tectonic subsidence and west-southwestward progradation of axial depositional systems. The marginal forebulge uplift, continuous tectonic basinal subsidence, and southward progradation of clinoforms in the early Pliocene can be explained by the pull of a lithospheric slab beneath the Gibraltar Arc as the Strait of Gibraltar opened. These findings are, to our knowledge, the first reported sedimentary expression of slab pull beneath the Betics related to the opening of the Strait of Gibraltar after the Messinian salinity crisis

Changes in western Mediterranean thermohaline circulation in association with a deglacial Organic Rich Layer formation in the Alboran Sea

We thank the constructive comments of three anonymous reviewers that substantially improved this manuscript. JNPA has been funded by a Postdoctoral fellowship Beatriu de Pinós funded by the AGAUR from the Generalitat de Catalunya and the European Union through the Marie Curie-COFUND actions. LDP acknowledges support from the Ramón y Cajal program (MINECO, Spain), JF from the Serra Húnter Programme (Generalitat de Catalunya) and IC from the ICREA-Academia program from the Generalitat de Catalunya. We are indebted to Albert Català and Montse Guart (University of Barcelona), and Joaquim Perona and Regina Roca (CCiT-UB) for their support with the laboratory work.Supplementary data to this article can be found online at https://doi.org/10.1016/j.quascirev.2019.106075.The accumulation of an Organic Rich Layer (ORL) during the last deglaciation in the Alboran Sea (western Mediterranean Sea) and its link to changes in deep and intermediate water circulation are here investigated. Benthic foraminiferal assemblages and the shallow infaunal foraminifer Uvigerina peregrina δ13C record support the establishment of sustained high organic matter fluxes, and thus eutrophic conditions at the sea floor, during the late phase of the ORL (Younger Dryas to early Holocene periods). Since organic matter fluxes were lower (mesotrophic conditions) during the Bølling-Allerød period, they cannot be solely responsible for the ORL initiation. Geochemical, sedimentological and micropalaeontological proxies support a major weakening of the deep-water convection in the Gulf of Lion as the main driver for the development of poorly-ventilated conditions from intermediate depths (946 m) to the deep western Mediterranean basin that promoted the beginning of the ORL deposition. Nevertheless, a better ventilation at intermediate depths was established during the late ORL, while the deep basin remained poorly ventilated. We propose that our data reflect the arrival of a new better-ventilated intermediate water mass analogue to the current Levantine Intermediate Water (LIW) and/or a new intermediate water mass from the Gulf of Lion. The ultimate source of this water mass needs to be further explored but chronologies of the changes recorded here indicate that intermediate and deep ventilation phases were decoupled between the western and eastern Mediterranean basins during the deglaciation and early-middle Holocene.This work was funded by the projects TIMED (Call ref: ERC-CoG-2015; proposal number 683237) of the European Research Council (Consolidator Grants), CHIMERA (CTM2016-75411-R), CGL2015-66835-P and RTI2018-099489-B-I00 of the Ministerio de Economía y Competitividad of Spain. The Research Group GRC Geociències Marines (2017 SGR 315) of the Generalitat de Catalunya is also acknowledged, as well as the Research Groups RNM-178 and RNM-190 (Junta de Andalucía)

Organization of the TC and TE cellular T-DNA regions in Nicotiana otophora and functional analysis of three diverged TE-6b genes.

Nicotiana otophora contains Agrobacterium-derived T-DNA sequences introduced by horizontal gene transfer (Chen et al., 2014). Sixty-nine contigs were assembled into four different cellular T-DNAs (cT-DNAs) totalling 83 kb. TC and TE result from two successive transformation events, each followed by duplication, yielding two TC and two TE inserts. TC is also found in other Nicotiana species, whereas TE is unique to N. otophora. Both cT-DNA regions are partially duplicated inverted repeats. Analysis of the cT-DNA divergence patterns allowed reconstruction of the evolution of the TC and TE regions. TC and TE carry 10 intact open reading frames. Three of these are TE-6b genes, derived from a single 6b gene carried by the Agrobacterium strain which inserted TE in the N. otophora ancestor. 6b genes have so far only been found in Agrobacterium tumefaciens or Agrobacterium vitis T-DNAs and strongly modify plant growth (Chen and Otten, 2016). The TE-6b genes were expressed in Nicotiana tabacum under the constitutive 2 × 35S promoter. TE-1-6b-R and TE-2-6b led to shorter plants, dark-green leaves, a strong increase in leaf vein development and modified petiole wings. TE-1-6b-L expression led to a similar phenotype, but in addition leaves show outgrowths at the margins, flowers were modified and plants became viviparous, i.e. embryos germinated in the capsules at an early stage of their development. Embryos could be rescued by culture in vitro. The TE-6b phenotypes are very different from the earlier described 6b phenotypes and could provide new insight into the mode of action of the 6b genes.journal articleresearch support, non-u.s. gov't2018 042018 03 23importe

Genomic Arrangement of Regulons in Bacterial Genomes

Regulons, as groups of transcriptionally co-regulated operons, are the basic units of cellular response systems in bacterial cells. While the concept has been long and widely used in bacterial studies since it was first proposed in 1964, very little is known about how its component operons are arranged in a bacterial genome. We present a computational study to elucidate of the organizational principles of regulons in a bacterial genome, based on the experimentally validated regulons of E. coli and B. subtilis. Our results indicate that (1) genomic locations of transcriptional factors (TFs) are under stronger evolutionary constraints than those of the operons they regulate so changing a TF's genomic location will have larger impact to the bacterium than changing the genomic position of any of its target operons; (2) operons of regulons are generally not uniformly distributed in the genome but tend to form a few closely located clusters, which generally consist of genes working in the same metabolic pathways; and (3) the global arrangement of the component operons of all the regulons in a genome tends to minimize a simple scoring function, indicating that the global arrangement of regulons follows simple organizational principles