A depositional model for seismo-turbidites in confined basins based on Ionian Sea deposits

This study investigates Ionian Sea seismo-turbidite (ST) deposits that we interpret to be triggered by major historic earthquakes and tsunamis in the Calabrian Arc. ST beds can be correlated with the AD 1908 Mw 7.24 Messina, AD 1693 Mw 7.41 Catania, and AD 1169 Mw 6.6 Eastern Sicily earthquakes while two previously unknown turbidites might have been generated by the AD 1818 Mw 6.23 Catania and AD 1542 Mw 6.77 Siracusa earthquakes. Textural, micropaleontological, geochemical and mineralogical signatures of STs reveal cyclic patterns of STa, STb, STc and STd sedimentary units for each earthquake with an associated tsunami. The STa unit contains multiple ST stacks with different mineralogy, geochemistry foraminiferal assemblages and sedimentary structures that are deposited from synchronous multiple slope failures and turbidity currents. The STb homogenite graded mud unit overlying the STa unit is deposited by the waning flows of the multiple turbidity currents that are trapped in the Ionian Sea confined basin. The STc laminated and marine-sourced unit results from seiching of the confined water mass that appears to be generated by earthquake ruptures combined with tsunami waves. The STd unit is a tsunamite cap deposited by the slow settling suspension cloud created by tsunami wave backwash erosion of the shoreline and continental shelf. This tsunami process interpretation is based on the textural gradation of the upper unit and a more continental source of the tsunamite cap which includes C/N >10 and the presence of inner shelf foraminifera with a lack of abyssal species. This interpretation is in agreement with the lack of a tsunamite cap for the turbidite likely linked to the AD 1542 historic earthquake that is not associated with a tsunami. The new sedimentologic criteria identifies the final seiche and tsunamite cap deposits of STs and provides a model that can now be tested in other locations to better understand the different depositional processes of seismo-turbidites in confined basins

Desenvolvimento de soluções tecnológicas para o Amazonas.

Estudos básicos (Relação solo-planta-água-ar). Resgate do cultivo da seringueira. Sistemas agroflorestais para conservação de recursos genéticos. Modelo de sistema agroflorestal - unidade demonstrativa.bitstream/item/200878/1/DESENVOLVIMENTO-DE-SOLUCOES....pd

A sigatoka-negra em helicônia.

A sigatoka-negra em helicônia.bitstream/item/64223/1/ComTec-51-2007.pd

Analyzing and Biasing Simulations with PLUMED

This chapter discusses how the PLUMED plugin for molecular dynamics can be used to analyze and bias molecular dynamics trajectories. The chapter begins by introducing the notion of a collective variable and by then explaining how the free energy can be computed as a function of one or more collective variables. A number of practical issues mostly around periodic boundary conditions that arise when these types of calculations are performed using PLUMED are then discussed. Later parts of the chapter discuss how PLUMED can be used to perform enhanced sampling simulations that introduce simulation biases or multiple replicas of the system and Monte Carlo exchanges between these replicas. This section is then followed by a discussion on how free-energy surfaces and associated error bars can be extracted from such simulations by using weighted histogram and block averaging techniques

Establishing reference samples for detection of somatic mutations and germline variants with NGS technologies

We characterized two reference samples for NGS technologies: a human triple-negative breast cancer cell line and a matched normal cell line. Leveraging several whole-genome sequencing (WGS) platforms, multiple sequencing replicates, and orthogonal mutation detection bioinformatics pipelines, we minimized the potential biases from sequencing technologies, assays, and informatics. Thus, our “truth sets” were defined using evidence from 21 repeats of WGS runs with coverages ranging from 50X to 100X (a total of 140 billion reads). These “truth sets” present many relevant variants/mutations including 193 COSMIC mutations and 9,016 germline variants from the ClinVar database, nonsense mutations in BRCA1/2 and missense mutations in TP53 and FGFR1. Independent validation in three orthogonal experiments demonstrated a successful stress test of the truth set. We expect these reference materials and “truth sets” to facilitate assay development, qualification, validation, and proficiency testing. In addition, our methods can be extended to establish new fully characterized reference samples for the community

NEOTROPICAL XENARTHRANS: a data set of occurrence of xenarthran species in the Neotropics

Xenarthrans – anteaters, sloths, and armadillos – have essential functions for ecosystem maintenance, such as insect control and nutrient cycling, playing key roles as ecosystem engineers. Because of habitat loss and fragmentation, hunting pressure, and conflicts with 24 domestic dogs, these species have been threatened locally, regionally, or even across their full distribution ranges. The Neotropics harbor 21 species of armadillos, ten anteaters, and six sloths. Our dataset includes the families Chlamyphoridae (13), Dasypodidae (7), Myrmecophagidae (3), Bradypodidae (4), and Megalonychidae (2). We have no occurrence data on Dasypus pilosus (Dasypodidae). Regarding Cyclopedidae, until recently, only one species was recognized, but new genetic studies have revealed that the group is represented by seven species. In this data-paper, we compiled a total of 42,528 records of 31 species, represented by occurrence and quantitative data, totaling 24,847 unique georeferenced records. The geographic range is from the south of the USA, Mexico, and Caribbean countries at the northern portion of the Neotropics, to its austral distribution in Argentina, Paraguay, Chile, and Uruguay. Regarding anteaters, Myrmecophaga tridactyla has the most records (n=5,941), and Cyclopes sp. has the fewest (n=240). The armadillo species with the most data is Dasypus novemcinctus (n=11,588), and the least recorded for Calyptophractus retusus (n=33). With regards to sloth species, Bradypus variegatus has the most records (n=962), and Bradypus pygmaeus has the fewest (n=12). Our main objective with Neotropical Xenarthrans is to make occurrence and quantitative data available to facilitate more ecological research, particularly if we integrate the xenarthran data with other datasets of Neotropical Series which will become available very soon (i.e. Neotropical Carnivores, Neotropical Invasive Mammals, and Neotropical Hunters and Dogs). Therefore, studies on trophic cascades, hunting pressure, habitat loss, fragmentation effects, species invasion, and climate change effects will be possible with the Neotropical Xenarthrans dataset