Roadmap for naming uncultivated Archaea and Bacteria

The assembly of single-amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) has led to a surge in genome-based discoveries of members affiliated with Archaea and Bacteria, bringing with it a need to develop guidelines for nomenclature of uncultivated microorganisms. The International Code of Nomenclature of Prokaryotes (ICNP) only recognizes cultures as ‘type material’, thereby preventing the naming of uncultivated organisms. In this Consensus Statement, we propose two potential paths to solve this nomenclatural conundrum. One option is the adoption of previously proposed modifications to the ICNP to recognize DNA sequences as acceptable type material; the other option creates a nomenclatural code for uncultivated Archaea and Bacteria that could eventually be merged with the ICNP in the future. Regardless of the path taken, we believe that action is needed now within the scientific community to develop consistent rules for nomenclature of uncultivated taxa in order to provide clarity and stability, and to effectively communicate microbial diversity

Author correction : roadmap for naming uncultivated archaea and bacteria

Correction to: Nature Microbiology https://doi.org/10.1038/s41564-020-0733-x , published online 8 June 2020. In the version of this Consensus Statement originally published, Pablo Yarza was mistakenly not included in the author list. Also, in Supplementary Table 1, Alexander Jaffe was missing from the list of endorsees. These errors have now been corrected and the updated Supplementary Table 1 is available online

Minimum Information about a Biosynthetic Gene cluster

A wide variety of enzymatic pathways that produce specialized metabolites in bacteria, fungi and plants are known to be encoded in biosynthetic gene clusters. Information about these clusters, pathways and metabolites is currently dispersed throughout the literature, making it difficult to exploit. To facilitate consistent and systematic deposition and retrieval of data on biosynthetic gene clusters, we propose the Minimum Information about a Biosynthetic Gene cluster (MIBiG) data standard.Chemistry and Chemical Biolog

The Distributed Data Interface in GAMESS

The Distributed Data Interface to permit storage of large data arrays in the aggregate memory of distributed memory, message passing computer systems is described. The design of this relatively small library is discussed, in regard to its implementation over SHMEM, MPI-1, or socket based message libraries. The good performance of a MP2 program using DDI is demonstrated on both PC and workstation cluster computers, and some details of the resulting message traffic are presented.This article is published as Fletcher, Graham D., Michael W. Schmidt, Brett M. Bode, and Mark S. Gordon. "The distributed data interface in GAMESS." Computer Physics Communications 128, no. 1-2 (2000): 190-200. DOI: 10.1016/S0010-4655(00)00073-4. Works produced by employees of the U.S. Government as part of their official duties are not copyrighted within the U.S. The content of this document is not copyrighted

Maskana. Revista Científica

En este artículo se analiza e implementa el método de Difusión Horizontal del modelo WRF (Weather Research and Forecast), utilizando la API OpenMP para explotar el procesamiento de equipos multi-núcleo Intel Xeon. El objetivo principal del estudio es evaluar conceptos bien establecidos relacionados con la escalabilidad y eficiencia de caché por medio de tres experimentos en los que el uso de perfiladores apropiados demuestra ser de gran utilidad para comprender el comportamiento y, en consecuencia, ayuda a elegir algunos enfoques de optimización.This article analyzes and implements the Horizontal Diffusion method of the Weather Research and Forecast (WRF) model, using the OpenMP API to exploit the multi-core power of an Intel Xeon computer. The main scope of the study is to assess well established concepts related to scalability and cache efficiency by mean of three experiments where the use of appropriate profilers shows to be of great utility to understand computing behavior and consequently to choose some optimization approaches.Cuenc