The Ultralight project: the network as an integrated and managed resource for data-intensive science

Looks at the UltraLight project which treats the network interconnecting globally distributed data sets as a dynamic, configurable, and closely monitored resource to construct a next-generation system that can meet the high-energy physics community's data-processing, distribution, access, and analysis needs

The Design and Demonstration of the Ultralight Testbed

In this paper we present the motivation, the design, and a recent demonstration of the UltraLight testbed at SC|05. The goal of the Ultralight testbed is to help meet the data-intensive computing challenges of the next generation of particle physics experiments with a comprehensive, network- focused approach. UltraLight adopts a new approach to networking: instead of treating it traditionally, as a static, unchanging and unmanaged set of inter-computer links, we are developing and using it as a dynamic, configurable, and closely monitored resource that is managed from end-to-end. To achieve its goal we are constructing a next-generation global system that is able to meet the data processing, distribution, access and analysis needs of the particle physics community. In this paper we will first present early results in the various working areas of the project. We then describe our experiences of the network architecture, kernel setup, application tuning and configuration used during the bandwidth challenge event at SC|05. During this Challenge, we achieved a record-breaking aggregate data rate in excess of 150 Gbps while moving physics datasets between many Grid computing sites

The Motivation, Architecture and Demonstration of Ultralight Network Testbed

In this paper we describe progress in the NSF-funded Ultralight project and a recent demonstration of Ultralight technologies at SuperComputing 2005 (SC|05). The goal of the Ultralight project is to help meet the data-intensive computing challenges of the next generation of particle physics experiments with a comprehensive, network-focused approach. Ultralight adopts a new approach to networking: instead of treating it traditionally, as a static, unchanging and unmanaged set of inter-computer links, we are developing and using it as a dynamic, configurable, and closely monitored resource that is managed from end-to-end. Thus we are constructing a next-generation global system that is able to meet the data processing, distribution, access and analysis needs of the particle physics community. In this paper we present the motivation for, and an overview of, the Ultralight project. We then cover early results in the various working areas of the project. The remainder of the paper describes our experiences of the Ultralight network architecture, kernel setup, application tuning and configuration used during the bandwidth challenge event at SC|05. During this Challenge, we achieved a record-breaking aggregate data rate in excess of 150 Gbps while moving physics datasets between many sites interconnected by the Ultralight backbone network. The exercise highlighted the benefits of Ultralight's research and development efforts that are enabling new and advanced methods of distributed scientific data analysis

Na V 1.6a is required for normal activation of motor circuits normally excited by tactile stimulation

A screen for zebrafish motor mutants identified two noncomplementing alleles of a recessive mutation that were named non-active ( nav mi89 and nav mi130 ). nav embryos displayed diminished spontaneous and touch-evoked escape behaviors during the first 3 days of development. Genetic mapping identified the gene encoding Na V 1.6a ( scn8aa ) as a potential candidate for nav . Subsequent cloning of scn8aa from the two alleles of nav uncovered two missense mutations in Na V 1.6a that eliminated channel activity when assayed heterologously. Furthermore, the injection of RNA encoding wild-type scn8aa rescued the nav mutant phenotype indicating that scn8aa was the causative gene of nav . In-vivo electrophysiological analysis of the touch-evoked escape circuit indicated that voltage-dependent inward current was decreased in mechanosensory neurons in mutants, but they were able to fire action potentials. Furthermore, tactile stimulation of mutants activated some neurons downstream of mechanosensory neurons but failed to activate the swim locomotor circuit in accord with the behavioral response of initial escape contractions but no swimming. Thus, mutant mechanosensory neurons appeared to respond to tactile stimulation but failed to initiate swimming. Interestingly fictive swimming could be initiated pharmacologically suggesting that a swim circuit was present in mutants. These results suggested that Na V 1.6a was required for touch-induced activation of the swim locomotor network. © 2010 Wiley Periodicals, Inc. Develop Neurobiol 70:508–522, 2010Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/75774/1/20791_ftp.pd

The Design and Implementation of the Transatlantic Mission-Oriented Production and Experimental Networks

In this paper we present the design and implementation of the mission-oriented USLHCNet for HEP research community and the UltraLight network testbed. The design philosophy for these networks is to help meet the data-intensive computing challenges of the next generation of particle physics experiments with a comprehensive, network-focused approach. Instead of treating the network as a static, unchanging and unmanaged set of intercomputer links, we are developing and using it as a dynamic, configurable, and closely monitored resource that is managed from end-to-end. In this paper we will present our work in the various areas of the project including infrastructure construction, protocol research and application development. Our goal is to construct a next-generation global system that is able to meet the data processing, distribution, access and analysis needs of the particle physics community

Gaur genome reveals expansion of sperm odorant receptors in domesticated cattle

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Genomic identification of two Phytobacter diazotrophicus isolates from a neonatal intensive care unit in Singapore

We report the draft genome sequences of two Phytobacter diazotrophicus isolates recovered from a swab specimen from the water faucet located in the Neonatal Intensive Care Unit (ICU), National University Hospital, Singapore. The isolates were misidentified as Cronobacter sakazakii and Klebsiella oxytoca using biochemical methods. Whole-genome sequencing (WGS) was performed to determine their identity

Serological evidence of a pararubulavirus and a betacoronavirus in the geographically isolated Christmas Island flying-fox (Pteropus natalis)

Due to their geographical isolation and small populations, insular bats may not be able to maintain acute immunizing viruses that rely on a large population for viral maintenance. Instead, endemic transmission may rely on viruses establishing persistent infections within hosts or inducing only short-lived neutralizing immunity. Therefore, studies on insular populations are valuable for developing broader understanding of viral maintenance in bats. The Christmas Island flying-fox (CIFF; Pteropus natalis) is endemic on Christmas Island, a remote Australian territory, and is an ideal model species to understand viral maintenance in small, geographically isolated bat populations. Serum or plasma (n = 190), oral swabs (n = 199), faeces (n = 31), urine (n = 32) and urine swabs (n = 25) were collected from 228 CIFFs. Samples were tested using multiplex serological and molecular assays, and attempts at virus isolation to determine the presence of paramyxoviruses, betacoronaviruses and Australian bat lyssavirus. Analysis of serological data provides evidence that the species is maintaining a pararubulavirus and a betacoronavirus. There was little serological evidence supporting the presence of active circulation of the other viruses assessed in the present study. No viral nucleic acid was detected and no viruses were isolated. Age-seropositivity results support the hypothesis that geographically isolated bat populations can maintain some paramyxoviruses and coronaviruses. Further studies are required to elucidate infection dynamics and characterize viruses in the CIFF. Lastly, apparent absence of some pathogens could have implications for the conservation of the CIFF if a novel disease were introduced into the population through human carriage or an invasive species. Adopting increased biosecurity protocols for ships porting on Christmas Island and for researchers and bat carers working with flying-foxes are recommended to decrease the risk of pathogen introduction and contribute to the health and conservation of the species