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Primeur weekly 2011-05-09

EuroFlash

Bright Cluster Manager chosen for TOP500-class HPC Cluster in France ...

Bull to issue key figures for the first quarter of 2011 ...

CA Technologies enables Logicalis UK to deliver flexible, efficient, and cost-effective Cloud computing services ...

Tiscali chooses Cisco Solutions to strengthen its backbone network and renew its data centre ...

Italtel and Cordys partners in Cloud computing ...

Oracle Next Generation Data Centre Index reveals businesses in Iberia, Italy and the Middle East are falling behind in sophistication of data centre usage ...

PRACE Research Infrastructure calls for One Year Project Grants on three Tier-0 Computers and pilots a synchronized Pilot Call for Tier-1 Grants ...

Single atom stores quantum information ...

USFlash

Cisco delivers Containerized Data Center ...

Study: Rare deep-sea starfish stuck in juvenile body plan ...

Explorys recognized by analyst firm as a Cool Vendor 2011 ...

HP launches early access programme for upcoming Enterprise Virtual Array ...

ISRO builds India's fastest supercomputer ...

Oracle unveils Oracle Health Sciences Cloud ...

Oracle SPARC servers demonstrate outstanding performance with new benchmark results ...

Platform Computing introduces comprehensive monitoring and analysis tools for Platform LSF environments ...

Several baffling puzzles in protein molecular structure solved with new method ...

New software to support interest in extreme science ...

Tokyo Institute of Technology to add CULA library to TSUBAME 2.0 ...

Tracker Software Products announces launch of new on-line PDF Viewer Cloud Applications ...

Windstream opens new data centre in Charlotte ...

Red Hat delivers the Platform-as-a-Service Cloud for open source developers ...

The SciNet Consortium at the University of Toronto selects NextIO vCORE Express 2070 GPU computing solutions ...

Intel reinvents transistors using new 3D structure ...

Red Hat Cloud helps customers build Infrastructure-as-a-Service Clouds with HP CloudSystem matrix and services ...

Study: Rare deep-sea starfish stuck in juvenile body plan

2 May 2011 Columbus - A team of scientists has combined embryological observations, genetic sequencing, and supercomputing to determine that a group of small disk-shaped animals that were once thought to represent a new class of animals are actually starfish that have lost the large star-shaped, adult body from their life cycle.

In a paper for the journalSystematic Biology, Daniel Janies, Ph.D., a computational biologist in the department of Biomedical Informatics at The Ohio State University (OSU), leveraged computer systems at the Ohio Supercomputer Center (OSC) to help support his contention that class-level status of Xyloplax does not reflect their evolutionary history.

"Although Xyloplax does not represent a new class, it an even more interesting animal now because it represents a rare example of how natural selection can shape the whole the life cycle", he explained. "By omitting the large adult stage, Xylopax found how to make a living in the nooks and crannies of sunken timbers on the deep-sea floor."

Daniel Janies collaborated on the paper with co-authors Janet R. Voight, Ph.D., in the department of Zoology at the Field Museum of Natural History in Chicago, and Marymegan Daly, Ph.D., in the department of Evolution, Ecology and Organismal Biology at Ohio State.

Daniel Janies and his colleagues are examining echinoderms - starfish, sea urchins and their close relatives - as part of a study for the United States' National Science Foundation's Assembling the Tree of Life project. Several OSU scientists, including Daniel Janies and Marymegan Daly, have won these grants, typically valued at $3 million over five years, to better understand the interrelationships of all forms of life.

As tree-of-life analyses are computationally difficult, the current project is enabled by the computational muscle of OSC's flagship system, the 9,500-node IBM 1350 Opteron "Glenn Cluster".

"Last year, OSC deployed a $4 million expansion to the Glenn Cluster with a specific focus on supporting researchers, like Drs. Janies and Daly, in Ohio's growing biosciences sector", stated Ashok Krishnamurthy, interim co-executive director of OSC. "The centre provides a world-class computing environment for amazing bioscience research projects at places like OSU's Department of Biomedical Informatics, the Research Institute at Nationwide Children's Hospital and the Cleveland Clinic."

The researchers examined both genetic and anatomical data to support their hypothesis, comparing Xyloplax with a total of 86 species representing major lineages of the five living classes of echinoderms (sea cucumbers, sea urchins, starfish, brittle stars, and sea lilies). For accurate comparisons, they applied several analytical methods to search for the shared mutations and changes in anatomy among the lineages.

The results describe the relationships in a phylogenetic tree representing the best-supported hypothesis on how Xyloplax evolved from other echinoderms. Phylogenetics is the study of the evolutionary relationships and changes among various biological species as they evolve from a common ancestor.

Prior to this study, molecular investigations of Xyloplax were limited, because specimens in two early collections in the 1980s were fixed in a solution which degrades DNA. Janet Voight recently collected specimens of Xyloplax in the northeastern Pacific Ocean and carefully preserved them in ethanol. From these specimens, Marymegan Daly was able to sequence several genes for Xyloplax. The newer specimens of Xyloplax also included several brooding females containing embryos, providing Daniel Janies with an unprecedented view of the creature's early development.

Daniel Janies and colleagues theorize that Xyloplax differs from other starfish species because it is progenetic - that is, it has a rare, truncated life cycle that leaves the mature organism with features retained from its juvenile stages. For example, the arms of a starfish typically grow axially, like spokes of a wheel, as they develop from juveniles to adults, whereas Xyloplax grows along its circumference, like the wheel itself, and never develops arms.

"Irrespective of method or data sampling scheme, our results show that Xyloplax evolved from within starfish", Daniel Janies concluded. "Xyloplax is just a little starfish that has a strange body plan and habitat, so strange that many could not recognize it as a starfish until we unlocked its genome and development."

More information is available at http://echinotol.org
Source: Ohio Supercomputer Center

Back to Table of contents

Primeur weekly 2011-05-09

EuroFlash

Bright Cluster Manager chosen for TOP500-class HPC Cluster in France ...

Bull to issue key figures for the first quarter of 2011 ...

CA Technologies enables Logicalis UK to deliver flexible, efficient, and cost-effective Cloud computing services ...

Tiscali chooses Cisco Solutions to strengthen its backbone network and renew its data centre ...

Italtel and Cordys partners in Cloud computing ...

Oracle Next Generation Data Centre Index reveals businesses in Iberia, Italy and the Middle East are falling behind in sophistication of data centre usage ...

PRACE Research Infrastructure calls for One Year Project Grants on three Tier-0 Computers and pilots a synchronized Pilot Call for Tier-1 Grants ...

Single atom stores quantum information ...

USFlash

Cisco delivers Containerized Data Center ...

Study: Rare deep-sea starfish stuck in juvenile body plan ...

Explorys recognized by analyst firm as a Cool Vendor 2011 ...

HP launches early access programme for upcoming Enterprise Virtual Array ...

ISRO builds India's fastest supercomputer ...

Oracle unveils Oracle Health Sciences Cloud ...

Oracle SPARC servers demonstrate outstanding performance with new benchmark results ...

Platform Computing introduces comprehensive monitoring and analysis tools for Platform LSF environments ...

Several baffling puzzles in protein molecular structure solved with new method ...

New software to support interest in extreme science ...

Tokyo Institute of Technology to add CULA library to TSUBAME 2.0 ...

Tracker Software Products announces launch of new on-line PDF Viewer Cloud Applications ...

Windstream opens new data centre in Charlotte ...

Red Hat delivers the Platform-as-a-Service Cloud for open source developers ...

The SciNet Consortium at the University of Toronto selects NextIO vCORE Express 2070 GPU computing solutions ...

Intel reinvents transistors using new 3D structure ...

Red Hat Cloud helps customers build Infrastructure-as-a-Service Clouds with HP CloudSystem matrix and services ...