Forum for Science, Industry and Business

Sponsored by:     3M 
Search our Site:

 

Scientists sequence genome of the N2-fixing, soil-living bacterium Azotobacter vinelandii

22.06.2009
A collaboration of researchers, which includes scientists at the Virginia Bioinformatics Institute (VBI) and Virginia Tech, have completed the genome sequence of Azotobacter vinelandii, uncovering important genetic information that will contribute to a more complete understanding of the biology of this versatile, soil-living bacterium.

The work will help advance research on A. vinelandii's role as a model study organism for investigation of nitrogen fixation and other biochemical processes. It will also pave the way for new applications in biotechnology, including the possible use of A. vinelandii as a "factory" for the production of other proteins, in particular those that may be damaged by the presence of oxygen.

A. vinelandii lives in soil and has the ability to convert nitrogen from the atmosphere into ammonia via bacterial enzymes called nitrogenases. Nitrogen fixation is essential for life since different nitrogen-containing molecules are used to produce DNA and the amino acids that are the building blocks of proteins. For most bacteria, the nitrogenase enzymes involved in nitrogen fixation are very susceptible to destruction by oxygen. A. vinelandii is one of the few bacteria that can fix nitrogen in the presence of oxygen, using three distinct nitrogenase systems.

The work of the Azotobacter vinelandii genome project team, which will be featured on the cover of the second July 2009 issue (14) of the Journal of Bacteriology*, identifies unique features of the A. vinelandii genome that explain how the bacteria is involved in oxygen-sensitive reactions such as nitrogen fixation, while maintaining strictly aerobic metabolism.

A. vinelandii has one of the highest respiratory rates of any known bacterium and has the capacity to maintain low levels of cytoplasmic oxygen through a process called respiratory protection. The sequence of the bacteria's genome allowed the team of researchers to identify the genes involved in respiration, including those responsible for respiratory protection. Genome analysis helped pinpoint the chromosomal location of the three known oxygen-sensitive nitrogenases, as well as the genes that code for other oxygen-sensitive enzymes such as carbon-monoxide dehydrogenase and a formate dehydrogenase. The sequence also provided important information on the genes that code for alginate, a polymer that further protects the organism from excess oxygen by forming a physical barrier around the bacterium.

"A. vinelandii is an attractive model organism for biochemical studies because of its ability to produce high yields of quality enzymes," said João Setubal, associate professor at VBI and the Department of Computer Science at Virginia Tech. "The findings in this study provide new prospects for the wider application of this bacterium as a factory for the production and characterization of oxygen-sensitive proteins through the use of genetic approaches to achieve high-level protein expression."

According to Ray Dixon, project lead in Molecular Biology at the John Innes Centre in the United Kingdom, "The international collaboration created by the Azotobacter genome project was an integral part of the discovery of these unexpected anaerobic processes in A. vinelandii, which confirmed the importance of this organism as a host for the expression and purification of oxygen-sensitive enzymes."

The work will also provide more information about the unique biosynthetic pathways involved in the bacteria's ability to adapt its metabolism to diverse sources of nutrients. For example, if no carbon source is present, A. vinelandii will undergo a differentiation process, forming cysts that are resistant to desiccation and other chemical and physical challenges.

A. vinelandii belongs to the Pseudomonadaceae family. The completion of the A. vinelandii genome will serve as an essential phylogenetic anchor point for comparative genomics work with other systems. This research has also helped the Azotobacter vinelandii genome project expand its existing undergraduate training platform in genomics technology. Undergraduate researchers from around the world worked on many aspects of the project, including the finishing, annotation, bioinformatics, and analytical phases. This work provided critical training for these new scientists in the fields of genomics and bioinformatics.

"The key to the success of this project was an extremely effective multinational collaboration between Azotobacter biologists and our core genomics team," explained Derek Wood, associate professor in Seattle Pacific University's Department of Biology and the University of Washington's Department of Microbiology. "Numerous undergraduate researchers both in the classroom and in the laboratory worked closely with the team on annotation and analyses. This multilevel interdisciplinary collaboration led to an excellent annotation and informed analysis of this model bacterial system and provided an excellent training platform for our undergraduate partners."

According to Dennis Dean, biochemistry professor in Virginia Tech's College of Agriculture and Life Sciences and director of the Fralin Life Science Institute, "Given the long history of Virginia Tech's research involving nitrogen fixation studies, including work from J.S. Chen, Bill Newton, and others, it is particularly satisfying that the university has contributed to this important endeavor."

The A. vinelandii genome sequence involved work from researchers from VBI, Virginia Tech, Wake Forest University, Monsanto, the Norwegian University of Science and Technology, Universidad Nacional Autónoma de México, Centro de Biotecnologia y Genomica de Plantas (Spain), Universidade Federal do Mato Grosso do Sul (Brazil), Hiram College, Centro de Estudios de Biodiversidad y Biotecnologia (Argentina), Midwestern University, Seattle Pacific University, University of Arizona, Macquarie University (Australia), the University of Wisconsin-Madison, the Sainsbury Laboratory (United Kingdom), the John Innes Centre (United Kingdom), and the University of Washington.

* João C. Setubal, Patricia dos Santos, Barry S. Goldman, Helga Ertesvåg, Guadelupe Espin, Luis M. Rubio, Svein Valla, Nalvo F. Almeida, Divya Balasubramanian, Lindsey Cromes, Leonardo Curatti, Zijin Du, Eric Godsy, Brad Goodner, Kaitlyn Hellner-Burris, José A. Hernandez, Katherine Houmiel, Juan Imperial, Christina Kennedy, Timothy J. Larson, Phil Latreille, Lauren S. Ligon, Jing Lu, Mali Mærk, Nancy M. Miller, Stacie Norton, Ina P. O'Carroll1, Ian Paulsen, Estella C. Raulfs, Rebecca Roemer, James Rosser, Daniel Segura, Steve Slater, Shawn L. Stricklin, David J. Studholme, Jian Sun, Carlos J. Viana, Erik Wallin, Baomin Wang, Cathy Wheeler, Huijun Zhu, Dennis R. Dean, Ray Dixon, and Derek Wood (2009) The genome sequence of Azotobacter vinelandii, an obligate aerobe specialized to support diverse anaerobic metabolic processes. Journal of Bacteriology, May 8, 2009, Epub ahead of print, oi:10.1128/JB.00504-09 (http://jb.asm.org/cgi/content/short/JB.00504-09v1).

About the Azotobacter vinelandii genome project

The Azotobacter vinelandii genome project brought together extensive expertise from five independent groups with significant experience in Azotobacter biology, genomics, bioinformatics, and undergraduate education with the goal of producing a finished, well-annotated genome sequence of Azotobacter vinelandii strain DJ and expanding existing undergraduate training platform in genomics technology at both participating and off-site institutions. The work was supported by a National Science Foundation (NSF) grant (#0523357) and M.J. Murdock Charitable Trust Life Sciences Program grants (2004262:JVZ and 2006245:JVZ).

About the Virginia Bioinformatics Institute

The Virginia Bioinformatics Institute (VBI) at Virginia Tech has a research platform centered on understanding the "disease triangle" of host-pathogen-environment interactions in plants, humans and other animals. By successfully channeling innovation into transdisciplinary approaches that combine information technology and biology, researchers at VBI are addressing some of today's key challenges in the biomedical, environmental and plant sciences.

Susan Bland | EurekAlert!
Further information:
http://www.vbi.vt.edu/

More articles from Life Sciences:

nachricht Molecular Force Sensors
20.09.2017 | Max-Planck-Institut für Biochemie

nachricht Foster tadpoles trigger parental instinct in poison frogs
20.09.2017 | Veterinärmedizinische Universität Wien

All articles from Life Sciences >>>

The most recent press releases about innovation >>>

Die letzten 5 Focus-News des innovations-reports im Überblick:

Im Focus: Tiny lasers from a gallery of whispers

New technique promises tunable laser devices

Whispering gallery mode (WGM) resonators are used to make tiny micro-lasers, sensors, switches, routers and other devices. These tiny structures rely on a...

Im Focus: Ultrafast snapshots of relaxing electrons in solids

Using ultrafast flashes of laser and x-ray radiation, scientists at the Max Planck Institute of Quantum Optics (Garching, Germany) took snapshots of the briefest electron motion inside a solid material to date. The electron motion lasted only 750 billionths of the billionth of a second before it fainted, setting a new record of human capability to capture ultrafast processes inside solids!

When x-rays shine onto solid materials or large molecules, an electron is pushed away from its original place near the nucleus of the atom, leaving a hole...

Im Focus: Quantum Sensors Decipher Magnetic Ordering in a New Semiconducting Material

For the first time, physicists have successfully imaged spiral magnetic ordering in a multiferroic material. These materials are considered highly promising candidates for future data storage media. The researchers were able to prove their findings using unique quantum sensors that were developed at Basel University and that can analyze electromagnetic fields on the nanometer scale. The results – obtained by scientists from the University of Basel’s Department of Physics, the Swiss Nanoscience Institute, the University of Montpellier and several laboratories from University Paris-Saclay – were recently published in the journal Nature.

Multiferroics are materials that simultaneously react to electric and magnetic fields. These two properties are rarely found together, and their combined...

Im Focus: Fast, convenient & standardized: New lab innovation for automated tissue engineering & drug

MBM ScienceBridge GmbH successfully negotiated a license agreement between University Medical Center Göttingen (UMG) and the biotech company Tissue Systems Holding GmbH about commercial use of a multi-well tissue plate for automated and reliable tissue engineering & drug testing.

MBM ScienceBridge GmbH successfully negotiated a license agreement between University Medical Center Göttingen (UMG) and the biotech company Tissue Systems...

Im Focus: Silencing bacteria

HZI researchers pave the way for new agents that render hospital pathogens mute

Pathogenic bacteria are becoming resistant to common antibiotics to an ever increasing degree. One of the most difficult germs is Pseudomonas aeruginosa, a...

All Focus news of the innovation-report >>>

Anzeige

Anzeige

Event News

“Lasers in Composites Symposium” in Aachen – from Science to Application

19.09.2017 | Event News

I-ESA 2018 – Call for Papers

12.09.2017 | Event News

EMBO at Basel Life, a new conference on current and emerging life science research

06.09.2017 | Event News

 
Latest News

Molecular Force Sensors

20.09.2017 | Life Sciences

Producing electricity during flight

20.09.2017 | Power and Electrical Engineering

Tiny lasers from a gallery of whispers

20.09.2017 | Physics and Astronomy

VideoLinks
B2B-VideoLinks
More VideoLinks >>>