Aspergillus Genetic Information

 

 

   
 

  Aspergillus Genome Database
  CADRE

  Aspergillus strains
  Knock- Out Cassettes for A. nidulans
  Cloning tools and libraries

  Aspergillus gene lists
 AGRPG founding

    ●    Statutes

    ●    Committee (AGRPC)

 


Asperfest11 Program

Asperfest 11 minutes

Asperfest 10 Program

Asperfest 10 minutes

       Asperfest 10 participants

Asperfest 9 abstracts
       Asperfest 9 program
       Asperfest 9 minutes
       Asperfest 9 photo
       Asperfest 9 poster winners

Asperfest 8

Asperfest 7 program
       Asperfest 7 minutes

AsperFest 6 program
       Asperfest 6 minutes

Asperfest 5 Program
         Asperfest 5 Minutes

Asperfest 4 Program
        Asperfest 4 Minutes
         
Asperfest 4 photos:
            
DSM prize, AGRPC, Session

Asperfest3 Program
         
Asperfest3 Minutes

Asperfest2 Program
         
Asperfest2 Minutes

Asperfest1 Program (pdf)
          
Asperfest1 Minutes

      

 

Additional Information

Aspergillus nidulans lesions and how to deal with them
 

The Searchable Aspergillus Bibliography
New A. niger strains from E. Kafer
The Aspergillus Newsletter
        (1960-1981)

 

Protocols
Culture Medium

             More media recipes

Nutritional supplements

Care and feeding of Aspergillus
DNA Miniprep

Large Scale DNA Prep

DNA from spores for PCR

Total RNA Prep

RNA Prep with TriZOL

RNA Gel

KCl Transformation

Transformation with PyrG89

Transformation with Vinoflow

Immunofluorescence

Fusion PCR

Spore PCR
             Spore PCR with pfu
 

 

 

Other protocols are available on the general methods page and on the Neurospora protocol page

 

 

 

Archives

     2005
     2006
     2007

Asperfest 11 was held in Seville Spain just before the ECFG meeting. The Novozymes student poster prizes (300 each) were awarded to: Kordula Becker (Ruhr-Universitat Bochum), Stephen Dolan (National University of Ireland), Lukas Schafferer (Innsbruck Medical University) and Mayia Karachaliou (University of Athens). Paul Dyer chaired the student poster prizes. The judges were Paul Dyer, Vera Meyer, Elaine Bignell, and Jan Lehmbeck.

11/26/13

ASPERFEST11    deadline Dec 16
Join us for Asperfest 11, March 22-23, 2014 (Saturday evening - Sunday) in Seville just before ECFG12.
This year’s Pontecorvo Lecture will be given by Jean-Paul Latge.
Students, don’t forget to submit your abstracts to be considered for the Novozymes Student Poster Prize. Winners receive cash along with fame.
Asperfest 11 Registration is through the main ECFG12 website (http://www.ecfg12.com ).
Submit abstracts for Asperfest as a Word document at aspergillus@plantbio.uga.edu. Use the same format (and the same abstract if you like) as the ECFG12 meeting. Indicate preference for talk or poster. Please underline the name of the presenter. Students who are presenting, please add an asterisk (*) after your name to be considered for the Novozymes Student Poster Prize.
Asperfest abstract acceptance will close Dec 16, 2013.


11/18/13


2013 AGRPC

Prize winner Farhana Runa

Prize winner Sara Blosser

Prize winner Alexandra Soukup


12/4/12

 

The 10th International Aspergillus Meeting (alias Asperfest10) is March 11-12, 2013, at Asilomar immediately before FGC27. Registration was online through the main FGC registration site workshops link. Early registration and abstract submission deadlines are December 12.

 

This year in honor of a decade of Asperfest we will have a special LOGO CONTEST. More details will be sent out soon, but start those creative juices flowing.

 
STUDENTS don’t forget to sign up for the Novozymes student poster competition for the chance to win glory and cash. When you submit your abstract, click the “Additional Option” box for Apserfest 10 and the “Yes, I am a student…” box.

 The schedule outline follows to help you with your travel plans:


Monday, March 11

3:00 pm - 6:00 pm Registration
7:00 pm - 10:00 pm Novozymes Poster and Welcome Reception

Tuesday, March 12
9:00 am - 4:00 pm Scientific Sessions including outstanding speakers, genomic project updates, talks from abstracts, community directions discussion and the Pontecorvo Lecture

10/8/12


2012 Aspergillus Genomes Research Policy Committee
Asperfest 9 poster winners




4/5/12

Abstracts from the 9th Asperfest in Marburg Germany are  available online.

11/17/11

Please welcome the following announcement from Liverpool:

We have performed whole transcriptome sequencing of A. nidulans using ABI's SOLiD high-throughput sequencing platform. Some preliminary data has been made publicly available for visualisation via the CADRE genome browser, with more to follow in the near future once we have overcome technical difficulties related to displaying large data sets. The dataset currently available was prepared from wild type A. nidulans (G00) grown for 16 hours in minimal media supplemented with nitrate a glucose. The library was prepared and sequenced in accordance with ABI's protocols for whole transcriptome RNA-seq, and the resulting reads aligned to the genome using Bowtie and Tophat.

To view the data go to cadre-genomes.org.uk and select A. nidulans. On the left of the page select "location view" then "configure this page". Our data is listed under "functional genomics" and can be added to the display.


10/20/11
Asperfest 9 will be held  March 29-30, 2012 at the Max-Planck-Institute in Marburg, Germany, just before the ECFG11 meeting.

Registration will be organized by the ECFG website.


10/5/11
Aspergillus nidulans kinase knock-out mutant strains are available in arrayed sets.

3/28/11
News from the NCBI
Eight Aspergillus genomes have been reannotated with multi-genome Gnomon and the results presented in a poster at Asperfest 8. Two Aspergillus genomes with multi-genome Gnomon annotation are currently In RefSeq, Aspergillus niger CBS 513.88 (FGSC A513) (http://www.ncbi.nlm.nih.gov/genomeprj/19263 ) and Aspergillus oryzae RIB40  (http://www.ncbi.nlm.nih.gov/genomeprj/28175). For A. oryzae records in the nucleotide database please follow the link in the description at the bottom of the project. The gff file format and other formats are available for A. niger (ftp://ftp.ncbi.nih.gov/genomes/Fungi/Aspergillus_niger_CBS_513_88_uid19263/ ) and for A. oryzae (ftp://ftp.ncbi.nih.gov/genomes/Fungi/Aspergillus_oryzae_RIB40_uid28175/ ). If anybody is interested in the other Aspergillus Gnomon annotations please contact genomes@ncbi.nlm.nih.gov with the following Subject heading: Aspergillus Gnomon annotation - attention Fungal Curator.

During the multi-genome Gnomon reannotation a possible contamination between Aspergillus flavus NRRL3357 and Neosartorya fischeri NRRL 181 was discovered which was then confirmed by JCVI and resulted in the removal (September 2010) of 2430 scaffolds in the A. flavus assembly ( see comment in http://www.ncbi.nlm.nih.gov/nuccore/AAIH00000000.2) and 538 scaffolds in the N. fischeri assembly ( see comments http://www.ncbi.nlm.nih.gov/nuccore/AAKE00000000 ). The removal involved small scaffolds and affected only 2 protein-coding genes for A. flavus and 11 protein-coding genes for N. fischeri.


3/22/11

Ronald deVries asked to post his presentation from the JGI genome workshop at the 26th Fungal Genetics Conference and the invitation to join the JGI Aspergillus genome project.
It is available here: DeVriesAspergillusJGIProject.pdf

3/7/11


The program for Asperfest 8 is now available. The complete program book with abstracts is also available for download.

A list of attendees is also available at the GSA site


10/27/10

Asperfest 8 will be Monday, March 14, 2011 (registration and evening poster reception) and Tuesday, March 15 (9AM-4PM) at Asilomar Conference Center immediately before the 26th Fungal Genetics Conference at Asilomar

Please register at the GSA site

Abstract submission is closed


 

The 2010 AGRPC Pontecorvo Lecturer, Geoff Turner answering questions

 

2010 Novozymes Poster prize recipients
(K. O’Hanlon (National University of Ireland) and Taylor Schoberle (University of Texas M.D. Anderson Cancer Center))

Photos from the 2010 Asperfest 7 in the Netherlands


 

7/30/10

 

Please visit the dedicated page for A. nidulans knock-out cassettes.
 


 

 

6/22/10

 

Knock- Out Cassettes for A. nidulans have been deposited at the FGSC

 

These cassettes were produced at Dartmouth Medical School and have been shipped to the FGSC as DNA suitable for transformation or amplification. We received two sets of 96 well plates. The first holds 60 ul of cassette DNA per well and the second holds mixed primers.

 

 

 

 


 

 

 

 

 

Asperfest 7 will begin on the evening of March 28, 2010 the next day. It will be at the NH Conference Centre Leeuwenhorst in The Netherlands immediately before ECFG 10.  The meeting will feature a variety of the best work in Aspergillus species.

Gerhard Braus and Gustavo Goldman are the meeting Chairs.

 

More information online at: http://www.ecfg10.info/.

 

 

Students: This year students have a special reduced registration rate thanks to the generosity of Steve Osmani and Gustavo Goldman who donated royalties from their Aspergillus book for student support. 
We will also have student poster prizes again, so be sure to submit a poster abstract

 

New Investigators:  We will have a session this year featuring new investigators.  If you have been an assistant professor or equivalent with your own group for 6 years or less, please email me at aspergillus@plantbio.uga.edu  with a tentative title and a brief description of your work (2-4 sentences).

 

Programs from Asperfest-6 and other Aspergillus meetings can be found on our homepage. (http://www.fgsc.net/Aspergillus/asperghome.html).



Check out the new FGSC Strain and Plasmid catalog interfaces.

 

The 2009 Aspergillus Bibliography is now available online as part of Fungal Genetics Reports, 56.

 

 

1/4/10

 

We (David Denning, Bill Nierman and Natalie Fedorova) are about to launch the NIAID Genome Sequencing Center Contract project which we have titled “Community Resources for Aspergillus fumigatus.” The project will be accomplished over a two year period and we welcome your suggestions regarding possible future publications, story lines, focus, and associated analyses as well as specific genes or pathway that will be chosen for extensive manual annotation.

 

The project will have three components.

 

Component 1 is to sequence to high quality two additional reference genomes. These additional genomes will be AF10 and AF210 (both US strains from my time in the Stevens lab). We will likely use a combination of 454 paired-end reads and 100 bp Illumina reads. We are hoping that these sequencing platforms will give us a better view of the centromeres than we obtained using Sanger sequencing for Af293 and A1163, the other two sequenced reference strains.  The relationship of these strains to others, by microsatellite typing, is described in our recent paper on azole resistance (Howard et al; Emerg Infect Dis, 2009).

 

Component 2 is to experimentally determine the gene models for A. fumigatus genes using RNA-seq from the Illumina platform. We will run RNAs from volunteer contributors for multiple conditions to see transcripts from nearly all of the A. fumigatus genes. We will use a pipeline at JCVI to process these reads to identify 5’ and 3’ UTRs, mRNA stop and start sites, intron/exon boundaries, and non-coding RNAs. The information will be incorporated into the annotated version of these four reference genome sequences.

 

There will be an opportunity for community folks to review and edit the annotation before the project is declared done.

 

Component 3 is to employ the Illumina sequencing platform to identify SNPs and INDELs from ~45 azole resistant clinical strains, and the original WT susceptible strains. The resultant data set will be available of to those who would like to participate in the analysis of this data. JCVI will provide informatics support for this analysis.  These include strains from multiple patients from different locales, different resistance mutations, different decades and some are sequential isolates over time.

 

Those who have already volunteered to provide total RNAs for Component 2 are:

Brian Wickes

Elaine Bignell

Scott Filler

David Askew

Nancy Keller

Corné Klaassen

Paul Bowyer

Jüergen Löeffler

 

 Fuller details about the strains and program will be posted shortly in the genome section of the Aspergillus website. 

 

 Natalie will be presenting a poster at AAA in Rome (assuming it is accepted) describing the project and possible novel analyses. We can discuss these at the meeting, or by e-mail. We do not intend to present, at least for publication, another 'genome paper', but rather focused papers on specific topics. We recognize that combined genomic and phenotypic/experimental data will generate more appropriate community interest than simply more genes and gene annotation.

 


 

12/4/09

 

Asperfest 7 will be March 28, 2010 (evening) and March 29, 2010 (full day) at the NH Conference Centre Leeuwenhorst in The Netherlands immediately before ECFG 10.  The meeting will feature a variety of the best work in Aspergillus species. Get details on abstract submission and register online at: http://www.ecfg10.info/. Early registration for ECFG closes December 19, so don't delay.

 

Students: This year students have a special reduced registration rate thanks to the generosity of Steve Osmani and Gustavo Goldman who donated royalties from their Aspergillus book for student support. 
We will also have student poster prizes again, so be sure to submit a poster abstract

 

New Investigators:  We will have a session this year featuring new investigators.  If you have been an assistant professor or equivalent with your own group for 6 years or less, please email me at aspergillus@plantbio.uga.edu  with a tentative title and a brief description of your work (2-4 sentences).

 

Programs from Asperfest-6 and other Aspergillus meetings can be found on our homepage. (http://www.fgsc.net/Aspergillus/asperghome.html).



Check out the new FGSC Strain and Plasmid catalog interfaces.

 

The 2009 Aspergillus Bibliography is now available online as part of Fungal Genetics Reports, 56.

 


 

10/28/09

 

The final program and minutes from AsperFest 6 are now available online as are several photos:
 

              

 

10/14/09

 

News from the AspGD

Orthologs and syntenic regions

 AspGD users can now navigate from A. nidulans genes to orthologs and syntenic regions in the other sequenced Aspergillus species. Links are available from the Locus Summary page that navigate to an interactive comparative visualization tool (please see this example). 

Alternatively, the ortholog clusters can be searched for gene name from any Aspergillus species, at http://aspgd.igs.umaryland.edu/

Orthologs among the sequenced Aspergillus genomes were generated via a modified mutual best hit (MBH) approach, in which close paralogs are collapsed into a single node prior to MBH clustering.

 AspGD is using Sybil, an open source, web-based software package for searching and visualizing  comparative genome data (http://sybil.sf.net).

A paper entitled "The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community" will appear in the 2010 Database Issue of Nucleic Acids Research. The paper is now available online as a Nucleic Acids Research Advance Access article.

 

 

 

6th International Aspergillus Meeting
March 15-17, 2009
Asilomar, California

Asperfest 6 will be held as a satellite meeting at the 25th Fungal Genetics Conference

 

 

 

 

Pontecorvo Lecture by

Professor Herb Arst  
Imperial College, London
 


Asperfest6 Final Program
(Now with abstracts! Updated 3/11/09)


GSA Asperfest 6 page
 

              

 


 

January 2009

Postdoctoral position

The Institute of Microbiology and Genetics, Dept. of Molecular Microbiology and Genetics at the Georg-August-University of Goettingen invites applications for a  Postdoctoral position (salary class 13 TV-L) within the BMBF-project “ERA-Net PathoGenoMics: Transcriptional networks controlling virulence in fungal pathogens” for at least three years

Area of research:   Molecular analysis of the growth of Aspergillus fumigatus mutants in blood.

Prerequisite:  Ph.D. in biology or biochemistry/molecular biology with focus on genetic/biochemistry and/or cell biology. Experience with filamentous fungi and bioinformatics will be of advantage but not required.

The University aims to increase the number of female scientific staff employed and expressly requests applications from qualified women. In the framework of the legal requirements and in the case of equal qualifications, women will be considered preferentially in all areas in which they are under-represented.

Disabled persons will also be considered preferentially in the case of equal aptitude.

Written applications should be sent to Prof. Dr. Gerhard Braus, Institut für Mikrobiologie und Genetik, Abt. Molekulare Mikrobiologie und Genetik, Grisebachstr. 8, D-37077 Göttingen. E-mail: gbraus@gwdg.de until March 1st , 2009.
Please send only copies of your documents (no originals). We will not be able to send back your application and all documents will be destroyed after 3 months.
 

 

Scientific Curator

The Aspergillus Genome Database (http://www.aspgd.org/) is a new collaborative project between Jennifer Wortman's group at the University of Maryland School of Medicine and Gavin Sherlock's group in the Department of Genetics at Stanford Medical School (which is also responsible for the Candida Genome Database). AspGD has an open position for a scientific curator, available immediately at Stanford University. Ideally, the successful candidate will have a Ph.D. in molecular biology or microbiology, with experience in Aspergillus or another fungal system. More details about the position are available online

All applications must be submitted through the Stanford jobs website.




11/25/08

A. FUMIGATUS KO CASSETTES AVAILABLE FREE

The PFGRC at JCVI has made a set of 70 knock out cassettes for A. fumigatus available. Starting in January, 2009 you will also be able to order up to 12 custom A. fumigatus knock out cassettes of your choice. See more info at: http://pfgrc.jcvi.org/index.php/gateway_clones/available_knockouts.html

WISH YOU COULD COLLABORATE WITH J. CRAIG VENTER INSTITUTE (FORMERLY TIGR)?
The PFGRC at J Craig Venter Institute is calling for white paper proposals. These are essentially mini-grants that allow collaboration between individual researchers and JCVI on Gene Expression studies, Comparative Genomics, Gene Knock Outs, Proteomics and Bioinformatics as well as associated methodologies and technologies.
Pre-proposal deadline December 12, 2008
Final proposal deadline is January 19, 2009.

For more information see:
White Paper Requests - http://pfgrc.jcvi.org/index.php/white_papers/white_papers_main.html
Submission Process - http://pfgrc.jcvi.org/index.php/white_papers/white_papers_requests.html
Review and Selection Process - http://pfgrc.jcvi.org/index.php/white_papers/white_papers_review.html




October 28, 2008

Asperfest6 registration is available at the GSA  webpage

Online abstract submission is via the FGSC website.

 

 

September 29, 2008

 

Professor Herb Arst of Imperial College, London, will present the Pontecorvo Lecture at the 6th International Aspergillus Meeting.

 

September 15, 2008

Asperfest 6 will be held as a satellite meeting at the 25th Fungal Genetics Conference at Asilomar.
The meeting will commence Sunday, March15 with an evening reception and will continue with scientific sessions until Noon on Tuesday, March 17.

 

March 11, 2008

 

The program and abstracts for the 5th International Aspergillus meeting are available online.

Please see the updated Asperfest5 home page

 

January 11, 2008

 

January 2008 new strain update (pdf)

 


   

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