FGSC Aspergillus Homepage Archive, 2010-2012
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
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2012 Aspergillus Genomes Research Policy Committee |
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Asperfest 9 poster winners |
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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
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Please register
at the GSA site |
Abstract submission is closed |
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.
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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. 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. 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).
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.