Development of a Fusarium graminearum Affymetrix GeneChip for profiling fungal gene expression in vitro and in planta

Fungal Genetics and Biology : FG & B
Ulrich GüldenerH Corby Kistler

Abstract

Recently the genome sequences of several filamentous fungi have become available, providing the opportunity for large-scale functional analysis including genome-wide expression analysis. We report the design and validation of the first Affymetrix GeneChip microarray based on the entire genome of a filamentous fungus, the ascomycetous plant pathogen Fusarium graminearum. To maximize the likelihood of representing all putative genes (approximately 14,000) on the array, two distinct sets of automatically predicted gene calls were used and integrated into the online F. graminearum Genome DataBase. From these gene sets, a subset of calls was manually annotated and a non-redundant extract of all calls together with additional EST sequences and controls were submitted for GeneChip design. Experiments were conducted to test the performance of the F. graminearum GeneChip. Hybridization experiments using genomic DNA demonstrated the usefulness of the array for experimentation with F. graminearum and at least four additional pathogenic Fusarium species. Differential transcript accumulation was detected using the F. graminearum GeneChip with treatments derived from the fungus grown in culture under three nutritional regimes and in comparis...Continue Reading

References

Dec 1, 1984·Proceedings of the National Academy of Sciences of the United States of America·M A Saghai-MaroofR W Allard
Oct 23, 1998·Science·S ChuI Herskowitz
Jul 10, 1999·Science·T GalitskiG R Fink
Feb 19, 2000·Proceedings of the National Academy of Sciences of the United States of America·A K HullJ L Celenza
Mar 22, 2000·Proceedings of the National Academy of Sciences of the United States of America·P SudarsanamF Winston
May 19, 2000·Infection and Immunity·Q T PhanS G Filler
Jun 28, 2000·Proceedings of the National Academy of Sciences of the United States of America·K O'DonnellH H Casper
Aug 6, 2002·Current Opinion in Microbiology·Michael C Lorenz
Dec 20, 2002·Bioinformatics·Earl HubbellRui Mei
Mar 7, 2003·Fungal Genetics and Biology : FG & B·Frances TrailH Corby Kistler
Feb 12, 2004·The Lancet Infectious Diseases·Penelope A BryantNigel Curtis
Mar 27, 2004·Bioinformatics·Jan IhmelsNaama Barkai
Aug 17, 2004·PLoS Biology·Earl F GlynnJennifer L Gerton
Sep 17, 2004·Nature·Nicholas M LuscombeMark Gerstein
Mar 24, 2005·Proceedings of the National Academy of Sciences of the United States of America·Alejandro P Rooney, Todd J Ward
Apr 23, 2005·Nature·Ralph A DeanBruce W Birren
Jun 15, 2005·Annual Review of Biochemistry·Roland B Stoughton
Jun 18, 2005·Science·Guo-Cheng YuanOliver J Rando
Aug 10, 2005·Eukaryotic Cell·Weihua FanJoseph Heitman
Dec 31, 2005·Nucleic Acids Research·Ulrich GüldenerGerhard Adam
Apr 14, 2006·Molecular Plant-microbe Interactions : MPMI·Jayanand BodduGary J Muehlbauer
Oct 24, 2008·Phytopathology·L Rosewich GaleH C Kistler
Nov 1, 2004·Molecular Plant Pathology·Rubella S Goswami, H Corby Kistler
May 1, 2003·Molecular Plant Pathology·Peter S SolomonRichard P Oliver

❮ Previous
Next ❯

Citations

Dec 17, 2008·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Barbara SteinerHermann Buerstmayr
Apr 16, 2011·Applied Microbiology and Biotechnology·Nayaka S ChandraH S Prakash
Sep 27, 2012·Applied Microbiology and Biotechnology·Janet M PaperJonathan D Walton
Dec 26, 2007·Nucleic Acids Research·H W MewesT Rattei
Nov 6, 2010·Nucleic Acids Research·Philip WongUlrich Güldener
May 19, 2011·Molecular Plant-microbe Interactions : MPMI·Erik LysøeH Corby Kistler
Nov 6, 2007·Molecular Plant-microbe Interactions : MPMI·Jayanand BodduGary J Muehlbauer
Jun 9, 2007·Molecular Plant-microbe Interactions : MPMI·B H BluhmL D Dunkle
Nov 7, 2008·Molecular Plant-microbe Interactions : MPMI·Amber E StephensJohn M Manners
Nov 3, 2009·Applied and Environmental Microbiology·S P McCormickL J Harris
Dec 7, 2007·Genome Génome / Conseil National De Recherches Canada·Yueh-Long ChangGary J Muehlbauer
May 8, 2007·Annual Review of Phytopathology·Roger P WiseSteven A Whitham
Nov 17, 2011·BMC Bioinformatics·John AntoniwKim E Hammond-Kosack
Apr 12, 2012·Journal of Visualized Experiments : JoVE·Brad CavinderFrances Trail
Apr 30, 2009·Annual Review of Phytopathology·Andrea Porras-Alfaro, Paul Bayman
Jul 20, 2014·Briefings in Functional Genomics·María Victoria Aguilar-PontesMiaomiao Zhou
Jan 23, 2013·Plant Physiology and Biochemistry : PPB·Luca SellaFrancesco Favaron
Jan 8, 2013·International Journal of Food Microbiology·Jens Laurids SørensenTeis Esben Sondergaard
Aug 27, 2011·Journal of Genetics and Genomics = Yi Chuan Xue Bao·Xueling HuangZhensheng Kang
Apr 2, 2011·Fungal Genetics and Biology : FG & B·Simon H MartinEmma T Steenkamp
Jan 18, 2011·Fungal Genetics and Biology : FG & B·Hokyoung SonYin-Won Lee
Sep 15, 2010·Biochemical and Biophysical Research Communications·Jungkwan LeeYin-Won Lee
Aug 3, 2010·Journal of Plant Physiology·Melanie BischofRalph Hückelhoven

❮ Previous
Next ❯

Related Concepts

Related Feeds

Candidiasis

Candidiasis is a common fungal infection caused by Candida and it can affect many parts for the body including mucosal membranes as well as the gastrointestinal, urinary, and respiratory tracts. Here is the latest research.

Candidiasis (ASM)

Candidiasis is a common fungal infection caused by Candida and it can affect many parts for the body including mucosal membranes as well as the gastrointestinal, urinary, and respiratory tracts. Here is the latest research.

Candida albicans

Candida albicans is an opportunistic, fungal pathogen of humans that frequently causes superficial infections of oral and vaginal mucosal surfaces of debilitated and susceptible individuals. Discover the latest research on Candida albicans here.