Transcriptome analysis of Neotyphodium and Epichloë grass endophytes.
Large-scale gene discovery has been performed for the grass fungal endophytes Neotyphodium coenophialum, Neotyphodium lolii, and Epichloë festucae. The resulting sequences have been annotated by comparison with public DNA and protein sequence databases and using intermediate gene ontology annotation tools. Endophyte sequences have also been analysed for the presence of simple sequence repeat and single nucleotide polymorphism molecular genetic markers. Sequences and annotation are maintained within a MySQL database that may be queried using a custom web interface. Two cDNA-based microarrays have been generated from this genome resource. They permit the interrogation of 3806 Neotyphodium genes (Nchip microarray), and 4195 Neotyphodium and 920 Epichloë genes (EndoChip microarray), respectively. These microarrays provide tools for high-throughput transcriptome analysis, including genome-specific gene expression studies, profiling of novel endophyte genes, and investigation of the host grass-symbiont interaction. Comparative transcriptome analysis in Neotyphodium and Epichloë was performed.
Felitti
Silvina
S
Plant Biotechnology Centre, Primary Industries Research Victoria, Department of Primary Industries, La Trobe University, Bundoora, Australia.
Shields
Katherine
K
Ramsperger
Marc
M
Tian
Pei
P
Sawbridge
Tim
T
Webster
Tracie
T
Logan
Erica
E
Erwin
Tim
T
Forster
John
J
Edwards
David
D
Spangenberg
German
G
D019295:Computational Biology; D003470:Culture Media; D020224:Expressed Sequence Tags; D015870:Gene Expression; D020869:Gene Expression Profiling; D015723:Gene Library; D005800:Genes, Fungal; D006999:Hypocreales / Q000235:genetics* / Q000254:growth & development; D020411:Oligonucleotide Array Sequence Analysis; D006109:Poaceae / Q000382:microbiology; D012331:RNA, Fungal / Q000032:analysis*; D012333:RNA, Messenger / Q000032:analysis*; D014158:Transcription, Genetic
D003470:Culture Media; D012331:RNA, Fungal; D012333:RNA, Messenger