One genome, two genomes, one thousand genomes
I. V. GRIGORIEV (1). (1) U.S. DOE Joint Genome Institute, Walnut Creek, CA, U.S.A.
Genomics enables better understanding of fungal biology, interactions with plants and each other. The first sequenced genomes of mycorrhizal symbiont <i>Laccaria bilolor</i>, poplar rust <i>Malampsora larici-pucinia</i>, and saprotrophs revealed genome-encoded potentials for interactions with live and dead plants, expansions or contractions of gene sets including small secreted proteins, carbohydrate active enzymes, secondary metabolism genes. Actual interactions with plant hosts, mutualistic or parasitic, in systems like poplar-<i>Laccaria bicolor</i> and maize<i>-Cocchliobolus heterostrophus</i> can be monitored using transcriptome analysis. Decoding the combined transcriptomes of these systems and finding correlated expression of plant and fungal genes depends on availability and quality of reference genomes for both partners. Metagenomic and metatranscriptomic analyses of fungal communities, for example, in soil samples reveal their complexity and requires larger reference genome sets as produced by the 1000 genome and other large scale fungal genomics initiative. Different genomic approaches tuned for different biological questions and systems will be presented.
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