Long-read genome sequencing reveals a large genome inversion enriched in metabolic pathways related to volatile compounds and pigments production in Trichoderma atroviride

FLORES-LÓPEZV.; PARDO A.; ADRIAN TURJANSKI; HERRERA-ESTRELLAA; CERVANTES-PÉREZS.A.1; RAMÍREZ-SÁNCHEZO.; DARÍO A. FERNÁNDEZ DO PORTO; ATRIZTÁN-HERNÁNDEZK.; SOSA E.; VILLALOBOS-ESCOBEDO M.; ABREU-GOODGERC.

Hinxton

Workshop; Biodiversity Genomics 2020; 2020

The genus Trichoderma encompasses hundreds of cosmopolitan fungi with high flexibility to adapt to various ecological conditions and a variety of lifestyles. Several species of this genus establish beneficial relationships with plants and are considered mycoparasites, while other species are used to produce enzymes or metabolites for industrial or medical applications (1-2). Lifestyle specialization of Trichoderma as well as that of other fungal genera has been related to the production of secondary metabolites and enzymes, accompanied by genome rearrangements (3-4). Here, we describe a new, complete genome assembly of the Trichoderma atroviride IMI206040 strain using long-read sequencing with the Pacific Biosciences technology. Comparative genome analysis against the current genome showed that the new assembly, gene prediction and annotation significantly improved. This work also contributes to the identification of noncoding RNAs, such as small and long ncRNAs. We report a synteny and structural study against the Trichoderma reesei genome, where we found several chromosome rearrangements between genomes, being the most outstanding a duplication, one translocation and two large inversions. The largest inversion - ~1.6Mb- localizes to chromosome-2 of T. reesei and contig-3 of T. atroviride. Interestingly, this inversion contains specialized genes related to metabolic pathways such as volatile compounds production, pigments production and cellulose degradation contrasting with T. reesei.