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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Comparative Genomics of Smut Pathogens: Insights From Orphans and Positively Selected Genes Into Host Specialization

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Author(s):
Benevenuto, Juliana [1] ; Teixeira-Silva, Natalia S. [1] ; Kuramae, Eiko E. [2] ; Croll, Daniel [3] ; Monteiro-Vitorello, Claudia B. [1]
Total Authors: 5
Affiliation:
[1] Univ Sao Paulo, Luiz de Queiroz Coll Agr USP ESALQ, Dept Genet, Microbial Genet Lab, Piracicaba - Brazil
[2] Netherlands Inst Ecol NIOO KNAW, Dept Microbial Ecol, Wageningen - Netherlands
[3] Univ Neuchatel UNINE, Inst Biol, Lab Evolutionary Genet, Neuchatel - Switzerland
Total Affiliations: 3
Document type: Journal article
Source: FRONTIERS IN MICROBIOLOGY; v. 9, APR 6 2018.
Web of Science Citations: 5
Abstract

Host specialization is a key evolutionary process for the diversification and emergence of new pathogens. However, the molecular determinants of host range are poorly understood. Smut fungi are biotrophic pathogens that have distinct and narrow host ranges based on largely unknown genetic determinants. Hence, we aimed to expand comparative genomics analyses of smut fungi by including more species infecting different hosts and to define orphans and positively selected genes to gain further insights into the genetics basis of host specialization. We analyzed nine lineages of smut fungi isolated from eight crop and non-crop hosts: maize, barley, sugarcane, wheat, oats, Zizania latifolia (Manchurian rice), Echinochloa colona (a wild grass), and Persicaria sp. (a wild dicot plant). We assembled two new genomes: Ustilago hordei (strain Uhor01) isolated from oats and U. tritici (strain CBS 119.19) isolated from wheat. The smut genomes were of small sizes, ranging from 18.38 to 24.63 Mb. U. hordei species experienced genome expansions due to the proliferation of transposable elements and the amount of these elements varied among the two strains. Phylogenetic analysis confirmed that Ustilago is not a monophyletic genus and, furthermore, detected misclassification of the U. tritici specimen. The comparison between smut pathogens of crop and non-crop hosts did not reveal distinct signatures, suggesting that host domestication did not play a dominant role in shaping the evolution of smuts. We found that host specialization in smut fungi likely has a complex genetic basis: different functional categories were enriched in orphans and lineage-specific selected genes. The diversification and gain/loss of effector genes are probably the most important determinants of host specificity. (AU)

FAPESP's process: 16/03768-5 - Comparative genomics perspective of host specialization by smut fungi
Grantee:Juliana Benevenuto
Support type: Scholarships abroad - Research Internship - Doctorate
FAPESP's process: 16/16376-8 - Functional analysis of candidate effector proteins during Sporisorium scitamineum x sugarcane interaction
Grantee:Natália de Sousa Teixeira e Silva
Support type: Scholarships in Brazil - Doctorate
FAPESP's process: 14/21802-0 - Comparative genomics perspective of host specialization by smut fungi and genetic diversity of Sporisorium scitamineum isolates (sugarcane smut agent)
Grantee:Juliana Benevenuto
Support type: Scholarships in Brazil - Doctorate
FAPESP's process: 16/17545-8 - Genes, genomes & transposable elements contribution to plant-microbe interaction: a sugarcane study case
Grantee:Marie-Anne van Sluys
Support type: Program for Research on Bioenergy (BIOEN) - Thematic Grants
FAPESP's process: 17/13268-2 - Genomic and functional studies of the interaction Sporisorium scitamineum-cana and other smut fungi: advances and challenges
Grantee:Claudia Barros Monteiro Vitorello
Support type: Regular Research Grants