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ARS Home » Pacific West Area » Salinas, California » Crop Improvement and Protection Research » Research » Publications at this Location » Publication #329652

Research Project: Detection and Management of Pathogens in Strawberry and Vegetable Production Systems

Location: Crop Improvement and Protection Research

Title: Mitochondrial genomes and comparative genomics of Aphanomyces astaci and Aphanomyces invadans

item MAKKONEN, JENNY - University Of Eastern Finland
item VESTERBACKA, ARTO - University Of Eastern Finland
item Martin, Frank
item JUSSILA, JAPO - University Of Eastern Finland
item DIEGUEZ-URIBEONDO, JAVIER - Consejo Superior De Investigaciones Cientificas (CSIC)
item KORTET, RAIINE - University Of Eastern Finland
item KOKKO, HARRI - University Of Eastern Finland

Submitted to: Scientific Reports
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 10/10/2016
Publication Date: 11/3/2016
Citation: Makkonen, J., Vesterbacka, A., Martin, F.N., Jussila, J., Dieguez-Uribeondo, J., Kortet, R., Kokko, H. 2016. Mitochondrial genomes and comparative genomics of Aphanomyces astaci and Aphanomyces invadans. Scientific Reports. 6:36089. doi: 10.1038/srep36089.

Interpretive Summary: The manuscript describes the assembly of the mitochondrial genomes of two species of Aphanomyces that cause disease of crayfish and fish in aquatic ecosystems and their comparison with other oomycete mitochondrial genomes. The data generated in this submission is useful for development of molecular diagnostic techniques and markers for population studies.

Technical Abstract: The genus Aphanomyces (Saprolegniales, Oomycetes) includes species with variety of ecologies from saprotrophs to plant and animal parasites. Two important species in this genus are Aphanomyces astaci that causes the crayfish plague and its close relative, Aphanomyces invadans, which causes the epizootic ulcerative syndrome on fish. In this study, we have assembled and annotated the mitochondrial genomes of A. astaci and A. invadans from the whole genome shotgun sequence reads (PRJNA187372; PRJNA258292, respectively). The assembly was generated from A. astaci Pc-genotype strain APO3 and A. invadans strain NJM9701. The sizes of the mtDNAs were 49,489 bp and 49,061 bp for A. astaci and A. invadans, respectively. The species shared similar genetic content and organization encoding 38 proteins, three putative open reading frames and 33 transfer RNA’s of 19 amino acids for peptide synthesis. Both species also had a large inverted repeat region (LIR) of approximately 12 kb, the LIR contained large and small ribosomal subunits and eight protein coding genes. These annotated mitochondrial genomes serve as a valuable genetic backbone for further development of diagnostic methods and phylogenetic and migration studies of the animal parasitic species of Aphanomyces.