The full-length genome sequence of a novel mitovirus from Botryosphaeria dothidea, the causal agent of pear ring rot disease

Qi, Zhang; Gao, Yunjing; Wang, Qiong; Yang, Yuekun; Wang, Fang; Hóng, Ní; Wang, Guoping; Wang, Liping

doi:10.1007/s00705-021-05189-6

Cited by 9 publications

(5 citation statements)

References 29 publications

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“…This feature was found in the study by Botella and collaborators (2022) [ 106 ], who described narnaviruses in the fungus Phytophthora palustris , viruses that are related to the traditional positive-coding monopartite, included in the genus Narnavirus . Also of note, Kinsella and collaborators (2022) [ 107 ] identified narnaviruses in the hosts R. oryzae and A. lentulus , which are pathogenic fungi, and Zou et al (2021) [ 108 ] analyzed the fungus Botryosphaeria dothidea , which is the causal agent of the disease pear ring rot. The viral contig NVc is the first narnavirus detected in Ceratocystis cacaofunesta.…”

Section: Discussionmentioning

confidence: 99%

Uncovering a Complex Virome Associated with the Cacao Pathogens Ceratocystis cacaofunesta and Ceratocystis fimbriata

et al. 2023

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Theobroma cacao is one of the main crops of economic importance in the world as the source of raw material for producing chocolate and derivatives. The crop is the main source of income for thousands of small farmers, who produce more than 80% of the world’s cocoa supply. However, the emergence, re-emergence and proliferation of pathogens, such as Ceratocystis spp., the causative agent of Ceratocystis wilt disease and canker disease, have been affecting the sustainability of many crops. Fungal control is laborious, often depending on fungicides that are expensive and/or toxic to humans, prompting researchers to look for new solutions to counteract the proliferation of these pathogens, including the use of biological agents such as mycoviruses. In this study, we investigated the diversity of microorganisms associated with the T. cacao pathogens Ceratocystis cacaofunesta and Ceratocystis fimbriata with a focus on the virome using RNA sequencing data available in public databases. We used a comprehensive bioinformatics pipeline containing several steps for viral sequence enrichment and took advantage of an integrated assembly step composed of different assemblers followed by sequence similarity searches using NCBI nonredundant databases. Our strategy was able to identify four putative C. cacaofunesta viruses (hypovirus, sclerotimonavirus, alphapartitivirus and narnavirus) and six C. fimbriata viruses (three alphaendornaviruses, one victorivirus and two mitoviruses). All the viral sequences identified showed similarity to viral genomes in public databases only at the amino acid level, likely representing new viral species. Of note, we present the first report of viruses associated with the cacao pathogens C. cacaofunesta and C. fimbriata and the second report of viral species infecting members of the Ceratocystidaceae family. Our findings highlight the need for further prospective studies to uncover the real diversity of fungus-infecting viruses that can contribute to the development of new management strategies.

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Section: Discussionmentioning

confidence: 99%

Uncovering a Complex Virome Associated with the Cacao Pathogens Ceratocystis cacaofunesta and Ceratocystis fimbriata

et al. 2023

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“…Then, adapter-related reads, reads for which basic information could not be determined, low-quality reads, and host-related reads were further removed from the raw reads. Subsequently, the cleaned reads were spliced and compared to GenBank, NR, and CDD databases using Trinity and DIAMOND software, respectively [33][34][35]. Finally, we obtained viral RNA sequences.…”

Section: Provenance Of the Virus Materialsmentioning

confidence: 99%

Genome sequence and characterization of a novel ourmia-like virus infecting Botryosphaeria dothidea in China

Song

Wang

et al. 2023

Preprint

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Here, we describe the complete genome sequence and molecular characterization of a novel ourmia-like virus, tentatively named “Botryosphaeria dothidea ourmia-like virus 3” (BdOLV3), isolated from the phytopathogenic fungus Botryosphaeria dothidea strain ZM190712-1, associated with branch dieback of walnut in Henan Province, China. The complete BdOLV3 genome is 2247 nucleotides (nt) in length, with a content of 31.55% G, 16.11% A, 23.54% U, and 28.79% C. The BdOLV3 genome contains a single large open reading frame (ORF) encoding an RNA-dependent RNA polymerase (RdRp) of 612 amino acids (aa) with a molecular mass of 67.68 kDa. This RdRp protein contains a catalytic core domain associated with ourmia-like virus in the family Botourmiaviridae. A phylogenetic tree revealed that the novel ourmia-like virus clustered with members of the genus Magoulivirus and was separate from members of the other eleven genera of the family Botourmiaviridae.

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“…So far, 18 mycoviruses have been described from various strains of B. dothidea: Ten of them are dsRNA viruses from four families ( Chrysoviridae , Partitiviridae , Totiviridae , and the proposed Botybirnaviridae), and two are unassigned [ 25 , 26 , 27 , 28 , 29 , 30 , 31 , 32 , 33 ]. The remaining eight viruses are +ssRNA viruses in the families Alphaflexiviridae [ 34 ], Fusariviridae [ 35 , 36 ], Mitoviridae [ 37 , 38 , 39 ] and Botourmiaviridae [ 40 , 41 , 42 ]. Some of these mycoviruses have been identified from hypovirulent strains of B. dothidea , suggesting that they might have a negative impact on the fungal host virulence [ 25 , 28 , 32 , 34 ].…”

Section: Introductionmentioning

confidence: 99%

Characterization of the RNA Mycovirome Associated with Grapevine Fungal Pathogens: Analysis of Mycovirus Distribution and Their Genetic Variability within a Collection of Botryosphaeriaceae Isolates

Comont,

Faure,

Candresse

et al. 2024

Viruses

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Botryosphaeriaceae are fungi involved in the decay of various woody species, including the grapevine, leading to significant production losses. This fungal family is largely ubiquitous, and seven species of Botryosphaeriaceae have been identified in French vineyards, with variable levels of aggressiveness, both in vitro and in planta. Mycoviruses can impact the life traits of their fungal hosts, including aggressiveness, and are one of the factors influencing fungal pathogenicity. In this study, the RNA mycovirome of fifteen Botryosphaeriaceae isolates was characterized through the high-throughput sequencing of double-stranded RNA preparations from the respective samples. Eight mycoviruses were detected, including three potential novel species in the Narnaviridae family, as well as in the proposed Mycobunyaviridae and Fusagraviridae families. A large collection of Botryosphaeriaceae isolates was screened using RT-PCR assays specific for 20 Botryosphaeriaceae-infecting mycoviruses. Among the mycoviruses detected, some appeared to be specialists within a single host species, while others infected isolates belonging to multiple Botryosphaeriaceae species. This screening allowed us to conclude that one-third of the Botryosphaeriaceae isolates were infected by at least one mycovirus, and a significant proportion of isolates (43.5%) were found to be coinfected by several viruses, with very complex RNA mycoviromes for some N. parvum isolates.

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The full-length genome sequence of a novel mitovirus from Botryosphaeria dothidea, the causal agent of pear ring rot disease

Cited by 9 publications

References 29 publications

Uncovering a Complex Virome Associated with the Cacao Pathogens Ceratocystis cacaofunesta and Ceratocystis fimbriata

Uncovering a Complex Virome Associated with the Cacao Pathogens Ceratocystis cacaofunesta and Ceratocystis fimbriata

Genome sequence and characterization of a novel ourmia-like virus infecting Botryosphaeria dothidea in China

Characterization of the RNA Mycovirome Associated with Grapevine Fungal Pathogens: Analysis of Mycovirus Distribution and Their Genetic Variability within a Collection of Botryosphaeriaceae Isolates

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