Genome Assembly and Transcriptome Analysis of the Fungus Coniella diplodiella During Infection on Grapevine (Vitis vinifera L.).

Ruitao Liu,Peng Li,Xiucai Fan,Yiming Wang,Jianfu Jiang,Chonghuai Liu,Ying Zhang,Lei Sun

doi:10.3389/fmicb.2020.599150

Abstract

Grape white rot caused by Coniella diplodiella (Speg.) affects the production and quality of grapevine in China and other grapevine-growing countries. Despite the importance of C. diplodiella as a serious disease-causing agent in grape, the genome information and molecular mechanisms underlying its pathogenicity are poorly understood. To bridge this gap, 40.93 Mbp of C. diplodiella strain WR01 was de novo assembled. A total of 9,403 putative protein-coding genes were predicted. Among these, 608 and 248 genes are potentially secreted proteins and candidate effector proteins (CEPs), respectively. Additionally, the transcriptome of C. diplodiella was analyzed after feeding with crude grapevine leaf homogenates, which reveals the transcriptional expression of 9,115 genes. Gene ontology enrichment analysis indicated that the highly enriched genes are related with carbohydrate metabolism and secondary metabolite synthesis. Forty-three putative effectors were cloned from C. diplodiella, and applied for further functional analysis. Among them, one protein exhibited strong effect in the suppression of BCL2-associated X (BAX)-induced hypersensitive response after transiently expressed in Nicotiana benthamiana leaves. This work facilitates valuable genetic basis for understanding the molecular mechanism underlying C. diplodiella-grapevine interaction.

Highlights

Grapevine (Vitis vinifera L.) is an economically important fruit crop around the world
The genome of C. diplodiella was sequenced by PacBio longread single molecule real-time (SMRT) technologies to 145fold coverage with an estimated genome size of 40.93 Mb and GC content of 49.79% (Table 1)
C. diplodiella contains a large number of genes encoding carbohydrate-active enzymes, consistent with other necrotrophic pathogens and its relative C. lustricola

Summary

Introduction

Grapevine (Vitis vinifera L.) is an economically important fruit crop around the world. Genome and Transcriptome Analysis of Coniella diplodiella antifungal chemicals were used to control the white rot disease, the continuous application of chemical fungicides lead to the emergence of resistant pathogens and food safety and environmental problems (Han et al, 2015; Escribano-Viana et al, 2018). Several candidate pathogenesis-related (PR) genes have been identified by comparative transcriptome analysis of susceptible and resistant grapevine species or cultivars challenged by C. diplodiella (Su et al, 2019; Zhang et al, 2019). Both salicylic acid (SA) and jasmonic acid (JA) synthesis signaling pathways may involve in host resistance against C. diplodiella. Molecular mechanism underlying pathogenicity of C. diplodiella on grapes has not been well understood so far, possibly due to the lack of genome information of this species

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Results

Conclusion