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Diaporthe species are the causal agents of melanose, stem-end rot, and gummosis diseases of citrus. D. citri is the predominant species on different citrus varieties. These diseases exceedingly reduce quality and marketability of fresh fruits. Melanose on fruits especially causes massive economic losses. The infection mechanisms of D. citri are still unclear and the genome sequence of D. citri has not been released. In order to systemically explore the interaction between citrus and D. citri, we sequenced the whole-genome of D. citri NFHF-8-4, which was isolated from a sample with melanose in Jiangxi Province. The NFHF-8-4 genome sequence will provide valuable information for studying the development process, infection process, and resistance to fungicides mechanisms in D. citri. [Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .
Xiang-Yu Liu; Chingchai Chaisiri; Yang Lin; Wei-Xiao Yin; Chao-Xi Luo. Whole-Genome Sequence of Diaporthe citri Isolate NFHF-8-4, the Causal Agent of Citrus Melanose. Molecular Plant-Microbe Interactions® 2021, 1 -01.
AMA StyleXiang-Yu Liu, Chingchai Chaisiri, Yang Lin, Wei-Xiao Yin, Chao-Xi Luo. Whole-Genome Sequence of Diaporthe citri Isolate NFHF-8-4, the Causal Agent of Citrus Melanose. Molecular Plant-Microbe Interactions®. 2021; ():1-01.
Chicago/Turabian StyleXiang-Yu Liu; Chingchai Chaisiri; Yang Lin; Wei-Xiao Yin; Chao-Xi Luo. 2021. "Whole-Genome Sequence of Diaporthe citri Isolate NFHF-8-4, the Causal Agent of Citrus Melanose." Molecular Plant-Microbe Interactions® , no. : 1-01.
The infection by a single-stranded DNA virus, Sclerotinia sclerotiorum hypovirulence-associated DNA virus 1 (SsHADV-1), causes hypovirulence, a reduced growth rate, and other colony morphological changes in its host Sclerotinia sclerotiorum strain DT-8. However, the mechanisms of the decline are still unclear. Using digital RNA sequencing, a transcriptome analysis was conducted to elucidate the phenotype-related genes with expression changes in response to SsHADV-1 infection. A total of 3110 S. sclerotiorum differentially expressed genes (DEGs) were detected during SsHADV-1 infection, 1741 of which were up-regulated, and 1369 were down-regulated. The identified DEGs were involved in several important pathways. DNA replication, DNA damage response, carbohydrate and lipid metabolism, ribosomal assembly, and translation were the affected categories in S. sclerotiorum upon SsHADV-1 infection. Moreover, the infection of SsHADV-1 also suppressed the expression of antiviral RNA silencing and virulence factor genes. These results provide further detailed insights into the effects of SsHADV-1 infection on the whole genome transcription in S. sclerotiorum.
Zheng Qu; Yanping Fu; Yang Lin; Zhenzhen Zhao; Xuekun Zhang; Jiasen Cheng; Jiatao Xie; Tao Chen; Bo Li; Daohong Jiang. Transcriptional Responses of Sclerotinia sclerotiorum to the Infection by SsHADV-1. Journal of Fungi 2021, 7, 493 .
AMA StyleZheng Qu, Yanping Fu, Yang Lin, Zhenzhen Zhao, Xuekun Zhang, Jiasen Cheng, Jiatao Xie, Tao Chen, Bo Li, Daohong Jiang. Transcriptional Responses of Sclerotinia sclerotiorum to the Infection by SsHADV-1. Journal of Fungi. 2021; 7 (7):493.
Chicago/Turabian StyleZheng Qu; Yanping Fu; Yang Lin; Zhenzhen Zhao; Xuekun Zhang; Jiasen Cheng; Jiatao Xie; Tao Chen; Bo Li; Daohong Jiang. 2021. "Transcriptional Responses of Sclerotinia sclerotiorum to the Infection by SsHADV-1." Journal of Fungi 7, no. 7: 493.
Rice sheath blight caused by Rhizoctonia solani is the major disease of rice that seriously threatens food security worldwide. Efficient and eco‐friendly biological approaches are urgently needed since no resistant cultivars are available. In this study, fallow and paddy soils were initially subjected to microbiome analyses, and the results showed that Talaromyces spp. were significantly more abundant in the paddy soil, while Trichoderma spp. were more abundant in the fallow soil, suggesting that Talaromyces spp. could live and survive better in the paddy soil. Five isolates, namely TF‐04, TF‐03, TF‐02, TF‐01, and TA‐02, were isolated from the paddy soil using sclerotia of R. solani as baits and were further evaluated for their activity against rice sheath blight. These isolates efficiently parasitized the hyphae and rotted the sclerotia even at higher water contents in sterilized sand and the soil. Isolate TF‐04 significantly promoted rice growth, reduced the severity of rice sheath blight, and increased rice yield under outdoor conditions. Defense related genes were upregulated and enzyme activities were enhanced in rice treated with isolate TF‐04. Our research supplies a microbiome guided approach to screen biological control agents, provides Talaromyces isolates to biologically control rice sheath blight.
Aqleem Abbas; Yanping Fu; Zheng Qu; Huizhang Zhao; Yongjian Sun; Yang Lin; Jiatao Xie; Jiasen Cheng; Daohong Jiang. Isolation and evaluation of the biocontrol potential of Talaromyces spp. against rice sheath blight guided by soil microbiome. Environmental Microbiology 2021, 1 .
AMA StyleAqleem Abbas, Yanping Fu, Zheng Qu, Huizhang Zhao, Yongjian Sun, Yang Lin, Jiatao Xie, Jiasen Cheng, Daohong Jiang. Isolation and evaluation of the biocontrol potential of Talaromyces spp. against rice sheath blight guided by soil microbiome. Environmental Microbiology. 2021; ():1.
Chicago/Turabian StyleAqleem Abbas; Yanping Fu; Zheng Qu; Huizhang Zhao; Yongjian Sun; Yang Lin; Jiatao Xie; Jiasen Cheng; Daohong Jiang. 2021. "Isolation and evaluation of the biocontrol potential of Talaromyces spp. against rice sheath blight guided by soil microbiome." Environmental Microbiology , no. : 1.
Diaporthe eres is considered one of the most important causal agents of many plant diseases, with a broad host range worldwide. In this study, multiple sequences of ribosomal internal transcribed spacer region (ITS), translation elongation factor 1-α gene (EF1-α), beta-tubulin gene (TUB2), calmodulin gene (CAL), and histone-3 gene (HIS) were used for multi-locus phylogenetic analysis. For phylogenetic analysis, maximum likelihood (ML), maximum parsimony (MP), and Bayesian inferred (BI) approaches were performed to investigate relationships of D. eres with closely related species. The results strongly support that the D. eres species falls into a monophyletic lineage, with the characteristics of a species complex. Phylogenetic informativeness (PI) analysis showed that clear boundaries could be proposed by using EF1-α, whereas ITS showed an ineffective reconstruction and, thus, was unsuitable for speciating boundaries for Diaporthe species. A combined dataset of EF1-α, CAL, TUB2, and HIS showed strong resolution for Diaporthe species, providing insights for the D. eres complex. Accordingly, besides D. biguttusis, D. camptothecicola, D. castaneae-mollissimae, D. cotoneastri, D. ellipicola, D. longicicola, D. mahothocarpus, D. momicola, D. nobilis, and Phomopsis fukushii, which have already been previously considered the synonymous species of D. eres, another three species, D. henanensis, D. lonicerae and D. rosicola, were further revealed to be synonyms of D. eres in this study. In order to demonstrate the genetic diversity of D. eres species in China, 138 D. eres isolates were randomly selected from previous studies in 16 provinces. These isolates were obtained from different major plant species from 2006 to 2020. The genetic distance was estimated with phylogenetic analysis and haplotype networks, and it was revealed that two major haplotypes existed in the Chinese populations of D. eres. The haplotype networks were widely dispersed and not uniquely correlated to specific populations. Overall, our analyses evaluated the phylogenetic identification for D. eres species and demonstrated the population diversity of D. eres in China.
Chingchai Chaisiri; Xiangyu Liu; Yang Lin; Yanping Fu; Fuxing Zhu; Chaoxi Luo. Phylogenetic and Haplotype Network Analyses of Diaporthe eres Species in China Based on Sequences of Multiple Loci. Biology 2021, 10, 179 .
AMA StyleChingchai Chaisiri, Xiangyu Liu, Yang Lin, Yanping Fu, Fuxing Zhu, Chaoxi Luo. Phylogenetic and Haplotype Network Analyses of Diaporthe eres Species in China Based on Sequences of Multiple Loci. Biology. 2021; 10 (3):179.
Chicago/Turabian StyleChingchai Chaisiri; Xiangyu Liu; Yang Lin; Yanping Fu; Fuxing Zhu; Chaoxi Luo. 2021. "Phylogenetic and Haplotype Network Analyses of Diaporthe eres Species in China Based on Sequences of Multiple Loci." Biology 10, no. 3: 179.
The Nanfengmiju (Citrus reticulata cv. Nanfengmiju), a high-quality local variety of mandarin, is one of the major fruit crops in Jiangxi Province, China. Citrus melanose and stem-end rot, two common fungal diseases of Nanfengmiju, are both caused by Diaporthe spp. (syn. Phomopsis spp.). Identification of the Diaporthe species is essential for epidemiological studies, quarantine measures, and management of diseases caused by these fungi. Melanose disease was observed on Nanfengmiju fruit in Jiangxi Province of China in 2016. Based on morphological characterization and multi-locus phylogenetic analyses, three out of 39 isolates from diseased samples were identified as D. passifloricola. Since these three isolates did not cause melanose on citrus fruit in the pathogenicity tests, they were presumed to be endophytic fungi present in the diseased tissues. However, our results indicate that D. passifloricola may persist as a symptom-less endophyte in the peel of citrus fruit, yet it may cause stem-end if it invades the stem end during fruit storage. To the best of our knowledge, this is the first report of D. passifloricola as the causal agent of the stem-end rot disease in Citrus reticulata cv. Nanfengmiju.
Chingchai Chaisiri; Xiang-Yu Liu; Wei-Xiao Yin; Chao-Xi Luo; Yang Lin. Morphology Characterization, Molecular Phylogeny, and Pathogenicity of Diaporthe passifloricola on Citrus reticulata cv. Nanfengmiju in Jiangxi Province, China. Plants 2021, 10, 218 .
AMA StyleChingchai Chaisiri, Xiang-Yu Liu, Wei-Xiao Yin, Chao-Xi Luo, Yang Lin. Morphology Characterization, Molecular Phylogeny, and Pathogenicity of Diaporthe passifloricola on Citrus reticulata cv. Nanfengmiju in Jiangxi Province, China. Plants. 2021; 10 (2):218.
Chicago/Turabian StyleChingchai Chaisiri; Xiang-Yu Liu; Wei-Xiao Yin; Chao-Xi Luo; Yang Lin. 2021. "Morphology Characterization, Molecular Phylogeny, and Pathogenicity of Diaporthe passifloricola on Citrus reticulata cv. Nanfengmiju in Jiangxi Province, China." Plants 10, no. 2: 218.
Considering the huge economic loss caused by postharvest diseases, the identification and prevention of citrus postharvest diseases is vital to the citrus industry. In 2018, 16 decayed citrus fruit from four citrus varieties—Satsuma mandarin (Citrus unshiu), Ponkan (Citrus reticulata Blanco cv. Ponkan), Nanfeng mandarin (Citrus reticulata cv. nanfengmiju), and Sugar orange (Citrus reticulata Blanco)—showing soft rot and sogginess on their surfaces and covered with white mycelia were collected from storage rooms in seven provinces. The pathogens were isolated and the pathogenicity of the isolates was tested. The fungal strains were identified as Lasiodiplodia pseudotheobromae based on their morphological characteristics and phylogenetic analyses using the internal transcribed spacer regions (ITS), translation elongation factor 1-α gene (TEF), and beta-tubulin (TUB) gene sequences. The strains could infect wounded citrus fruit and cause decay within two days post inoculation, but could not infect unwounded fruit. To our knowledge, this is the first report of citrus fruit decay caused by L. pseudotheobromae in China.
Jianghua Chen; Zihang Zhu; Yanping Fu; Jiasen Cheng; Jiatao Xie; Yang Lin. Identification of Lasiodiplodia pseudotheobromae Causing Fruit Rot of Citrus in China. Plants 2021, 10, 202 .
AMA StyleJianghua Chen, Zihang Zhu, Yanping Fu, Jiasen Cheng, Jiatao Xie, Yang Lin. Identification of Lasiodiplodia pseudotheobromae Causing Fruit Rot of Citrus in China. Plants. 2021; 10 (2):202.
Chicago/Turabian StyleJianghua Chen; Zihang Zhu; Yanping Fu; Jiasen Cheng; Jiatao Xie; Yang Lin. 2021. "Identification of Lasiodiplodia pseudotheobromae Causing Fruit Rot of Citrus in China." Plants 10, no. 2: 202.
Fusarium graminearum is an important worldwide pathogen that causes Fusarium head blight (FHB) in wheat, barley, maize, and other grains. LncRNAs play important roles in many biological processes, but little is known about their functions and mechanisms in filamentous fungi. Here, we report that a natural antisense RNA, GzmetE‐AS, is transcribed from the opposite strand of GzmetE. GzmetE encodes a homoserine O‐acetyltransferase, which is important for sexual development and plant infection. The expression of GzmetE‐AS was increased significantly during the conidiation stage, while GzmetE was upregulated in the late stage of sexual reproduction. Overexpression of GzmetE‐AS inhibited the transcription of GzmetE. In contrast, the expression of GzmetE was significantly increased in GzmetE‐AS transcription termination strain GzmetE‐AS‐T. Furthermore, GzmetE‐AS‐T produced more perithecia and facilitated the ascospore discharge, resembling the phenotype of GzmetE overexpressing strains. However, overexpression of GzmetE‐AS in ∆dcl1/2 strain cannot inhibit the expression of GzmetE, and the GzmetE nat‐siRNA is also significantly reduced in ∆dcl1/2 mutant. Taken together, we have identified a novel antisense lncRNA GzmetE‐AS, which is involved in asexual and sexual reproduction by regulating its antisense gene GzmetE through RNAi pathway. Our findings reveal that the lncRNA plays critical roles in the development in F. graminearum.
Jie Wang; Wenping Zeng; Jiatao Xie; Yanping Fu; Daohong Jiang; Yang Lin; Weidong Chen; Jiasen Cheng. A novel antisense long non‐coding RNA participates in asexual and sexual reproduction by regulating the expression of GzmetE in Fusarium graminearum. Environmental Microbiology 2021, 1 .
AMA StyleJie Wang, Wenping Zeng, Jiatao Xie, Yanping Fu, Daohong Jiang, Yang Lin, Weidong Chen, Jiasen Cheng. A novel antisense long non‐coding RNA participates in asexual and sexual reproduction by regulating the expression of GzmetE in Fusarium graminearum. Environmental Microbiology. 2021; ():1.
Chicago/Turabian StyleJie Wang; Wenping Zeng; Jiatao Xie; Yanping Fu; Daohong Jiang; Yang Lin; Weidong Chen; Jiasen Cheng. 2021. "A novel antisense long non‐coding RNA participates in asexual and sexual reproduction by regulating the expression of GzmetE in Fusarium graminearum." Environmental Microbiology , no. : 1.
Via virome sequencing, six viruses were detected from Magnaporthe oryzae strains YC81-2, including one virus in the family Tombusviridae, one virus in the family Narnaviridae and four viruses in the family Botourmiaviridae. Since the RNA-dependent RNA polymerase (RdRp) of one botourmiavirus show the highest identity (79%) with Magnaporthe oryzae ourmia-like virus 1 (MOLV1), the virus that was grouped into the genus Magoulivirus was designated as Magnaporthe oryzae botourmiavirus 2 (MOBV2). The three other novel botourmiaviruses were selected for further study. The complete nucleotide sequences of the three botourmiaviruses were determined. Sequence analysis showed that virus 1, virus 2, and virus 3 were 2598, 2385, and 2326 nts in length, respectively. The variable 3′ untranslated region (3′-UTR) and 5′-UTR of each virus could be folded into a stable stem-loop secondary structure. Each virus consisted of a unique ORF encoding a putative RdRp. The putative proteins with a conserved GDD motif of RdRp showed the highest sequence similarity to RdRps of viruses in the family Botourmiaviridae. Phylogenetic analysis demonstrated that these viruses were three distinct novel botourmiaviruses, clustered into the Botourmiaviridae family but not belonging to any known genera of this family. Thus, virus 1, virus 2, and virus 3 were designated as Magnaporthe oryzae botourmiavirus 5, 6, and 7 (MOBV5, MOBV6, and MOBV7), respectively. Our results suggest that four distinct botourmiaviruses, MOBV2, MOBV5, MOBV6, and MOBV7, co-infect a single strain of Magnaporthe oryzae, and MOBV5, MOBV6, and MOBV7 are members of three unclassified genera in the family Botourmiaviridae.
Yang Liu; Liyan Zhang; Ahmed Esmael; Jie Duan; Xuefeng Bian; Jichun Jia; Jiatao Xie; Jiasen Cheng; Yanping Fu; Daohong Jiang; Yang Lin. Four Novel Botourmiaviruses Co-Infecting an Isolate of the Rice Blast Fungus Magnaporthe oryzae. Viruses 2020, 12, 1383 .
AMA StyleYang Liu, Liyan Zhang, Ahmed Esmael, Jie Duan, Xuefeng Bian, Jichun Jia, Jiatao Xie, Jiasen Cheng, Yanping Fu, Daohong Jiang, Yang Lin. Four Novel Botourmiaviruses Co-Infecting an Isolate of the Rice Blast Fungus Magnaporthe oryzae. Viruses. 2020; 12 (12):1383.
Chicago/Turabian StyleYang Liu; Liyan Zhang; Ahmed Esmael; Jie Duan; Xuefeng Bian; Jichun Jia; Jiatao Xie; Jiasen Cheng; Yanping Fu; Daohong Jiang; Yang Lin. 2020. "Four Novel Botourmiaviruses Co-Infecting an Isolate of the Rice Blast Fungus Magnaporthe oryzae." Viruses 12, no. 12: 1383.
We previously identified Sclerotinia sclerotiorum negative-stranded virus 1 (SsNSRV-1), the first (−) ssRNA mycovirus, associated with hypovirulence of its fungal host Sclerotinia sclerotiorum. In this study, functional analysis of Open Reading Frame Ι (ORF Ι) of SsNSRV-1 was performed. The integration and expression of ORF Ι led to defects in hyphal tips, vegetative growth, and virulence of the mutant strains of S. sclerotiorum. Further, differentially expressed genes (DEGs) responding to the expression of ORF Ι were identified by transcriptome analysis. In all, 686 DEGs consisted of 267 up-regulated genes and 419 down-regulated genes. DEGs reprogramed by ORF Ι were relevant to secretory proteins, pathogenicity, transcription, transmembrane transport, protein biosynthesis, modification, and metabolism. Alternative splicing was also detected in all mutant strains, but not in hypovirulent strain AH98, which was co-infected by SsNSRV-1 and Sclerotinia sclerotiorum hypovirus 1 (SsHV-1). Thus, the integrity of SsNSRV-1 genome may be necessary to protect viral mRNA from splicing and inactivation by the host. Taken together, the results suggested that protein ORF Ι could regulate the transcription, translation, and modification of host genes in order to facilitate viral proliferation and reduce the virulence of the host. Therefore, ORF Ι may be a potential gene used for the prevention of S. sclerotiorum.
Zhixiao Gao; Junyan Wu; Daohong Jiang; Jiatao Xie; Jiasen Cheng; Yang Lin. ORF Ι of Mycovirus SsNSRV-1 is Associated with Debilitating Symptoms of Sclerotinia sclerotiorum. Viruses 2020, 12, 456 .
AMA StyleZhixiao Gao, Junyan Wu, Daohong Jiang, Jiatao Xie, Jiasen Cheng, Yang Lin. ORF Ι of Mycovirus SsNSRV-1 is Associated with Debilitating Symptoms of Sclerotinia sclerotiorum. Viruses. 2020; 12 (4):456.
Chicago/Turabian StyleZhixiao Gao; Junyan Wu; Daohong Jiang; Jiatao Xie; Jiasen Cheng; Yang Lin. 2020. "ORF Ι of Mycovirus SsNSRV-1 is Associated with Debilitating Symptoms of Sclerotinia sclerotiorum." Viruses 12, no. 4: 456.
Melanose disease caused by Diaporthe citri is considered as one of the most important and destructive diseases of citrus worldwide. In this study, isolates from melanose samples were obtained and analyzed. Firstly, the internal transcribed spacer (ITS) sequences were used to measure Diaporthe-like boundary species. Then, a subset of thirty-eight representatives were selected to perform the phylogenetic analysis with combined sequences of ITS, beta-tubulin gene (TUB), translation elongation factor 1-α gene (TEF), calmodulin gene (CAL), and histone-3 gene (HIS). As a result, these representative isolates were identified belonging to D. citri, D. citriasiana, D. discoidispora, D. eres, D. sojae, and D. unshiuensis. Among these species, the D. citri was the predominant species that could be isolated at highest rate from different melanose diseased tissues. The morphological characteristics of representative isolates of D. citri were investigated on different media. Finally, a molecular tool based on the novel species-specific primer pair TUBDcitri-F1/TUBD-R1, which was designed from TUB gene, was developed to detect D. citri efficiently. A polymerase chain reaction (PCR) amplicon of 217 bp could be specifically amplified with the developed molecular tool. The sensitivity of the novel species-specific detection was upon to 10 pg of D. citri genomic DNA in a reaction. Therefore, the D. citri could be unequivocally identified from closely related Diaporthe species by using this simple PCR approach.
Chingchai Chaisiri; Xiang-Yu Liu; Yang Lin; Jiang-Bo Li; Bin Xiong; Chao-Xi Luo. Phylogenetic Analysis and Development of Molecular Tool for Detection of Diaporthe citri Causing Melanose Disease of Citrus. Plants 2020, 9, 329 .
AMA StyleChingchai Chaisiri, Xiang-Yu Liu, Yang Lin, Jiang-Bo Li, Bin Xiong, Chao-Xi Luo. Phylogenetic Analysis and Development of Molecular Tool for Detection of Diaporthe citri Causing Melanose Disease of Citrus. Plants. 2020; 9 (3):329.
Chicago/Turabian StyleChingchai Chaisiri; Xiang-Yu Liu; Yang Lin; Jiang-Bo Li; Bin Xiong; Chao-Xi Luo. 2020. "Phylogenetic Analysis and Development of Molecular Tool for Detection of Diaporthe citri Causing Melanose Disease of Citrus." Plants 9, no. 3: 329.