Phytobiomes Journal最新文献_第8页

Tare soil alters the composition of the developing the potato rhizosphere microbiome 剥皮土壤改变了马铃薯根际微生物群的组成

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-12-02 DOI: 10.1094/pbiomes-11-22-0093-r

K. Delventhal, P. Busby, K. Frost

{"title":"Tare soil alters the composition of the developing the potato rhizosphere microbiome","authors":"K. Delventhal, P. Busby, K. Frost","doi":"10.1094/pbiomes-11-22-0093-r","DOIUrl":"https://doi.org/10.1094/pbiomes-11-22-0093-r","url":null,"abstract":"Understanding the factors influencing microbial community composition in the rhizosphere is an important step towards managing the microbiomes of globally important crops like potato (Solanum tuberosum). Potato is vegetatively propagated and seed tubers are planted with tare soil, or soil adhering to the tuber surface, from their field of origin. Bulk soil is known to influence rhizosphere microbiome composition, but whether tare soil additionally contributes to compositional variation is not known. We tested this hypothesis in a greenhouse experiment where tare soil was removed (or remained intact for controls) prior to planting in either soil from a potato field or soil from a previously uncultivated area next the potato field. We used ITS and 16S metabarcoding to characterize the fungal and bacterial rhizosphere communities of plants grown from the experimental seed tubers. We found that tare soil influenced rhizosphere microbial composition, more strongly for fungi than bacteria. As expected, bulk soil origin explained the greatest amount of variation in the rhizosphere microbiome overall, but we found no evidence that the impact of tare soil on microbial community composition differed between bulk soil origins. The magnitude of the tare soil effect did, however, depend in part on seed tuber origin. Our findings reveal that tare soil explains a significant, though modest, amount of variation in rhizosphere composition, and sets the stage for future work addressing functional consequences for plant health and productivity.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-12-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44003944","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Blueberry Fruit Mycobiome Varies by Tissue Type and Fungicide Treatment 蓝莓果实真菌组因组织类型和杀菌剂处理而异

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-11-15 DOI: 10.1094/pbiomes-04-22-0028-fi

Shay Szymanski, R. Longley, R. Hatlen, Lexi Heger, N. Sharma, G. Bonito, T. Miles

{"title":"The Blueberry Fruit Mycobiome Varies by Tissue Type and Fungicide Treatment","authors":"Shay Szymanski, R. Longley, R. Hatlen, Lexi Heger, N. Sharma, G. Bonito, T. Miles","doi":"10.1094/pbiomes-04-22-0028-fi","DOIUrl":"https://doi.org/10.1094/pbiomes-04-22-0028-fi","url":null,"abstract":"The microbial ecology of agricultural products may provide crucial insights into the management of post-harvest fruit rots. To investigate post-harvest microbial communities of highbush blueberry (Vaccinium corymbosum), five fungicide spray programs were evaluated for their influence on the mycobiome of fruit skin and within the fruit pulp. The mycobiome was characterized by sequencing amplicons of the ITS1 region with primers ITS1f and ITS4 with the Illumina MiSeq 300bp v3 system. Two of the five programs utilized commercial biological fungicides, two utilized azoxystrobin, and one utilized a series of treatments to simulate a realistic disease management program. Fungicide applications reduced diversity of the fruit skin mycobiome (R2=0.409, p=0.0001) and had a moderate impact on the pulp mycobiome (R2=0.233, p=0.0001). The mycobiome of the fruit pulp was also more variable than the skin mycobiome. In comparison to the untreated controls, each fungicide treatment program had a strongly significant effect on the beta-diversity of the blueberry fruit skin mycobiome (R2=0.53-0.73, p=0.0001). In the pulp, three of the five treatments had moderate but significant effects on beta-diversity in comparison to the control (R2=0.10-0.18, p=0.0005-0.017). Most samples indicated that fungi belonging to Epicoccum, Papiliotrema, and Sporobolomyces were widely prevalent and abundant across treatments and tissues. Fruit pathogen Botrytis cinerea was particularly abundant in the pulp of three of fungicide treatments. Results from this study provide a baseline for future exploration of post-harvest rot pathology and provide a community context on how fungicides may alter fungal communities in agricultural systems.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-11-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45601965","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Fungal Metabarcoding Data for Two Grapevine Varieties (Regent and Vitis vinifera ‘Cabernet-Sauvignon’) Inoculated with Powdery Mildew (Erysiphe necator) Under Drought Conditions 两个葡萄品种（丽晶和葡萄赤霞珠）在干旱条件下接种白粉菌的真菌代谢编码数据

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-11-15 DOI: 10.1094/pbiomes-06-22-0037-a

C. Vacher, Claire Francioni, Mario Michel, Tania Fort, Julie Faivre d’Arcier, É. Chancerel, F. Delmotte, C. E. Delmas

引用次数: 1

Biocontrol impacts on wheat physiology and Fusarium head blight outcomes are bacterial endophyte strain- and cultivar specific 生物防治对小麦生理和赤霉病结果的影响是菌株和品种特有的内生细菌

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-11-02 DOI: 10.1094/pbiomes-08-22-0056-r

B. Whitaker, M. Vaughan, S. McCormick

{"title":"Biocontrol impacts on wheat physiology and Fusarium head blight outcomes are bacterial endophyte strain- and cultivar specific","authors":"B. Whitaker, M. Vaughan, S. McCormick","doi":"10.1094/pbiomes-08-22-0056-r","DOIUrl":"https://doi.org/10.1094/pbiomes-08-22-0056-r","url":null,"abstract":"Fusarium head blight (FHB) is an economically important disease of small grains globally and is primarily caused by Fusarium graminearum in North America. Recently, microbial biocontrols have risen in importance as sustainable agents of disease control. However, the path to implementation of microbial biocontrols in agriculture will require an understanding of how microbiota impact both plant performance overall and vary with inherent host disease resistance. Using a full-factorial, controlled greenhouse experiment, we tested how seven bacterial endophyte seed soak treatments impacted both plant physiology prior to pathogen infection and FHB disease progression in Triticum aestivum (wheat). Bacterial endophyte treatments strongly impacted the light dependent reactions of photosynthesis, with changes in plant traits regulating light energy allocation and the build-up of electrochemical energy storage across the thylakoid membrane. Physiological responses were contingent on host variety. The direct effects of bacterial endophytes on wheat response to infection were weak and dependent on the inherent disease resistance of the host variety. However, disease outcomes were indirectly mediated by bacterial impacts on plant traits, with proton motive force traits emerging as common predictors of disease response across both host varieties and other traits indicating potential trade-offs in host response to bacterial inoculants and F. graminearum infection. Our results provide an alternate mechanism for microbial biocontrol efficacy other than direct antagonism with the pathogen inside the host. Furthermore, the chlorophyll-fluorescence and absorbance-based markers assessed here may have translational potential as a phenotyping tool for FHB susceptibility in wheat and other small grains.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45044418","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Characterization of Foliar Fungal Endophyte Communities from White Pine Blister Rust Resistant and Susceptible Pinus flexilis in Natural Stands in the Southern Rocky Mountains 南落基山脉天然林分白松水疱锈病抗性和易感柔柔松叶片真菌内生菌群落特征

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-09-26 DOI: 10.1094/pbiomes-02-22-0012-r

J. Ata, A. Schoettle, R. Sitz, J. Caballero, Christine T. Holtz, Z. Abdo, J. Stewart

{"title":"Characterization of Foliar Fungal Endophyte Communities from White Pine Blister Rust Resistant and Susceptible Pinus flexilis in Natural Stands in the Southern Rocky Mountains","authors":"J. Ata, A. Schoettle, R. Sitz, J. Caballero, Christine T. Holtz, Z. Abdo, J. Stewart","doi":"10.1094/pbiomes-02-22-0012-r","DOIUrl":"https://doi.org/10.1094/pbiomes-02-22-0012-r","url":null,"abstract":"Fungal endophytic communities in needles of field-grown Pinus flexilis previously inferred to carry major gene resistance (R) to white pine blister rust (WPBR) or to lack it (S) were surveyed to identify unique microbes that may be recruited by WPBR-resistant genotypes. Resistant and susceptible trees were sampled in each of 11 P. flexilis populations for a total of 50 trees sampled. Through next-generation sequencing, this study showed a diverse needle mycobiota in P. flexilis, of which many remain unknown, regardless of the presence or absence of the WPBR resistance gene, Cr4. Ascomycota dominated the mycobiota (88.9%) followed by Basidiomycota (4.4%) and Chytridiomycota (0.03%), and the remaining 6.7% were unclassified. Shared ( n = 105) and unique ( n = 48 in R and n = 49 in S) fungal taxa, including differentially abundant operational taxonomic units, were identified that could provide insights into core mycobiota and host genotype-specific fungal groups. Marginal variation of the fungal diversity and structure was observed between host genotypes, which indicates that neither Cr4 nor the physiological differences associated with the presence or absence of the gene affects mycobiota recruitment. Instead, other parameters, including host size (diameter at breast height) and site elevation, significantly influenced the variability of the composition and structure of the fungal endophytic community. Further investigations are needed to understand the relationship of unique or differentially abundant taxa with one genotype or the other, and to determine the role of the needle mycobiota in WPBR disease development in natural stands of P. flexilis.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41680906","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Fungicide mediated shifts in the foliar fungal community of an invasive grass 杀菌剂对入侵草叶面真菌群落变化的影响

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-09-08 DOI: 10.1094/pbiomes-03-22-0018-r

Brett R. Lane, Amy E. Kendig, Christopher M. Wojan, Ashish Adhikari, M. Jusino, N. Kortessis, Margaret W. Simon, R. Holt, Matthew E. Smith, K. Clay, S. L. Flory, P. Harmon, E. Goss

{"title":"Fungicide mediated shifts in the foliar fungal community of an invasive grass","authors":"Brett R. Lane, Amy E. Kendig, Christopher M. Wojan, Ashish Adhikari, M. Jusino, N. Kortessis, Margaret W. Simon, R. Holt, Matthew E. Smith, K. Clay, S. L. Flory, P. Harmon, E. Goss","doi":"10.1094/pbiomes-03-22-0018-r","DOIUrl":"https://doi.org/10.1094/pbiomes-03-22-0018-r","url":null,"abstract":"Invasive plants, which cause substantial economic and ecological impacts, acquire both pathogens and beneficial microbes in their introduced ranges. Communities of fungal endophytes are known to mediate impacts of pathogens on plant fitness, but few studies have examined the temporal dynamics of fungal communities on invasive plants. The annual grass Microstegium vimineum, an invader of forests and riparian areas throughout the eastern US, experiences annual epidemics of disease caused by Bipolaris pathogens. Our objective was to characterize the dynamics of foliar fungal communities on M. vimineum over a growing season during a foliar disease epidemic. First, we asked how the fungal community in the phyllosphere changed over two months that corresponded with increasing disease severity. Second, we experimentally suppressed disease with fungicide in half the plots and asked how the treatment affected fungal community diversity and composition. We found increasingly diverse foliar fungal communities and substantial changes in community composition between timepoints using high-throughput amplicon sequencing of the ITS2 region. Monthly fungicide application caused shifts in fungal community composition relative to control samples. Fungicide application increased diversity at the late-season timepoint, suggesting it suppressed dominant fungicide sensitive taxa and allowed other fungal taxa to flourish. These results raise new questions regarding the roles of putative endophytes found in the phyllosphere given the limited number of pathogens known to cause disease on M. vimineum in its invasive range.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-09-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43247735","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Biotic and abiotic stress factors induce microbiome shifts and enrichment of distinct beneficial bacteria in tomato roots 生物和非生物胁迫因子诱导番茄根中微生物组的变化和不同有益细菌的富集

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-09-02 DOI: 10.1094/pbiomes-10-21-0067-r

Burkhardt Flemer, S. Gulati, A. Bergna, Manuela Raendler, T. Cernava, K. Witzel, G. Berg, R. Grosch

{"title":"Biotic and abiotic stress factors induce microbiome shifts and enrichment of distinct beneficial bacteria in tomato roots","authors":"Burkhardt Flemer, S. Gulati, A. Bergna, Manuela Raendler, T. Cernava, K. Witzel, G. Berg, R. Grosch","doi":"10.1094/pbiomes-10-21-0067-r","DOIUrl":"https://doi.org/10.1094/pbiomes-10-21-0067-r","url":null,"abstract":"Crops are often simultaneously threaten by abiotic and biotic stress factors but the stress response of the plant holobiont is not well understood despite the high importance to ensure future plant production. Therefore, the aim of this study was to assess the impact of individual and combined abiotic (ionic, osmotic) and biotic (Verticillium dahliae, Fusarium oxysporum) stress factors on plant performance and on the bacterial composition of the root endosphere in tomato. Structure and function of the microbiota was analyzed by 16S rRNA gene amplicon sequencing and a complementary cultivation approach including in vitro and in vivo assays. Under all stress conditions, tomato growth and photosynthetic activity was reduced. Combined abiotic stressors with F. oxysporum but not with V. dahliae infection led to an additive negative effect on plant performance. All stress conditions induced a microbiome shift, and changed the relative abundance of phyla such as Firmicutes and classes of Proteobacteria. Endophytes identified as Bacillus, Paenibacillus and Microbacterium showed tolerance to abiotic stress conditions and plant beneficial effects. Stressor-specific enrichments of beneficial bacteria in the root were discovered, e.g. Paenibacillus in roots infected with F. oxysporum, and Microbacterium in roots infected with V. dahliae. Interestingly, endophytes that were able to promote plant growth were obtained only from roots exposed to individual biotic and combined abiotic and biotic stress conditions but not individual abiotic stressors. Our study revealed stressor-specific enrichment of beneficial bacteria in tomato roots, which has implications for novel plant protection strategies.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-09-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47410250","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 2

Seed Imbibition and Metabolism Contribute Differentially to Initial Assembly of the Soybean Holobiont. 种子的吸胀和代谢对大豆全息体的初始组装有不同的贡献

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-08-31 Epub Date: 2022-07-18 DOI: 10.1094/PBIOMES-03-23-0019-MF

Davide Gerna, David Clara, Livio Antonielli, Birgit Mitter, Thomas Roach

{"title":"Seed Imbibition and Metabolism Contribute Differentially to Initial Assembly of the Soybean Holobiont.","authors":"Davide Gerna, David Clara, Livio Antonielli, Birgit Mitter, Thomas Roach","doi":"10.1094/PBIOMES-03-23-0019-MF","DOIUrl":"10.1094/PBIOMES-03-23-0019-MF","url":null,"abstract":"Seed germination critically determines successful plant establishment and agricultural productivity. In the plant holobiont's life cycle, seeds are hubs for microbial communities' assembly, but what exactly shapes the holobiont during germination remains unknown. Here, 16S rRNA gene amplicon sequencing characterized the bacterial communities in embryonic compartments (cotyledons and axes) and on seed coats pre- and post-germination of four soybean (Glycine max) cultivars, in the presence or absence of exogenous abscisic acid (ABA), which prevented germination and associated metabolism of seeds that had imbibed. Embryonic compartments were metabolically profiled during germination to design minimal media mimicking the seed endosphere for bacterial growth assays. The distinction between embryonic and seed coat bacterial microbiomes of dry seeds weakened during germination, resulting in the plumule, radicle, cotyledon, and seed coat all hosting the same most abundant and structurally influential genera in germinated seeds of every cultivar. Treatment with ABA prevented the increase of bacterial microbiomes' richness, but not taxonomic homogenization across seed compartments. Growth assays on minimal media containing the most abundant metabolites that accumulated in germinated seeds revealed that seed reserve mobilization promoted enrichment of copiotrophic bacteria. Our data show that seed imbibition enabled distribution of seed-coat-derived epiphytes into embryos irrespective of germination, while germinative metabolism promoted proliferation of copiotrophic taxa, which predominated in germinated seeds.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-08-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7616048/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41718906","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Suppression of Phytophthora on Chamaecyparis in sustainable horticultural substrates depends on fertilization and is linked to the rhizobiome 在可持续园艺基质上，对杉霉疫霉的抑制依赖于施肥，并与根瘤菌群有关

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-08-16 DOI: 10.1094/pbiomes-05-22-0029-r

S. Pot, C. De Tender, S. Ommeslag, I. Delcour, J. Ceusters, B. Vandecasteele, J. Debode, K. Vancampenhout

{"title":"Suppression of Phytophthora on Chamaecyparis in sustainable horticultural substrates depends on fertilization and is linked to the rhizobiome","authors":"S. Pot, C. De Tender, S. Ommeslag, I. Delcour, J. Ceusters, B. Vandecasteele, J. Debode, K. Vancampenhout","doi":"10.1094/pbiomes-05-22-0029-r","DOIUrl":"https://doi.org/10.1094/pbiomes-05-22-0029-r","url":null,"abstract":"Nature management residues residues (i.e., biomass generated from the management of nature reserves) are promising peat alternatives for horticultural substrates and may have a positive effect on disease suppression because of their microbiological characteristics. Moreover, addition of fertilizer may also affect the rhizosphere microbiome and accordingly disease suppression. In this study, we determined the effect of two management residues in horticultural substrates, i.e., chopped heath and acidified soft rush, and two fertilization regimes, i.e., pure nitrogen fertilizer and compound fertilizer, on the suppression of Phytophthora on Chamaecyparis lawsoniana. The bacterial and fungal rhizosphere community was characterized using 16S rRNA and ITS2 gene metabarcoding. Soft rush with a compound fertilizer (R2) and chopped heath with a pure nitrogen fertilizer (H1) showed a disease suppressive effect and showed the largest shifts in microbial community composition compared to peat-based substrates. The disease suppressive treatments showed differences in their microbial communities. Different genera associated with described biocontrol agents for Phytophthora were found in higher amounts in those treatments. Aspergillus and Trichoderma were highly abundant in H1, while Actinomadura and Bacillus had a high abundance in R2. In addition, the relative abundances of 24 bacterial and 9 fungal genera were negatively correlated with disease severity. Several of those genera, including Bacillus, Chaetomium and Actinomadura, were significantly more abundant in one of the disease suppressive treatments. This study shows that disease suppressiveness in sustainable horticultural substrates is dependent on fertilization and can be linked to changes in the microbial rhizosphere communities.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-08-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45259373","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

A metabarcoding approach to investigate fungal and oomycete communities associated with Kiwifruit Vine Decline Syndrome (KVDS) in Italy 用元条形码方法研究意大利猕猴桃葡萄衰退综合征(KVDS)相关真菌和卵菌群落

IF 4.4 3区生物学

Phytobiomes Journal Pub Date : 2022-08-09 DOI: 10.1094/pbiomes-03-22-0019-r

F. Savian, F. Marroni, P. Ermacora, G. Firrao, M. Martini

{"title":"A metabarcoding approach to investigate fungal and oomycete communities associated with Kiwifruit Vine Decline Syndrome (KVDS) in Italy","authors":"F. Savian, F. Marroni, P. Ermacora, G. Firrao, M. Martini","doi":"10.1094/pbiomes-03-22-0019-r","DOIUrl":"https://doi.org/10.1094/pbiomes-03-22-0019-r","url":null,"abstract":"Since 2012 Kiwifruit Vine Decline Syndrome (KVDS) has severely compromised all major kiwifruit growing areas in Italy. So far, aetiological studies were mainly focused on waterlogging effects or on the isolation of microorganisms from diseased plants, thus an all-encompassing picture on KVDS microbiota is still missing. This work aims to describe oomycete and fungal communities associated with KVDS and to identify key taxa potentially involved in the disease through a metabarcoding approach on root endosphere and rhizosphere samples. Two nearby fields with similar pedoclimatic conditions were identified based on KVDS spreading during a 4-year survey (2016-2019). In total, four sampling areas were selected, one from the control field with no sign of KVDS (asymptomatic site) and three from the KVDS-affected field (diseased site): i) asymptomatic until the sampling date in 2018, ii) symptomatic since 2018, and iii) symptomatic since 2017. Total genomic DNA samples were subjected to a nested PCR approach targeting separately the ITS2 region of fungal and oomycete communities. The communities were compared in terms of alpha-and beta-diversities, and key taxa were identified using univariate differential abundance tests. Major differences in taxa distribution were observed between samples from the different sites (asymptomatic and diseased) and were mostly linked to the oomycete community. Phytophthora sojae was the main taxa characterising the diseased site and supposed to be involved in the disease and Phytopythium species were found related to the different plant health status. Finally, Dactylonectria macrodidyma, Phytopythium citrinum and Thielaviopsis basicola were also proposed as new KVDS-related pathogens.","PeriodicalId":48504,"journal":{"name":"Phytobiomes Journal","volume":null,"pages":null},"PeriodicalIF":4.4,"publicationDate":"2022-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"61195554","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1