Phytobiomes Journal最新文献

Composition and Assembly of the Endophytic Fungal Community of Alpine Rhododendron Hosts Along Elevation Gradients 高山杜鹃花寄主内生真菌群落随海拔梯度的组成和组合

Phytobiomes Journal Pub Date : 2024-07-16 DOI: 10.1094/pbiomes-02-24-0015-r

Rui Zhang, Xiong-Li Zhou, Liu Yang, Bo Long, Shi-Kang Shen

{"title":"Composition and Assembly of the Endophytic Fungal Community of Alpine Rhododendron Hosts Along Elevation Gradients","authors":"Rui Zhang, Xiong-Li Zhou, Liu Yang, Bo Long, Shi-Kang Shen","doi":"10.1094/pbiomes-02-24-0015-r","DOIUrl":"https://doi.org/10.1094/pbiomes-02-24-0015-r","url":null,"abstract":"Alpine mountain ecosystems are highly sensitive to global warming and threatened by climate change. Elevation gradients are frequently used as space-for-time surrogates for climate change in mountain ecosystems due to their correspondence with climate variables over short geographic distances. However, the distribution patterns of fungal communities in perennial woody plants along elevations in this ecosystem and how elevation and host identity affect them remain unclear. In this work, we used Illumina MiSeq DNA sequencing technology to study the rhizosphere soil fungal community and root and leaf endophytic fungal community assembly of alpine Rhododendron communities across a 3,100- to 4,100-m elevation gradient on Jiaozi Mountain, Southwest China. The abundance and diversity of fungi in different compartments varied among elevation gradients and hosts. The fungal community assembly in each compartment was mainly influenced by stochastic processes. However, the contribution of homogeneous selection, dispersal limitation, and drift varied among host identities and elevations in different compartments. The diversity and composition of rhizosphere soil, root, and leaf guilds and the overall abundance of fungal functional groups tracked the Rhododendron host identity more closely than elevation did. Most indicator taxa of fungi were putative saprotrophs. These findings will improve our understanding of the maintenance of alpine Rhododendron communities along elevation gradients. [Formula: see text] Copyright © 2024 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"2 2","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141641273","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Microbial community analysis offers insight into the complex origins of plant disease in a smallholder farm context 微生物群落分析有助于深入了解小农农场植物病害的复杂起源

Phytobiomes Journal Pub Date : 2024-07-08 DOI: 10.1094/pbiomes-02-24-0023-r

Betsy A. Alford, Dagnachew Bekele, Sultan Yimer, Amna Fayyaz, N. Carrasquilla-Garcia, Peter L Chang, Calen Badger, Anandkumar Surendrarao, Eric J. B. von Wettberg, M. F. H. Munis, Kassahun Tesfaye, A. Fikre, Douglas R. Cook

{"title":"Microbial community analysis offers insight into the complex origins of plant disease in a smallholder farm context","authors":"Betsy A. Alford, Dagnachew Bekele, Sultan Yimer, Amna Fayyaz, N. Carrasquilla-Garcia, Peter L Chang, Calen Badger, Anandkumar Surendrarao, Eric J. B. von Wettberg, M. F. H. Munis, Kassahun Tesfaye, A. Fikre, Douglas R. Cook","doi":"10.1094/pbiomes-02-24-0023-r","DOIUrl":"https://doi.org/10.1094/pbiomes-02-24-0023-r","url":null,"abstract":"Classical approaches to plant disease diagnosis assume a single pathogen/single disease paradigm. Here we revisit the presumed role of Fusarium oxysporum as the causal agent of wilting and yellowing of chickpea plants on small holder farms in Ethiopia. Contrary to expectations, detection of Fusarium DNA using conserved PCR primers failed to associate the pathogen with symptomatic plants. Instead, culture-independent sequencing of microbial communities nominated unexpected pathogens and revealed patchiness in the assembly of common microbial consortia. Surprisingly, tests of differential enrichment identified Phytophthora as the most common disease-associated taxon. More generally, across all field sites, multi-level pattern analysis identified indicator taxa whose patterns of co-occurrence demarcate discrete microbial communities and are consistent with a range of specific interactions, including mutualism and antagonism. Taken together, these data indicate that soil-borne chickpea disease in Ethiopia has heterogeneous origins, and that despite decades of emphasis and disease resistance breeding, the role of Fusarium as the frequent agent of chickpea disease in Ethiopia remains enigmatic.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":" 1185","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-07-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141668925","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The bacterial and viral communities associated with onion bacterial bulb rot 与洋葱细菌性球茎腐烂病相关的细菌和病毒群落

Phytobiomes Journal Pub Date : 2024-06-03 DOI: 10.1094/pbiomes-11-23-0121-r

Christopher Liakos, Veruskha Ibanez, P. Lebre, Mike L. Derie, Jacquie van der Waals, Lindsey du Toit, B. Dutta, Brian Kvitko, D. A. Cowan, Teresa A. Coutinho

{"title":"The bacterial and viral communities associated with onion bacterial bulb rot","authors":"Christopher Liakos, Veruskha Ibanez, P. Lebre, Mike L. Derie, Jacquie van der Waals, Lindsey du Toit, B. Dutta, Brian Kvitko, D. A. Cowan, Teresa A. Coutinho","doi":"10.1094/pbiomes-11-23-0121-r","DOIUrl":"https://doi.org/10.1094/pbiomes-11-23-0121-r","url":null,"abstract":"Microbes occur in complex communities within plants as endophytes and establish a network of interactions that can influence plant health positively or negatively. Positive interactions may be synergistic and confer abiotic and biotic stress tolerance. The aim of this study was to identify bacteria and viruses present in storage onion bulbs that were symptomatic and asymptomatic for bacterial bulb rot, from crops grown in Georgia and Washington states; and to assess their potential role in the bulbs based on functions of bacterial and viral genes detected. DNA was extracted from nine asymptomatic bulbs and nine bulbs displaying symptoms of bacterial bulb rot and subjected to 16S rRNA amplicon sequencing and Metagenomic Assembled Genome (MAG) analysis. The Illumina platform was used to sequence the hypervariable region (V3-V4) of the 16S rRNA gene. The 16S rRNA amplicon profiling revealed the presence of numerous bacteria including potential onion pathogens in the genera Panteoa and Burkholderia. MAG assembly identified P. agglomerans. B. gladioli and B. cepacia, known bulb rot pathogens, including genes linked to fitness and those involved in the Type II and III secretion systems. Eighty-nine unique viral genomes were identified, of which 67 could be classified taxonomically. The bacterial and viral genomes differed significantly in asymptomatic versus symptomatic bulbs. Viral genomes showed evidence of auxiliary metabolic genes (AMGs), including genes involved in fitness and pathogenicity to bacterial hosts. The bulbs hosted endophytic bacteria and viruses, some of which were potentially beneficial, and others potentially pathogenic to onion or as hosts to bacteriophages.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"29 48","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-06-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141270672","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The phyllosphere microbiome in Tsuga canadensis: Relationships with resistance to the insect Adelges tsugae and effects of the pesticide dinotefuran 土杉的叶球微生物群：与抗虫害 Adelges tsugae 的关系以及杀虫剂敌螨威的影响

Phytobiomes Journal Pub Date : 2024-04-11 DOI: 10.1094/pbiomes-01-24-0011-r

David J. Burke, Caleb Lumsden, Sarah R. Carrino-Kyker, Juliana S. Medeiros, Sharon Danielson

{"title":"The phyllosphere microbiome in Tsuga canadensis: Relationships with resistance to the insect Adelges tsugae and effects of the pesticide dinotefuran","authors":"David J. Burke, Caleb Lumsden, Sarah R. Carrino-Kyker, Juliana S. Medeiros, Sharon Danielson","doi":"10.1094/pbiomes-01-24-0011-r","DOIUrl":"https://doi.org/10.1094/pbiomes-01-24-0011-r","url":null,"abstract":"Tsuga canadensis (Eastern hemlock) is an important tree species in North America, but it has been subject to threats from invasive insects such as Adelges tsugae (hemlock woolly adelgid-A. tsugae). A. tsugae is native to Asia and Tsuga species from Asia are typically resistant to this insect. In this study, we examined the phyllosphere microbiome of two hemlock species native to North America and susceptible to A. tsugae (T. canadensis and T. caroliniana), as well as two species native to Asia and resistant to A. tsugae (T. chinensis and T. diversifolia). Since pesticide application is often used to treat native Tsuga species impacted by A. tsugae, we also examined the response of the microbiome and overall plant physiology to the pesticide dinotefuran in T. canadensis. We found significant differences in the bacterial and fungal microbiome among the four species of Tsuga. Dinotefuran also significantly affected bacterial communities, but not fungal communities, of T. canadensis. The genus Methylobacterium, which uses methanol produced during plant cell elongation and growth, was a significant indicator of trees not subject to dinotefuran. This suggests that dinotefuran may have reduced cell growth in treated trees. Despite changes in the microbiome, dinotefuran application did not significantly affect plant physiology; however, the coefficient of variation (CV) in dinotefuran treated trees was larger than non-treated trees. Our results suggest that the microbiome could play a role in mediating insect resistance in Tsuga species, and that pesticide application could affect the phyllosphere microbiome with implications for plant growth and resistance.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"37 5","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-04-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140716582","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Glyphosate residues in soil and phosphate fertilizer affect foliar endophytic microbial community composition and phytohormone levels in potato 土壤和磷肥中的草甘膦残留影响马铃薯叶片内生微生物群落组成和植物激素水平

Phytobiomes Journal Pub Date : 2024-04-01 DOI: 10.1094/pbiomes-11-23-0118-r

S. Mathew, Aditya Jeevannavar, M. Helander, Manu Tamminen, Pere Puigbò, Miia Rainio, K. Saikkonen, B. Fuchs

{"title":"Glyphosate residues in soil and phosphate fertilizer affect foliar endophytic microbial community composition and phytohormone levels in potato","authors":"S. Mathew, Aditya Jeevannavar, M. Helander, Manu Tamminen, Pere Puigbò, Miia Rainio, K. Saikkonen, B. Fuchs","doi":"10.1094/pbiomes-11-23-0118-r","DOIUrl":"https://doi.org/10.1094/pbiomes-11-23-0118-r","url":null,"abstract":"Glyphosate, the active ingredient of glyphosate-based herbicide (GBH) controls the growth of weeds by inhibiting shikimate pathway, thereby interrupting amino acid biosynthesis in plants. However, several microbes have shikimate pathway and the action of glyphosate on these non-target organisms are ignored. Along with other agrochemicals such as phosphate fertilizers, the action of GBH is further complicated, often varying their mode of action depending on soil type or plant species. To address the impact of GBH and phosphate fertilizer, we simulated agricultural application of GBH and phosphate fertilizer in a field study, investigating the composition of endophytic microbial communities and correlation of phytohormone concentrations with the microbial diversity of potato (Solanum tuberosum). In leaves, glyphosate residues in soil from GBH treatment alone and in combination with phosphate significantly shifted bacterial community whereas phosphate alone and in combination with glyphosate significantly altered the composition of fungal community. There were no significant changes in microbial communities in roots and tubers. Plants treated with GBH showed higher ratios of potentially glyphosate-resistant bacteria, with Xanthomonadaceae and Moraxallaceae being more abundant. Additionally, phytohormone concentrations showed various correlations with bacterial and fungal diversity in different treatments. The study highlights the impact of GBH residues in soil, particularly in combination with phosphate fertilizers on the composition of plant-associated microbial communities. Together with changes in phytohormone concentrations, plant health may be affected. Moreover, future studies could provide insights to whether these agrochemicals influence plant microbiome, leading to changes in phytohormones or vice-versa.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"181 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140758840","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Seasonal fluctuations in plant-parasitic nematode vertical distributions and their interactions with edaphic factors in vegetable fields of South Georgia, USA 美国南乔治亚州菜地植物寄生线虫垂直分布的季节性波动及其与环境因素的相互作用

Phytobiomes Journal Pub Date : 2024-03-18 DOI: 10.1094/pbiomes-02-24-0014-r

Josiah Marquez, A. Hajihassani

{"title":"Seasonal fluctuations in plant-parasitic nematode vertical distributions and their interactions with edaphic factors in vegetable fields of South Georgia, USA","authors":"Josiah Marquez, A. Hajihassani","doi":"10.1094/pbiomes-02-24-0014-r","DOIUrl":"https://doi.org/10.1094/pbiomes-02-24-0014-r","url":null,"abstract":"Plant-parasitic nematodes (PPNs) can be found deep in the soil profile, compounding nematode management decisions and detection. This study aimed to understand how seasonal fluctuations in edaphic factors are associated with the vertical distribution of PPNs in south Georgia’s vegetable cropping systems. Five-core composite soil samples were taken monthly (March 2020 to February 2022) at three random locations in six vegetable fields. Fields represented 4 cropping systems (vegetable plasticulture, bare-ground cucumber, and plastic-bed watermelon rotation) and two regions (north and south) sampled from five 15-cm strata (0-15 cm, 15-30 cm, 30-45 cm, 45-60 cm, and 60-75 cm). Only soil temperatures and precipitation had seasonal fluctuations, while the other edaphic factors were vertically stratified. Latitude and stratum had the strongest associations with the nematode composition, showing a clear separation between the north and south regions. Variations in soil texture, porosity, moisture, and PPN vertical distribution suggest that the illuvial zone in the north region was the main factor in differences observed between regions and strata. Seasonal fluctuations in vertical distribution were found among Meloidogyne incognita and Nanidorus spp. Higher abundances of deep-dwelling PPNs were limited to the south region in the winter for M. incognita and summer and winter for Nanidorus spp., probably due to the illuvial zone barrier in the north region. Since most root-knot nematodes dwell at ≤ 30 cm during the summer, fumigants/nematicide applications are recommended during this season to minimize the risk of deep-dwelling escapees.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"347 5","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140232614","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Persistence and microbiome modification in Rhizoctonia solani inoculated rhizosphere following amendment of a Bacillus biocontrol agent 添加枯草芽孢杆菌生物控制剂后根瘤菌接种根瘤的持久性和微生物组的改变

Phytobiomes Journal Pub Date : 2024-03-15 DOI: 10.1094/pbiomes-01-24-0006-r

Maya Moshe, Omer Frenkel, Noa Sela, Chagai Davidovich, Hildah Amutuhaire, E. Banin, E. Cytryn

{"title":"Persistence and microbiome modification in Rhizoctonia solani inoculated rhizosphere following amendment of a Bacillus biocontrol agent","authors":"Maya Moshe, Omer Frenkel, Noa Sela, Chagai Davidovich, Hildah Amutuhaire, E. Banin, E. Cytryn","doi":"10.1094/pbiomes-01-24-0006-r","DOIUrl":"https://doi.org/10.1094/pbiomes-01-24-0006-r","url":null,"abstract":"Background: Bacterial biocontrol agents that antagonize soilborne pathogens are increasingly considered as alternatives to chemical pesticides, but their in-vivo efficacy is often inconsistent, restricting commercial use. The efficacy of a biocontrol agent can depend on rhizosphere competence and its interaction with native microbiomes, which can effect ecosystem functioning. This study investigated the capacity of a Bacillus cereus sensu lato (Bcsl) biocontrol strain (S-25) to persist on roots and in the rhizosphere of cucumber, and evaluated its impact on bacterial and fungal community composition in the rhizosphere, in the absence and presence of Rhizoctonia solani, the causative agent of damping-off disease in young seedlings. Results: Following amendment, S-25 abundance in the cucumber rhizosphere decreased by two orders of magnitude, but remained relatively high for the duration of the experiment, in contrast to the root surface where it was not detected. Amendment with S-25 significantly reduced disease incidence caused by R. solani, without reducing the relative abundance of the fungal pathogen. Interestingly, R. solani did not substantially alter the rhizosphere microbial community, whereas S-25 reduced bacterial diversity and facilitated a shift in community composition, with increased relative abundance of Gram-positive bacterium and reduced abundance of Gram-negatives. Conclusions: Collectively, this study provides important insights into the mode of persistence of biocontrol agents, and their effect on native microbiomes in the rhizosphere of pathogen-inoculated plants. It demonstrates that amendment can significantly alter local microbiomes, and suggests that optimizing amendment regimes or selecting strains with higher rhizosphere competence can enhance future biocontrol agents.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"8 6","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-03-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140239365","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Analyses of fungal communities from culture-dependent and -independent studies reveal novel mycobiomes associated with Globodera and Heterodera species 对依赖培养和不依赖培养的真菌群落进行分析，发现了与 Globodera 和 Heterodera 物种相关的新型真菌生物群落

Phytobiomes Journal Pub Date : 2024-03-15 DOI: 10.1094/pbiomes-11-23-0122-r

Blaise Jumbam, Zahra-Bita Amiri, L. Dandurand, Inga A. Zasada, M. C. Aime

{"title":"Analyses of fungal communities from culture-dependent and -independent studies reveal novel mycobiomes associated with Globodera and Heterodera species","authors":"Blaise Jumbam, Zahra-Bita Amiri, L. Dandurand, Inga A. Zasada, M. C. Aime","doi":"10.1094/pbiomes-11-23-0122-r","DOIUrl":"https://doi.org/10.1094/pbiomes-11-23-0122-r","url":null,"abstract":"Plant-parasitic nematodes are important pathogens of agricultural crops. Of particular importance are cyst nematode species of Globodera and Heterodera which remain a major constraint to global production of crops such as potato, soybean, and wheat. Recent restrictions on the use of some synthetic nematicides has created an urgent need for alternative methods of controlling cyst nematodes. This project aimed to: (i) document fungi found associated cyst nematodes, (ii) determine if the fungi associated with cyst nematodes are dependent on growth conditions or nematode species, (iii) identify core mycobiomes for each of the eight cyst nematode species, (iv) identify the core mycobiome across all cyst nematode species studied, and (v) determine if the fungi associated with Globodera species are structured geographically. Sixty cyst nematode populations from eight species – Globodera sp., G. ellingtonae, G. pallida, G. rostochiensis, H. avenae, H. carotae, H. glycines, and H. schachtii – were collected from several geographic locations globally and screened for fungi using both culture-dependent and -independent methods. The core mycobiome was determined for each species. In total, 744 species of fungi were found associated with cyst nematodes. Fungal species shared across all cyst nematode species included Pochonia sp., Sporothrix sp., Neocosmospora solani, Exophiala equina, Mortierella sp., and Sarocladium kiliense. The core mycobiomes were conserved between cyst nematode species irrespective of their geographic origin. Cyst nematodes collected from the field or from greenhouse cultures also recruited similar core mycobiomes. These findings could be relevant when choosing fungi to evaluate as biocontrol agents against cyst nematodes.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"15 5","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-03-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140240315","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Toward a Microbe-Assisted Crop Production 实现微生物辅助作物生产

Phytobiomes Journal Pub Date : 2024-03-01 DOI: 10.1094/pbiomes-11-23-0126-mf

A. Sessitsch, Pankaj Trivedi, Marcel van der Heijden

{"title":"Toward a Microbe-Assisted Crop Production","authors":"A. Sessitsch, Pankaj Trivedi, Marcel van der Heijden","doi":"10.1094/pbiomes-11-23-0126-mf","DOIUrl":"https://doi.org/10.1094/pbiomes-11-23-0126-mf","url":null,"abstract":"For a long time, microbial applications in crop production focused primarily on the symbiosis between mycorrhizal fungi and plants and the relationship between N2-fixing rhizobia and legumes. However, plant-associated microorganisms and microbiomes in general have lately gained immense attention, and the available information on the ecology and functions of microbiomes in the soil and plant environment exploded in the last decade. With this understanding, researchers as well as the industry have realized the vast potential of microorganisms to be used in agriculture and most importantly, to make farming more sustainable. Microorganisms have been shown to be applicable for plant protection and to improve plant nutrition. As a consequence, microbiome management can help to replace agrochemicals and increase environmental and human health. Furthermore, agriculture is facing various challenges related to climate change such as drought or emerging pathogens. Also, for these scenarios, microorganisms may find application to alleviate various abiotic and biotic stresses. [Formula: see text] Copyright © 2024 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"124 ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140282564","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Spatial variation of oomycetes and bacteria on surfaces, solutions, and plants from a commercial hydroponic greenhouse 商业水培温室表面、溶液和植物上的真菌和细菌的空间变化

Phytobiomes Journal Pub Date : 2024-02-08 DOI: 10.1094/pbiomes-08-23-0078-r

C. McGehee, Artemis S. Louyakis, R. Raudales

{"title":"Spatial variation of oomycetes and bacteria on surfaces, solutions, and plants from a commercial hydroponic greenhouse","authors":"C. McGehee, Artemis S. Louyakis, R. Raudales","doi":"10.1094/pbiomes-08-23-0078-r","DOIUrl":"https://doi.org/10.1094/pbiomes-08-23-0078-r","url":null,"abstract":"The spatial distribution and diversity of plant pathogens and other microbial communities in commercial operations is the first step in identifying critical control points where crops may be at risk of disease. Our objective was to characterize the spatial variation of oomycete pathogens and bacteria across the production system of a greenhouse producing lettuce in hydroponics. We utilized DNA metabarcoding to identify oomycetes and 16S rRNA gene sequencing of bacteria from different production stages and sample types (surfaces, solutions, and roots) collected from a commercial greenhouse producing lettuce in deep-water culture. Pythium was the genus with the highest relative abundance (41 - 100%) across all production stages. Pythium dissotocum was detected in most samples, except for sowing and seeding surfaces and municipal water where Pythium myriotylum was the most abundant species. Oomycete communities showed distinct clustering by production stages and sample types, where sowing and seedling surfaces and municipal water were separated from the rest. Proteobacteria had the highest relative abundance in the surfaces at the sowing (98%) and seeding (85%) stages. Municipal water was the only sample with less than 20% relative abundance of Proteobacteria and dominated by Cyanobacteria. Negative correlations between Pythium and 13 bacteria genera points to potential antagonists in hydroponics that should be further studied. Mapping the spatial variation of oomycetes and bacterial communities in a commercial greenhouse indicates that production stage and sample type influence microbial composition and potentially the risk to disease.","PeriodicalId":509866,"journal":{"name":"Phytobiomes Journal","volume":"11 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2024-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139851580","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0