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Vohník M, Josefiová J. Novel epiphytic root-fungus symbiosis in the Indo-Pacific seagrass Thalassodendron ciliatum from the Red Sea. MYCORRHIZA 2024:10.1007/s00572-024-01161-9. [PMID: 39073598 DOI: 10.1007/s00572-024-01161-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2024] [Accepted: 07/01/2024] [Indexed: 07/30/2024]
Abstract
Symbioses with fungi are important and ubiquitous on dry land but underexplored in the sea. As yet only one seagrass has been shown to form a specific root-fungus symbiosis that resembles those occurring in terrestrial plants, namely the dominant long-lived Mediterranean species Posidonia oceanica (Alismatales: Posidoniaceae) forming a dark septate (DS) endophytic association with the ascomycete Posidoniomyces atricolor (Pleosporales: Aigialaceae). Using stereomicroscopy, light and scanning electron microscopy, and DNA cloning, here we describe a novel root-fungus symbiosis in the Indo-Pacific seagrass Thalassodendron ciliatum (Alismatales: Cymodoceaceae) from a site in the Gulf of Aqaba in the Red Sea. Similarly to P. oceanica, the mycobiont of T. ciliatum occurs more frequently in thinner roots that engage in nutrient uptake from the seabed and forms extensive hyphal mantles composed of DS hyphae on the root surface. Contrary to P. oceanica, the mycobiont occurs on the roots with root hairs and does not colonize its host intraradically. While the cloning revealed a relatively rich spectrum of fungi, they were mostly parasites or saprobes of uncertain origin and the identity of the mycobiont thus remains unknown. Symbioses of seagrasses with fungi are probably more frequent than previously thought, but their functioning and significance are unknown. Melanin present in DS hyphae slows down their decomposition and so is true for the colonized roots. DS fungi may in this way conserve organic detritus in the seagrasses' rhizosphere, thus contributing to blue carbon sequestration in seagrass meadows.
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Affiliation(s)
- Martin Vohník
- Department of Mycorrhizal Symbioses, Institute of Botany, Czech Academy of Sciences, Průhonice, Czechia.
- KROKODIVE.CZ, Údolní 219/47, Prague, 14700, Czechia.
| | - Jiřina Josefiová
- Laboratory of Molecular Biology and Bioinformatics, Institute of Botany, Czech Academy of Sciences, Lesní 322, Průhonice, 25243, Czechia
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Zhang X, Wu Y, Liu S, Li J, Jiang Z, Luo H, Huang X. Plant growth and development of tropical seagrass determined rhizodeposition and its related microbial community. MARINE POLLUTION BULLETIN 2024; 199:115940. [PMID: 38150979 DOI: 10.1016/j.marpolbul.2023.115940] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2023] [Revised: 12/12/2023] [Accepted: 12/13/2023] [Indexed: 12/29/2023]
Abstract
In the recent study, we investigated the seasonal variations in root exudation and microbial community structure in the rhizosphere of seagrass Enhalus acoroides in the South China Sea. We found that the quantity and quality of root exudates varied seasonally, with higher exudation rates and more bioavailable dissolved organic matter (DOM) during the seedling and vegetative stages in spring and summer. Using Illumina NovaSeq sequencing, we analyzed bacterial and fungal communities and discovered that microbial diversity and composition were influenced by root exudate characteristics s and seagrass biomass, which were strongly dependent on seagrass growth stages. Certain bacterial groups, such as Ruegeria, Sulfurovum, Photobacterium, and Ralstonia were closely associated with root exudation and may contribute to sulfur cycling, nitrogen fixation, and carbon remineralization, which were important for plant early development. Similarly, specific fungal taxa, including Astraeus, Alternaria, Rocella, and Tomentella, were enriched in spring and summer and showed growth-promoting abilities. Overall, our study suggests that seagrass secretes different compounds in its exudates at various developmental stages, shaping the rhizosphere microbial assemblages.
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Affiliation(s)
- Xia Zhang
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China
| | - Yunchao Wu
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China
| | - Songlin Liu
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jinlong Li
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zhijian Jiang
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Hongxue Luo
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiaoping Huang
- Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou 510301, China; Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou 511458, China; Guangdong Provincial Key Laboratory of Applied Marine Biology, Guangzhou 510301, China; University of Chinese Academy of Sciences, Beijing 100049, China.
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Rungjindamai N, Jones EBG. Why Are There So Few Basidiomycota and Basal Fungi as Endophytes? A Review. J Fungi (Basel) 2024; 10:67. [PMID: 38248976 PMCID: PMC10820240 DOI: 10.3390/jof10010067] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Revised: 01/06/2024] [Accepted: 01/11/2024] [Indexed: 01/23/2024] Open
Abstract
A review of selected studies on fungal endophytes confirms the paucity of Basidiomycota and basal fungi, with almost 90% attributed to Ascomycota. Reasons for the low number of Basidiomycota and basal fungi, including the Chytridiomycota, Mucoromycota, and Mortierellomycota, are advanced, including isolation procedure and media, incubation period and the slow growth of basidiomycetes, the identification of non-sporulating isolates, endophyte competition, and fungus-host interactions. We compare the detection of endophytes through culture-dependent methods and culture-independent methods, the role of fungi on senescence of the host plant, and next-generation studies.
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Affiliation(s)
- Nattawut Rungjindamai
- Department of Biology, School of Science, King Mongkut’s Institute of Technology Ladkrabang (KMITL), Chalongkrung Road, Ladkrabang, Bangkok 10520, Thailand
| | - E. B. Gareth Jones
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia;
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Wingfield LK, Atcharawiriyakul J, Jitprasitporn N. Diversity and characterization of culturable fungi associated with the marine sea cucumber Holothuria scabra. PLoS One 2024; 19:e0296499. [PMID: 38165907 PMCID: PMC10760727 DOI: 10.1371/journal.pone.0296499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 12/14/2023] [Indexed: 01/04/2024] Open
Abstract
Fungi associated with the marine echinoderm, Holothuria scabra, produces extracellular enzymes and bioactive metabolites, and mycoviruses that could be used for biotechnological and pharmaceutical applications. The species identification based on molecular and morphological characteristics classified the culturable fungi into twenty-three genera belonging to eight orders, Chaetothyriales, Eurotiales, Hypocreales, Mucorales, Mycosphaerellales, Onygenales, Pleosporales and Venturiales, from four classes, Eurotiomycetes, Dothideomycetes, Mucoromycetes and Sordariomycetes of the two phyla Ascomycota and Mucoromycota. The most frequent genera were Aspergillus (relative frequency, 45.30%) and Penicillium (relative frequency, 22.68%). The Menhinick species richness and Shannon species diversity indices were 1.64 and 2.36, respectively, indicating a high diversity of fungi. An enzymatic production test revealed that sixteen isolates could produce proteases and amylases at different levels. The presence of mycoviruses was detected in eight isolates with different genomic profiles. Thirty-two of the 55 isolates produced antimicrobial metabolites which had an inhibitory effect on various microbial pathogens. Most of these active isolates were identified as Aspergillus, Penicillium and Trichoderma. Notably, Aspergillus terreus F10M7, Trichoderma harzianum F31M4 and T. harzianum F31M5 showed the most potent activity against both Gram-positive and Gram-negative bacteria and human pathogenic fungi. Our study represents the first report of the mycobiota associated with the marine echinoderm Holothuria scabra.
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Affiliation(s)
| | - Jirawalan Atcharawiriyakul
- Division of Biological Science, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, Thailand
| | - Ninadia Jitprasitporn
- Division of Biological Science, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, Thailand
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Che X, Zhang T, Li H, Li Y, Zhang L, Liu J. Nighttime hypoxia effects on ATP availability for photosynthesis in seagrass. PLANT, CELL & ENVIRONMENT 2023. [PMID: 37332130 DOI: 10.1111/pce.14654] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Revised: 03/20/2023] [Accepted: 04/18/2023] [Indexed: 06/20/2023]
Abstract
Hypoxia is a major emerging threat to coastal ecosystems, which is closely related to the decline in seagrass meadows, but its damage mechanism is still unclear. This study found that hypoxia at night significantly reduced the photosynthetic capacity of Enhalus acoroides after reillumination. Photosystem II (PSII) was damaged by high-light stress during daytime low-tide exposure, but high-light-damaged PSII of E. acoroides could recover part of its activity indark normoxic seawater to maintain the normal operation of photosynthesis after reillumination during the next day. However, hypoxia inhibited the recovery of damaged PSII under darkness. By transcriptomic analysis and inhibitor verification experiments, dark hypoxia was shown to inhibit respiration, thereby reducing ATP production and preventing ATP from being transported into chloroplasts, which, in turn, led to an insufficient supply of energy required for PSII to recover. This study demonstrated that hypoxia has several negative impacts on the photosynthetic apparatus of E. acoroides at night reducing photosynthetic capacity after reillumination, which may be an important factor leading to the decline of the seagrass meadows.
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Affiliation(s)
- Xingkai Che
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Tie Zhang
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
- College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Hu Li
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Yongfu Li
- College of Oceanography, Hohai University, Nanjing, China
| | - Litao Zhang
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Jianguo Liu
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
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Khan NA, Asaf S, Ahmad W, Jan R, Bilal S, Khan I, Khan AL, Kim KM, Al-Harrasi A. Diversity, Lifestyle, Genomics, and Their Functional Role of Cochliobolus, Bipolaris, and Curvularia Species in Environmental Remediation and Plant Growth Promotion under Biotic and Abiotic Stressors. J Fungi (Basel) 2023; 9:254. [PMID: 36836368 PMCID: PMC9962790 DOI: 10.3390/jof9020254] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2022] [Revised: 01/25/2023] [Accepted: 01/27/2023] [Indexed: 02/17/2023] Open
Abstract
Cochliobolus, Bipolaris, and Curvularia genera contain various devastating plant pathogens that cause severe crop losses worldwide. The species belonging to these genera also perform a variety of diverse functions, including the remediation of environmental contaminations, beneficial phytohormone production, and maintaining their lifestyle as epiphytes, endophytes, and saprophytes. Recent research has revealed that despite their pathogenic nature, these fungi also play an intriguing role in agriculture. They act as phosphate solubilizers and produce phytohormones, such as indole acetic acid (IAA) and gibberellic acid (GAs), to accelerate the growth of various plants. Some species have also been reported to play a significant role in plant growth promotion during abiotic stresses, such as salinity stress, drought stress, heat stress, and heavy metal stress, as well as act as a biocontrol agent and a potential mycoherbicide. Similarly, these species have been reported in numerous industrial applications to produce different types of secondary metabolites and biotechnological products and possess a variety of biological properties, such as antibacterial, antileishmanial, cytotoxic, phytotoxic, and antioxidant activities. Additionally, some of the species have been utilized in the production of numerous valuable industrial enzymes and biotransformation, which has an impact on the growth of crops all over the world. However, the current literature is dispersed, and some of the key areas, such as taxonomy, phylogeny, genome sequencing, phytohormonal analysis, and diversity, are still being neglected in terms of the elucidation of its mechanisms, plant growth promotion, stress tolerance, and bioremediation. In this review, we highlighted the potential role, function, and diversity of Cochliobolus, Curvularia, and Bipolaris for improved utilization during environmental biotechnology.
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Affiliation(s)
- Nasir Ali Khan
- Natural and Medical Science Research Center, University of Nizwa, Nizwa 616, Oman
- Department of Plant and Soil Science, Institute of Genomics for Crop Abiotic Stress Tolerance, Texas Tech University, Lubbock, TX 79409, USA
| | - Sajjad Asaf
- Natural and Medical Science Research Center, University of Nizwa, Nizwa 616, Oman
| | - Waqar Ahmad
- Department of Engineering Technology, University of Houston, Sugar Land, TX 77479, USA
| | - Rahmatullah Jan
- Department of Applied Biosciences, Kyungpook National University, Daegu 41566, Republic of Korea
| | - Saqib Bilal
- Natural and Medical Science Research Center, University of Nizwa, Nizwa 616, Oman
| | - Ibrahim Khan
- Natural and Medical Science Research Center, University of Nizwa, Nizwa 616, Oman
| | - Abdul Latif Khan
- Department of Engineering Technology, University of Houston, Sugar Land, TX 77479, USA
| | - Kyung-Min Kim
- Department of Applied Biosciences, Kyungpook National University, Daegu 41566, Republic of Korea
| | - Ahmed Al-Harrasi
- Natural and Medical Science Research Center, University of Nizwa, Nizwa 616, Oman
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Stilbocrea banihashemiana sp. nov. a New Fungal Pathogen Causing Stem Cankers and Twig Dieback of Fruit Trees. J Fungi (Basel) 2022; 8:jof8070694. [PMID: 35887450 PMCID: PMC9319130 DOI: 10.3390/jof8070694] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2022] [Revised: 06/22/2022] [Accepted: 06/28/2022] [Indexed: 01/27/2023] Open
Abstract
Stem cankers and twig dieback were the most serious disease of fig (Ficus carica) and loquat (Eriobotrya japonica) noticed in a survey of fruit tree orchards in the Fars Province, Iran. Isolates of Bionectriaceae were consistently recovered from symptomatic fig and loquat trees. Phylogenetic analyses of multiple nuclear loci, internal transcribed spacer regions (ITS) of rDNA, RNA polymerase II subunit 2 (rpb2), and translation elongation factor 1-α (tef1), combined with morphological observations, revealed that isolates could be referred to a still unknown taxon, which was formally described as Stilbocrea banihashemiana sp. nov. Phylogenetically, isolates from fig and loquat trees clustered in a well-supported monophyletic group within the Stilbocrea clade of Bionectriaceae, closely related to S. walteri. Stilbocrea banihashemiana sp. nov. was characterized by the lack of stilbella-like asexual structure in both natural substrates and pure cultures and produced two morphologically distinct types of conidia, globose and cylindrical, formed on short and long simple phialides. In pathogenicity tests, S. banihashemiana sp. nov. induced stem cankers in both fig and loquat, wood discoloration in fig and twig dieback in loquat. Pathogenicity tests also showed that the potential host range of this novel pathogen includes other economically relevant horticultural trees.
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Colletotrichum litangense sp. nov., Isolated as an Endophyte of Hippuris vulgaris, an Aquatic Plant in Sichuan, China. Curr Microbiol 2022; 79:161. [PMID: 35416528 DOI: 10.1007/s00284-022-02846-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2021] [Accepted: 03/16/2022] [Indexed: 11/03/2022]
Abstract
An unknown endophytic fungus was isolated from the aquatic plant Hippuris vulgaris in Litang county, Sichuan province, China. Phylogenetic analyses inferred from combined ITS, Sod2, Apn2, and TUB2 sequences revealed that the endophyte is a new species belonging to the Colletotrichum graminicola species complex. Morphological characteristics showed that Colletotrichum litangense is characterized by its falcate, lunate to sublunate conidia, and ellipsoidal, ovoid, or lobed appressoria. Pathogenicity tests on several fruits showed that C. litangense could induce anthracnose lesions. As a result of the phylogenetic, morphological, and pathogenicity analyses, we proposed the name Colletotrichum litangense for the new species.
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High-throughput amplicon sequencing of fungi and microbial eukaryotes associated with the seagrass Halophila stipulacea (Forssk.) Asch. from Al-Leith mangroves, Saudi Arabia. Mycol Prog 2021. [DOI: 10.1007/s11557-021-01744-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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10
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Che X, Zhang T, Li H, Zhang L, Liu J. Effect of Hypoxia on Photosystem II of Tropical Seagrass Enhalus acoroides in the Dark. Photochem Photobiol 2021; 98:421-428. [PMID: 34547108 DOI: 10.1111/php.13522] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2021] [Accepted: 09/16/2021] [Indexed: 01/07/2023]
Abstract
Hypoxia induced by eutrophication has become an important factor threatening the survival of coastal life such as Enhalus acoroides. The purpose of the current study was to explore the effect of hypoxia on photosystem II (PSII) of E. acoroides in the dark. The results showed that long-term dark hypoxia damages PSII activity of E. acoroides. The lower the oxygen content and the longer the hypoxic duration, the more seriously PSII was damaged and the less light-independent recovery parts of the damaged PSII. The damage to PSII caused by hypoxia was unrelated to ROS but related to respiration, because the respiration rate decreased with the decrease of oxygen content and PSII activity decreased significantly even at a normal oxygen content after the inhibition of aerobic respiratory pathway. Hypoxia reduced energy fluxes between the antennas and the RCs, and generated many inactive RCs, which significantly reduced the electron transfer efficiency of PSII. Severe hypoxia (2.65 mg L-1 oxygen content) caused chlorophyll degradation. The study demonstrated that hypoxia damages PSII of E. acoroides and inhibits PSII recovery in the dark. We suggested that hypoxia together with other environment stressors would be the key reason for the decline of E. acoroides meadows.
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Affiliation(s)
- Xingkai Che
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
| | - Tie Zhang
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Hu Li
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
| | - Litao Zhang
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, Shandong, China
| | - Jianguo Liu
- CAS and Shandong Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China.,Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, Shandong, China
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Abstract
Seagrasses are marine flowering plants that provide critical ecosystem services in coastal environments worldwide. Marine fungi are often overlooked in microbiome and seagrass studies, despite terrestrial fungi having critical functional roles as decomposers, pathogens, or endophytes in global ecosystems. Here, we characterize the distribution of fungi associated with the seagrass Zostera marina, using leaves, roots, and rhizosphere sediment from 16 locations across its full biogeographic range. Using high-throughput sequencing of the ribosomal internal transcribed spacer (ITS) region and 18S rRNA gene, we first measured fungal community composition and diversity. We then tested hypotheses of neutral community assembly theory and the degree to which deviations suggested that amplicon sequence variants (ASVs) were plant selected or dispersal limited. Finally, we identified a core mycobiome and investigated the global distribution of differentially abundant ASVs. We found that the fungal community is significantly different between sites and that the leaf mycobiome follows a weak but significant pattern of distance decay in the Pacific Ocean. Generally, there was evidence for both deterministic and stochastic factors contributing to community assembly of the mycobiome, with most taxa assembling through stochastic processes. The Z. marina core leaf and root mycobiomes were dominated by unclassified Sordariomycetes spp., unclassified Chytridiomycota lineages (including Lobulomycetaceae spp.), unclassified Capnodiales spp., and Saccharomyces sp. It is clear from the many unclassified fungal ASVs and fungal functional guilds that knowledge of marine fungi is still rudimentary. Further studies characterizing seagrass-associated fungi are needed to understand the roles of these microorganisms generally and when associated with seagrasses. IMPORTANCE Fungi have important functional roles when associated with land plants, yet very little is known about the roles of fungi associated with marine plants, like seagrasses. In this study, we report the results of a global effort to characterize the fungi associated with the seagrass Zostera marina across its full biogeographic range. Although we defined a putative global core fungal community, it is apparent from the many fungal sequences and predicted functional guilds that had no matches to existing databases that general knowledge of seagrass-associated fungi and marine fungi is lacking. This work serves as an important foundational step toward future work investigating the functional ramifications of fungi in the marine ecosystem.
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Li H, Liu J, Che X. Establishing healthy seedlings of Enhalus acoroides for the tropical seagrass restoration. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 286:112200. [PMID: 33611070 DOI: 10.1016/j.jenvman.2021.112200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2020] [Revised: 01/27/2021] [Accepted: 02/13/2021] [Indexed: 06/12/2023]
Abstract
Enhalus acoroides, the dominant species in tropical seagrass meadows, is experiencing declines worldwide for complicated reasons and the restoration of these meadows is extremely urgent. Nursery stock grown from the initial seedlings could be used to enhance success of E. acoroides meadow restoration. In this study, the effects of different cultivation methods on the seedling development and longer-term cultivation of E. acoroides were compared using various artificial culture substrates (culturing with sea mud substrate, agar substrate, without a matrix, and using a submerged foam substrate). Results suggested that none of the seedlings showed any sign of root gemination when cultured with sea mud substrate. Though the seedlings cultured with an agar substrate grew faster than those cultured with sea mud, those seedlings could not be cultured further as the agar substrate softened and became rotten after 3 weeks. The initial seedlings cultured in matrix-free seawater germinated with normal leaf growth but no roots developed. In contrast, the initial seedlings planted in holes of a submerged foam substrate grew successfully, developing into healthy seedlings with green leaves and long roots. These seedlings could be cultured for up to 23 weeks. Based on these results, a new, low-cost and labor-efficient method for E. acoroides seedling development was established, which might have a great application potential for efficient E. acoroides seagrass meadows restoration.
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Affiliation(s)
- Hu Li
- CAS Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao, 266071, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, 1 Wenhai Road, Aoshanwei Town, Jimo, Qingdao, 266237, China
| | - Jianguo Liu
- CAS Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao, 266071, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, 1 Wenhai Road, Aoshanwei Town, Jimo, Qingdao, 266237, China.
| | - Xingkai Che
- CAS Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao, 266071, China; Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, 1 Wenhai Road, Aoshanwei Town, Jimo, Qingdao, 266237, China
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Devadatha B, Jones EBG, Pang KL, Abdel-Wahab MA, Hyde KD, Sakayaroj J, Bahkali AH, Calabon MS, Sarma VV, Sutreong S, Zhang SN. Occurrence and geographical distribution of mangrove fungi. FUNGAL DIVERS 2021. [DOI: 10.1007/s13225-020-00468-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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14
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Ettinger CL, Eisen JA. Fungi, bacteria and oomycota opportunistically isolated from the seagrass, Zostera marina. PLoS One 2020; 15:e0236135. [PMID: 32697800 PMCID: PMC7375540 DOI: 10.1371/journal.pone.0236135] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2020] [Accepted: 06/29/2020] [Indexed: 01/18/2023] Open
Abstract
Fungi in the marine environment are often neglected as a research topic, despite that fungi having critical roles on land as decomposers, pathogens or endophytes. Here we used culture-dependent methods to survey the fungi associated with the seagrass, Zostera marina, also obtaining bacteria and oomycete isolates in the process. A total of 108 fungi, 40 bacteria and 2 oomycetes were isolated. These isolates were then taxonomically identified using a combination of molecular and phylogenetic methods. The majority of the fungal isolates were classified as belonging to the classes Eurotiomycetes, Dothideomycetes, and Sordariomycetes. Most fungal isolates were habitat generalists like Penicillium sp. and Cladosporium sp., but we also cultured a diverse set of rare taxa including possible habitat specialists like Colletotrichum sp. which may preferentially associate with Z. marina leaf tissue. Although the bulk of bacterial isolates were identified as being from known ubiquitous marine lineages, we also obtained several Actinomycetes isolates and a Phyllobacterium sp. We identified two oomycetes, another understudied group of marine microbial eukaryotes, as Halophytophthora sp. which may be opportunistic pathogens or saprophytes of Z. marina. Overall, this study generates a culture collection of fungi which adds to knowledge of Z. marina associated fungi and highlights a need for more investigation into the functional and evolutionary roles of microbial eukaryotes associated with seagrasses.
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Affiliation(s)
- Cassandra L. Ettinger
- Genome Center, University of California, Davis, CA, United States of America
- Department of Evolution and Ecology, University of California, Davis, CA, United States of America
| | - Jonathan A. Eisen
- Genome Center, University of California, Davis, CA, United States of America
- Department of Evolution and Ecology, University of California, Davis, CA, United States of America
- Department of Medical Microbiology and Immunology, University of California, Davis, CA, United States of America
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15
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Tarquinio F, Hyndes GA, Laverock B, Koenders A, Säwström C. The seagrass holobiont: understanding seagrass-bacteria interactions and their role in seagrass ecosystem functioning. FEMS Microbiol Lett 2020; 366:5382495. [PMID: 30883643 DOI: 10.1093/femsle/fnz057] [Citation(s) in RCA: 37] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2018] [Accepted: 03/16/2019] [Indexed: 12/27/2022] Open
Abstract
This review shows that the presence of seagrass microbial community is critical for the development of seagrasses; from seed germination, through to phytohormone production and enhanced nutrient availability, and defence against pathogens and saprophytes. The tight seagrass-bacterial relationship highlighted in this review supports the existence of a seagrass holobiont and adds to the growing evidence for the importance of marine eukaryotic microorganisms in sustaining vital ecosystems. Incorporating a micro-scale view on seagrass ecosystems substantially expands our understanding of ecosystem functioning and may have significant implications for future seagrass management and mitigation against human disturbance.
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Affiliation(s)
- Flavia Tarquinio
- Centre for Marine Ecosystems Research, Edith Cowan University, Joondalup, Western Australia, Australia.,Commonwealth Scientific and Industrial Research Organization, Crawley, 6009, Western Australia, Australia
| | - Glenn A Hyndes
- Centre for Marine Ecosystems Research, Edith Cowan University, Joondalup, Western Australia, Australia
| | - Bonnie Laverock
- Plant Functional Biology and Climate Change Cluster, University of Technology Sydney, Sydney, 2007, Australia.,School of Science, Auckland University of Technology, Auckland, 1010, New Zealand
| | - Annette Koenders
- Centre for Ecosystem Management, Edith Cowan University, Joondalup, 6027, Western Australia, Australia
| | - Christin Säwström
- Centre for Marine Ecosystems Research, Edith Cowan University, Joondalup, Western Australia, Australia
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16
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Bioactivity of Mycoendophytes Isolated from Medicinal Plants Growing in Different Geographical Egyptian Habitats. Jundishapur J Nat Pharm Prod 2020. [DOI: 10.5812/jjnpp.64785] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
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17
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Bovio E, Sfecci E, Poli A, Gnavi G, Prigione V, Lacour T, Mehiri M, Varese GC. The culturable mycobiota associated with the Mediterranean sponges Aplysina cavernicola, Crambe crambe and Phorbas tenacior. FEMS Microbiol Lett 2019; 366:5710934. [PMID: 31960895 DOI: 10.1093/femsle/fnaa014] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2019] [Accepted: 01/20/2020] [Indexed: 01/15/2023] Open
Abstract
Marine fungi are part of the huge and understudied biodiversity hosted in the sea. To broaden the knowledge on fungi inhabiting the Mediterranean Sea and their role in sponge holobiont, three sponges namely Aplysina cavernicola, Crambe crambe and Phorbas tenacior were collected in Villefranche sur Mer, (France) at about 25 m depth. The fungal communities associated with the sponges were isolated using different techniques to increase the numbers of fungi isolated. All fungi were identified to species level giving rise to 19, 13 and 3 species for P. tenacior, A. cavernicola and C. crambe, respectively. Of note, 35.7% and 50.0% of the species detected were either reported for the first time in the marine environment or in association with sponges. The mini-satellite analysis confirmed the uniqueness of the mycobiota of each sponge, leading to think that the sponge, with its metabolome, may shape the microbial community.
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Affiliation(s)
- Elena Bovio
- Department of Life Sciences and Systems Biology, Mycotheca Universitatis Taurinensis (MUT), University of Turin, Viale Mattioli 25, 10125 Turin, Italy.,University Nice Côte d'Azur, CNRS, Nice Institute of Chemistry, UMR 7272, Marine Natural Products Team, Nice 60103, France
| | - Estelle Sfecci
- University Nice Côte d'Azur, CNRS, Nice Institute of Chemistry, UMR 7272, Marine Natural Products Team, Nice 60103, France
| | - Anna Poli
- Department of Life Sciences and Systems Biology, Mycotheca Universitatis Taurinensis (MUT), University of Turin, Viale Mattioli 25, 10125 Turin, Italy
| | - Giorgio Gnavi
- Department of Life Sciences and Systems Biology, Mycotheca Universitatis Taurinensis (MUT), University of Turin, Viale Mattioli 25, 10125 Turin, Italy
| | - Valeria Prigione
- Department of Life Sciences and Systems Biology, Mycotheca Universitatis Taurinensis (MUT), University of Turin, Viale Mattioli 25, 10125 Turin, Italy
| | | | - Mohamed Mehiri
- University Nice Côte d'Azur, CNRS, Nice Institute of Chemistry, UMR 7272, Marine Natural Products Team, Nice 60103, France
| | - Giovanna Cristina Varese
- Department of Life Sciences and Systems Biology, Mycotheca Universitatis Taurinensis (MUT), University of Turin, Viale Mattioli 25, 10125 Turin, Italy
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18
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He MQ, Zhao RL, Hyde KD, Begerow D, Kemler M, Yurkov A, McKenzie EHC, Raspé O, Kakishima M, Sánchez-Ramírez S, Vellinga EC, Halling R, Papp V, Zmitrovich IV, Buyck B, Ertz D, Wijayawardene NN, Cui BK, Schoutteten N, Liu XZ, Li TH, Yao YJ, Zhu XY, Liu AQ, Li GJ, Zhang MZ, Ling ZL, Cao B, Antonín V, Boekhout T, da Silva BDB, De Crop E, Decock C, Dima B, Dutta AK, Fell JW, Geml J, Ghobad-Nejhad M, Giachini AJ, Gibertoni TB, Gorjón SP, Haelewaters D, He SH, Hodkinson BP, Horak E, Hoshino T, Justo A, Lim YW, Menolli N, Mešić A, Moncalvo JM, Mueller GM, Nagy LG, Nilsson RH, Noordeloos M, Nuytinck J, Orihara T, Ratchadawan C, Rajchenberg M, Silva-Filho AGS, Sulzbacher MA, Tkalčec Z, Valenzuela R, Verbeken A, Vizzini A, Wartchow F, Wei TZ, Weiß M, Zhao CL, Kirk PM. Notes, outline and divergence times of Basidiomycota. FUNGAL DIVERS 2019. [DOI: 10.1007/s13225-019-00435-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
AbstractThe Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota. The present work provides an overview of all validly published, currently used basidiomycete genera to date in a single document. An outline of all genera of Basidiomycota is provided, which includes 1928 currently used genera names, with 1263 synonyms, which are distributed in 241 families, 68 orders, 18 classes and four subphyla. We provide brief notes for each accepted genus including information on classification, number of accepted species, type species, life mode, habitat, distribution, and sequence information. Furthermore, three phylogenetic analyses with combined LSU, SSU, 5.8s, rpb1, rpb2, and ef1 datasets for the subphyla Agaricomycotina, Pucciniomycotina and Ustilaginomycotina are conducted, respectively. Divergence time estimates are provided to the family level with 632 species from 62 orders, 168 families and 605 genera. Our study indicates that the divergence times of the subphyla in Basidiomycota are 406–430 Mya, classes are 211–383 Mya, and orders are 99–323 Mya, which are largely consistent with previous studies. In this study, all phylogenetically supported families were dated, with the families of Agaricomycotina diverging from 27–178 Mya, Pucciniomycotina from 85–222 Mya, and Ustilaginomycotina from 79–177 Mya. Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system, and also provide a better understanding of their phylogeny and evolution.
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Ettinger CL, Eisen JA. Characterization of the Mycobiome of the Seagrass, Zostera marina, Reveals Putative Associations With Marine Chytrids. Front Microbiol 2019; 10:2476. [PMID: 31749781 PMCID: PMC6842960 DOI: 10.3389/fmicb.2019.02476] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2019] [Accepted: 10/15/2019] [Indexed: 12/31/2022] Open
Abstract
Seagrasses are globally distributed marine flowering plants that are foundation species in coastal ecosystems. Seagrass beds play essential roles as habitats and hatcheries, in nutrient cycling, and in protecting the coastline from erosion. Although many studies have focused on seagrass ecology, only a limited number have investigated their associated fungi. In terrestrial systems, fungi can have beneficial and detrimental effects on plant fitness. However, not much is known about marine fungi and even less is known about seagrass associated fungi. Here we used culture-independent sequencing of the ribosomal internal transcribed spacer (ITS) region to characterize the taxonomic diversity of fungi associated with the seagrass, Zostera marina. We sampled from two Z. marina beds in Bodega Bay over three time points to investigate fungal diversity within and between plants. Our results indicate that there are many fungal taxa for which a taxonomic assignment cannot be made living on and inside Z. marina leaves, roots and rhizomes and that these plant tissues harbor distinct fungal communities. We also identified differences in the abundances of the orders, Glomerellales, Agaricales and Malasseziales, between seagrass tissues. The most prevalent ITS amplicon sequence variants (ASVs) associated with Z. marina tissues could not initially be confidently assigned to a fungal phylum, but shared significant sequence similarity with Chytridiomycota and Aphelidomycota. To obtain a more definitive taxonomic classification of the most abundant ASV associated with Z. marina leaves, we used PCR with one primer targeting a unique region of this ASV's ITS2 and a second primer targeting fungal 28S rRNA genes to amplify part of the 28S rRNA gene region corresponding to this ASV. Sequencing and phylogenetic analysis of the resulting partial 28S rRNA gene revealed that the organism that this ASV comes from is a member of Novel Clade SW-I in the order Lobulomycetales in the phylum Chytridiomycota. This clade includes known parasites of freshwater diatoms and algae and it is possible this chytrid is directly infecting Z. marina leaf tissues. This work highlights a need for further studies focusing on marine fungi and the potential importance of these understudied communities to the larger seagrass ecosystem.
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Affiliation(s)
- Cassandra L. Ettinger
- Genome Center, University of California, Davis, Davis, CA, United States
- Department of Evolution and Ecology, University of California, Davis, Davis, CA, United States
| | - Jonathan A. Eisen
- Genome Center, University of California, Davis, Davis, CA, United States
- Department of Evolution and Ecology, University of California, Davis, Davis, CA, United States
- Department of Medical Microbiology and Immunology, University of California, Davis, Davis, CA, United States
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20
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Liu T, Wu Z, Jia X, Chen S, Cai Z, Shen J, Wang D. The complete chloroplast genome of Enhalus acodoides and its phylogenetic analysis. Mitochondrial DNA B Resour 2019; 4:3667-3668. [PMID: 33366134 PMCID: PMC7707427 DOI: 10.1080/23802359.2019.1678430] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
Abstract
Complete chloroplast genome of Enhalus acodoides was obtained in this work. Circular mapping revealed that the complete chloroplast sequences of E. acodoides was 176,748 bp in length and had an overall GC content of 38.3%, encoded 132 genes which contained 86 protein-coding genes (PCGs), 38 transfer RNA genes (tRNA) and 8 ribosomal RNA genes (rRNA). The phylogenetic tree shows that E. acodoides had a closer relationship with Thalassia hemprichii in Hydrocharitaceae and its analysis will help better understand the evolution of Alismatales species.
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Affiliation(s)
- Tao Liu
- Hainan Academy of Ocean and Fisheries Sciences, Haikou, People's Republic of China
- Hainan Provincial Key Laboratory of Technology for Tropical Seawater Aquaculture, Haikou, People's Republic of China
- Laboratory of Genetics and Breeding of Marine Organism, College of Marine Life Sciences, Ocean University of China, Qingdao, People's Republic of China
| | - Zhongjie Wu
- Hainan Academy of Ocean and Fisheries Sciences, Haikou, People's Republic of China
| | - Xuli Jia
- Laboratory of Genetics and Breeding of Marine Organism, College of Marine Life Sciences, Ocean University of China, Qingdao, People's Republic of China
| | - Shiquan Chen
- Hainan Academy of Ocean and Fisheries Sciences, Haikou, People's Republic of China
| | - Zefu Cai
- Hainan Academy of Ocean and Fisheries Sciences, Haikou, People's Republic of China
| | - Jie Shen
- Hainan Academy of Ocean and Fisheries Sciences, Haikou, People's Republic of China
| | - Daoru Wang
- Hainan Academy of Ocean and Fisheries Sciences, Haikou, People's Republic of China
- Hainan Provincial Key Laboratory of Technology for Tropical Seawater Aquaculture, Haikou, People's Republic of China
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21
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Jones EBG, Pang KL, Abdel-Wahab MA, Scholz B, Hyde KD, Boekhout T, Ebel R, Rateb ME, Henderson L, Sakayaroj J, Suetrong S, Dayarathne MC, Kumar V, Raghukumar S, Sridhar KR, Bahkali AHA, Gleason FH, Norphanphoun C. An online resource for marine fungi. FUNGAL DIVERS 2019. [DOI: 10.1007/s13225-019-00426-5] [Citation(s) in RCA: 45] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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22
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23
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Voglmayr H, Jaklitsch WM. Stilbocrea walteri sp. nov., an unusual species of Bionectriaceae. Mycol Prog 2018; 18:91-105. [PMID: 31178677 PMCID: PMC6529038 DOI: 10.1007/s11557-018-1427-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2018] [Revised: 07/23/2018] [Accepted: 07/25/2018] [Indexed: 12/02/2022]
Abstract
The new species Stilbocrea walteri is described and illustrated from Quercus ilex collected in Portugal. Phylogenetic analyses of LSU rDNA, rpb1, rpb2 and tef1 sequence matrices place S. walteri in the Bionectriaceae, Hypocreales, within a clade of specimens morphologically identified as Stilbocrea macrostoma, the generic type of Stilbocrea. Stilbocrea walteri differs from S. macrostoma in dark olive green to blackish ascomata basally immersed in a stroma, KOH+ and LA+ ascomata and the lack of a stilbella-like asexual morph on natural substrate and pure culture. A simple phialidic asexual morph is formed in pure culture. To enable a morphological comparison, Stilbocrea macrostoma is illustrated.
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Affiliation(s)
- Hermann Voglmayr
- Division of Systematic and Evolutionary Botany, Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 1030 Wien, Austria
| | - Walter M. Jaklitsch
- Division of Systematic and Evolutionary Botany, Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 1030 Wien, Austria
- Institute of Forest Entomology, Forest Pathology and Forest Protection, Department of Forest and Soil Sciences, BOKU-University of Natural Resources and Life Sciences, Franz Schwackhöfer Haus, Peter-Jordan-Straße 82/I, 1190 Wien, Austria
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24
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25
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Natural products of Alternaria sp., an endophytic fungus isolated from Salvadora persica from Saudi Arabia. Saudi J Biol Sci 2018; 26:1068-1077. [PMID: 31303842 PMCID: PMC6601026 DOI: 10.1016/j.sjbs.2018.04.010] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2018] [Revised: 03/26/2018] [Accepted: 04/08/2018] [Indexed: 11/24/2022] Open
Abstract
This study is to evaluate the potential of endophytic fungi of Salvadora persica for the production of bioactive compounds against pathogenic bacteria and fungi. Forty-two fungal isolates were obtained from 135 young and old stem and 125 root segments. Those 42 isolates representing ten fungi include: Trichoderma sp. (the most common), two species of Alternaria, Rhizopus arrhizus and 6 sterile mycelia. The ten fungi were grown in liquid culture and their crude extracts were tested against pathogenic bacteria and fungi. Nine crude extracts gave positive reactions against pathogenic bacteria of which Alternaria sp. (A8) was chosen further study. The fungal isolate was growing as sterile mycelium and was identified by phylogenetic analyses based on LSU rDNA sequence data and it might represent undescribed species of Alternaria. Sixty-two bioactive chemical compounds were identified from the ethyl acetate crude extracts of Alternaria sp., of which the following were recorded as major compounds in the active sub-fractions. These compounds showed strong antibacterial activity in combination.
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26
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Dastogeer KMG, Li H, Sivasithamparam K, Jones MGK, Wylie SJ. Host Specificity of Endophytic Mycobiota of Wild Nicotiana Plants from Arid Regions of Northern Australia. MICROBIAL ECOLOGY 2018; 75:74-87. [PMID: 28702707 DOI: 10.1007/s00248-017-1020-0] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2016] [Accepted: 06/15/2017] [Indexed: 06/07/2023]
Abstract
In arid regions of northern Australia, plants survive under water deficit, high temperatures, intense solar radiation and nutrient-impoverished soils. They employ various morpho-physiological and biochemical adaptations including interaction with microbial symbionts. We evaluated identity, host and tissue association with geographical distribution of fungal endophytes isolated from above- and below-ground tissues of plants of three indigenous Australian Nicotiana species. Isolation frequency and α-diversity were significantly higher for root endophyte assemblages than those of stem and leaf tissues. We recorded no differences in endophyte species richness or diversity as a function of sampling location, but did detect differences among different host genotypes and plant tissues. There was a significant pattern of community similarity associated with host genotypes but no consistent pattern of fungal community structuring associated with sampling location and tissue type, regardless of the community similarity measurements used.
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Affiliation(s)
- Khondoker M G Dastogeer
- Plant Biotechnology Group - Plant Virology, Western Australian State Agricultural Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, Western Australia, 6150, Australia
| | - Hua Li
- Plant Biotechnology Group - Plant Virology, Western Australian State Agricultural Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, Western Australia, 6150, Australia
| | - Krishnapillai Sivasithamparam
- Plant Biotechnology Group - Plant Virology, Western Australian State Agricultural Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, Western Australia, 6150, Australia
| | - Michael G K Jones
- Plant Biotechnology Group - Plant Virology, Western Australian State Agricultural Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, Western Australia, 6150, Australia
| | - Stephen J Wylie
- Plant Biotechnology Group - Plant Virology, Western Australian State Agricultural Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, Western Australia, 6150, Australia.
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27
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Ugarelli K, Chakrabarti S, Laas P, Stingl U. The Seagrass Holobiont and Its Microbiome. Microorganisms 2017; 5:microorganisms5040081. [PMID: 29244764 PMCID: PMC5748590 DOI: 10.3390/microorganisms5040081] [Citation(s) in RCA: 56] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2017] [Revised: 12/04/2017] [Accepted: 12/05/2017] [Indexed: 11/25/2022] Open
Abstract
Seagrass meadows are ecologically and economically important components of many coastal areas worldwide. Ecosystem services provided by seagrasses include reducing the number of microbial pathogens in the water, providing food, shelter and nurseries for many species, and decreasing the impact of waves on the shorelines. A global assessment reported that 29% of the known areal extent of seagrasses has disappeared since seagrass areas were initially recorded in 1879. Several factors such as direct and indirect human activity contribute to the demise of seagrasses. One of the main reasons for seagrass die-offs all over the world is increased sulfide concentrations in the sediment that result from the activity of sulfate-reducing prokaryotes, which perform the last step of the anaerobic food chain in marine sediments and reduce sulfate to H2S. Recent seagrass die-offs, e.g., in the Florida and Biscayne Bays, were caused by an increase in pore-water sulfide concentrations in the sediment, which were the combined result of unfavorable environmental conditions and the activities of various groups of heterotrophic bacteria in the sulfate-rich water-column and sediment that are stimulated through increased nutrient concentrations. Under normal circumstances, seagrasses are able to withstand low levels of sulfide, probably partly due to microbial symbionts, which detoxify sulfide by oxidizing it to sulfur or sulfate. Novel studies are beginning to give greater insights into the interactions of microbes and seagrasses, not only in the sulfur cycle. Here, we review the literature on the basic ecology and biology of seagrasses and focus on studies describing their microbiome.
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Affiliation(s)
- Kelly Ugarelli
- Ft. Lauderdale Research and Education Center, Department of Microbiology and Cell Science, UF/IFAS, University of Florida, Davie, FL 33314, USA.
| | - Seemanti Chakrabarti
- Ft. Lauderdale Research and Education Center, Department of Microbiology and Cell Science, UF/IFAS, University of Florida, Davie, FL 33314, USA.
| | - Peeter Laas
- Ft. Lauderdale Research and Education Center, Department of Microbiology and Cell Science, UF/IFAS, University of Florida, Davie, FL 33314, USA.
| | - Ulrich Stingl
- Ft. Lauderdale Research and Education Center, Department of Microbiology and Cell Science, UF/IFAS, University of Florida, Davie, FL 33314, USA.
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28
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Reich M, Labes A. How to boost marine fungal research: A first step towards a multidisciplinary approach by combining molecular fungal ecology and natural products chemistry. Mar Genomics 2017; 36:57-75. [PMID: 29031541 DOI: 10.1016/j.margen.2017.09.007] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2017] [Revised: 09/22/2017] [Accepted: 09/23/2017] [Indexed: 12/30/2022]
Abstract
Marine fungi have attracted attention in recent years due to increased appreciation of their functional role in ecosystems and as important sources of new natural products. The concomitant development of various "omic" technologies has boosted fungal research in the fields of biodiversity, physiological ecology and natural product biosynthesis. Each of these research areas has its own research agenda, scientific language and quality standards, which have so far hindered an interdisciplinary exchange. Inter- and transdisciplinary interactions are, however, vital for: (i) a detailed understanding of the ecological role of marine fungi, (ii) unlocking their hidden potential for natural product discovery, and (iii) designing access routes for biotechnological production. In this review and opinion paper, we describe the two different "worlds" of marine fungal natural product chemists and marine fungal molecular ecologists. The individual scientific approaches and tools employed are summarised and explained, and enriched with a first common glossary. We propose a strategy to find a multidisciplinary approach towards a comprehensive view on marine fungi and their chemical potential.
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Affiliation(s)
- Marlis Reich
- University of Bremen, BreMarE, NW2 B3320, Leobener Str. 5, D-28359 Bremen, Germany.
| | - Antje Labes
- Flensburg University of Applied Sciences, Kanzleistr. 91-93, D-24943 Flensburg, Germany.
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29
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Khan AL, Gilani SA, Waqas M, Al-Hosni K, Al-Khiziri S, Kim YH, Ali L, Kang SM, Asaf S, Shahzad R, Hussain J, Lee IJ, Al-Harrasi A. Endophytes from medicinal plants and their potential for producing indole acetic acid, improving seed germination and mitigating oxidative stress. J Zhejiang Univ Sci B 2017; 18:125-137. [PMID: 28124841 DOI: 10.1631/jzus.b1500271] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Medicinal plants have been used by marginal communities to treat various ailments. However, the potential of endophytes within these bio-prospective medicinal plants remains unknown. The present study elucidates the endophytic diversity of medicinal plants (Caralluma acutangula, Rhazya stricta, and Moringa peregrina) and the endophyte role in seed growth and oxidative stress. Various organs of medicinal plants yielded ten endophytes, which were identified as Phoma sp. (6 isolates), Alternaria sp. (2), Bipolaris sp. (1), and Cladosporium sp. (1) based on 18S rDNA sequencing and phylogenetic analysis. The culture filtrates (CFs; 25%, 50%, and 100% concentrations) from these endophytes were tested against the growth of normal and dwarf mutant rice lines. Endophytic CF exhibited dose-dependent growth stimulation and suppression effects. CF (100%) of Phoma sp. significantly increased rice seed germination and growth compared to controls and other endophytes. This growth-promoting effect was due to the presence of indole acetic acid in endophytic CF. The gas chromatography/mass spectrometry (GC/MS) analysis showed the highest indole acetic acid content ((54.31±0.21) µmol/L) in Bipolaris sp. In addition, the isolate of Bipolaris sp. exhibited significantly higher radical scavenging and anti-lipid peroxidation activity than the other isolates. Bipolaris sp. and Phoma sp. also exhibited significantly higher flavonoid and phenolic contents. The medicinal plants exhibited the presence of bio-prospective endophytic strains, which could be used for the improvement of crop growth and the mitigation of oxidative stresses.
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Affiliation(s)
- Abdul Latif Khan
- UoN Chair of Oman's Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa 616, Oman
| | - Syed Abdullah Gilani
- Department of Biological Sciences & Chemistry, University of Nizwa, Nizwa 616, Oman
| | - Muhammad Waqas
- School of Applied Biosciences, Kyungpook National University, Daegu 702-701, Korea.,Department of Agriculture, Abdul Wali Khan University Mardan, Mardan 23200, Pakistan
| | - Khadija Al-Hosni
- UoN Chair of Oman's Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa 616, Oman
| | - Salima Al-Khiziri
- UoN Chair of Oman's Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa 616, Oman
| | - Yoon-Ha Kim
- Division of Plant Sciences, University of Missouri, Columbia, MO 65211, USA
| | - Liaqat Ali
- UoN Chair of Oman's Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa 616, Oman
| | - Sang-Mo Kang
- UoN Chair of Oman's Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa 616, Oman
| | - Sajjad Asaf
- School of Applied Biosciences, Kyungpook National University, Daegu 702-701, Korea
| | - Raheem Shahzad
- School of Applied Biosciences, Kyungpook National University, Daegu 702-701, Korea
| | - Javid Hussain
- Department of Biological Sciences & Chemistry, University of Nizwa, Nizwa 616, Oman
| | - In-Jung Lee
- School of Applied Biosciences, Kyungpook National University, Daegu 702-701, Korea
| | - Ahmed Al-Harrasi
- UoN Chair of Oman's Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa 616, Oman
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López-González RC, Gómez-Cornelio S, De la Rosa-García SC, Garrido E, Oropeza-Mariano O, Heil M, Partida-Martínez LP. The age of lima bean leaves influences the richness and diversity of the endophytic fungal community, but not the antagonistic effect of endophytes against Colletotrichum lindemuthianum. FUNGAL ECOL 2017. [DOI: 10.1016/j.funeco.2016.11.004] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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31
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Kirichuk NN, Pivkin MV, Matveeva TV. Three new Penicillium species from marine subaqueous soils. Mycol Prog 2016. [DOI: 10.1007/s11557-016-1247-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Raja S, Subhashini P, Thangaradjou T. Differential methods of localisation of fungal endophytes in the seagrasses. Mycology 2016; 7:112-123. [PMID: 30123623 PMCID: PMC6059073 DOI: 10.1080/21501203.2016.1218966] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2016] [Accepted: 07/26/2016] [Indexed: 11/19/2022] Open
Abstract
Sections of three seagrass species (Halophila ovalis, Cymodocea serrulata and Halodule pinifolia) were assessed for endophytes based on differential staining using light and fluorescence microscopy method. Acridine orange and aniline blue detected endophytic fungi in 20% and 10% of the segments, respectively, whereas lactophenol cotton blue was more sensitive to detect the fungal hyphae in 70% of the segments. Hyphae were the principal fungal structures generally observed under the cuticle, within the epidermal cells, mesophyll (Parenchyma) cells and occasionally within the vascular tissue that varied in type, size and location within the leaf tissue. Present study also recorded the sporulation for the first time from the seagrass endophytes. Successfully amplified products of the ITS region of endophytic fungal DNA, directly from seagrass tissue and also from culture-dependent fungal DNA clearly depicted the presence of endophytic fungi in H. ovalis with two banding patterns (903 and 1381 bp) confirming the presence of two dominant fungal genera. The fingerprinting of endophytic fungal community within the seagrass tissue was assessed using denaturing gradient gel electrophoresis (DGGE) that derived with multiple bands that clarified the presence of more than one taxon within the seagrass tissue.
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Affiliation(s)
- S. Raja
- Centre of Advanced Study in Marine Biology, Faculty of Marine Science, Annamalai University, Chidambaram, India
| | - Pon. Subhashini
- Centre of Advanced Study in Marine Biology, Faculty of Marine Science, Annamalai University, Chidambaram, India
| | - T. Thangaradjou
- Centre of Advanced Study in Marine Biology, Faculty of Marine Science, Annamalai University, Chidambaram, India
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Khan AL, Al-Harrasi A, Al-Rawahi A, Al-Farsi Z, Al-Mamari A, Waqas M, Asaf S, Elyassi A, Mabood F, Shin JH, Lee IJ. Endophytic Fungi from Frankincense Tree Improves Host Growth and Produces Extracellular Enzymes and Indole Acetic Acid. PLoS One 2016; 11:e0158207. [PMID: 27359330 PMCID: PMC4928835 DOI: 10.1371/journal.pone.0158207] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2015] [Accepted: 06/13/2016] [Indexed: 11/19/2022] Open
Abstract
Boswellia sacra, an economically important frankincense-producing tree found in the desert woodlands of Oman, is least known for its endophytic fungal diversity and the potential of these fungi to produce extracellular enzymes and auxins. We isolated various fungal endophytes belonging to Eurotiales (11.8%), Chaetomiaceae (17.6%), Incertae sadis (29.5%), Aureobasidiaceae (17.6%), Nectriaceae (5.9%) and Sporomiaceae (17.6%) from the phylloplane (leaf) and caulosphere (stem) of the tree. Endophytes were identified using genomic DNA extraction, PCR amplification and sequencing the internal transcribed spacer regions, whereas a detailed phylogenetic analysis of the same gene fragment was made with homologous sequences. The endophytic colonization rate was significantly higher in the leaf (5.33%) than the stem (0.262%). The Shannon-Weiner diversity index was H′ 0.8729, while Simpson index was higher in the leaf (0.583) than in the stem (0.416). Regarding the endophytic fungi’s potential for extracellular enzyme production, fluorogenic 4-methylumbelliferone standards and substrates were used to determine the presence of cellulases, phosphatases and glucosidases in the pure culture. Among fungal strains, Penicillum citrinum BSL17 showed significantly higher amounts of glucosidases (62.15±1.8 μM-1min-1mL) and cellulases (62.11±1.6 μM-1min-1mL), whereas Preussia sp. BSL10 showed significantly higher secretion of glucosidases (69.4±0.79 μM-1min-1mL) and phosphatases (3.46±0.31μM-1min-1mL) compared to other strains. Aureobasidium sp. BSS6 and Preussia sp. BSL10 showed significantly higher potential for indole acetic acid production (tryptophan-dependent and independent pathways). Preussia sp. BSL10 was applied to the host B. sacra tree saplings, which exhibited significant improvements in plant growth parameters and accumulation of photosynthetic pigments. The current study concluded that endophytic microbial resources producing extracellular enzymes and auxin could establish a unique niche for ecological adaptation during symbiosis with the host Frankincense tree.
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Affiliation(s)
- Abdul Latif Khan
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
| | - Ahmed Al-Harrasi
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
- * E-mail: (AAH); (IJL)
| | - Ahmed Al-Rawahi
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
| | - Zainab Al-Farsi
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
| | - Aza Al-Mamari
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
| | - Muhammad Waqas
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
- Department of Agriculture, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Sajjad Asaf
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
| | - Ali Elyassi
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
| | - Fazal Mabood
- UoN Chair of Oman’s Medicinal Plants & Marine Natural Products, University of Nizwa, Nizwa, Oman
| | - Jae-Ho Shin
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
| | - In-Jung Lee
- School of Applied Biosciences, Kyungpook National University, Daegu, Republic of Korea
- * E-mail: (AAH); (IJL)
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Abstract
The Xylariaceae is one of the best-known pyrenomycete families (Ascomycota) and is distributed throughout the world. The majority are wood inhabitants and are prevalent in tropical and subtropical regions. Halorosellinia oceanicum is the most widely distributed in mangroves and can be regarded as truly manglicolous being frequently recorded as the dominant member of the family in such environments in S.E. Asia. In Malaysian mangroves, members of the Xylariaceae have been found to be numerically important with up to 9% present in one mangrove ecosystem. A further twelve xylariaceous genera are reported as occurring as their teleomorphs in mangrove forest and their immediate surroundings including Anthostomella, Astrocystis, Biscogniauxia, Camillea, Daldinia, Fasciatispora, Hypoxylon, Kretzschmaria, Nemania, Nipicola, Rosellinia and Xylaria. Furthermore, the presence of species from a number of these taxa, especially species of Anthostomella and Xylaria, are regularly isolated as endophytes from a variety of mangrove plant species. Mangrove Xylariaceae are also well known for their ability to produce novel and often bioactive metabolites.
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Vohník M, Borovec O, Kolařík M. Communities of Cultivable Root Mycobionts of the Seagrass Posidonia oceanica in the Northwest Mediterranean Sea Are Dominated by a Hitherto Undescribed Pleosporalean Dark Septate Endophyte. MICROBIAL ECOLOGY 2016; 71:442-451. [PMID: 26093964 DOI: 10.1007/s00248-015-0640-5] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2015] [Accepted: 06/09/2015] [Indexed: 06/04/2023]
Abstract
Seagrasses, a small group of submerged marine macrophytes, were reported to lack mycorrhizae, i.e., the root-fungus symbioses most terrestrial plants use for nutrient uptake. On the other hand, several authors detected fungal endophytes in seagrass leaves, shoots, rhizomes, and roots, and an anatomically and morphologically unique dark septate endophytic (DSE) association has been recently described in the roots of the Mediterranean seagrass Posidonia oceanica. Nevertheless, the global diversity of seagrass mycobionts is not well understood, and it remains unclear what fungus forms the DSE association in P. oceanica roots. We isolated and determined P. oceanica root mycobionts from 11 localities in the northwest Mediterranean Sea with documented presence of the DSE association and compared our results with recent literature. The mycobiont communities were low in diversity (only three species), were dominated by a single yet unreported marine fungal species (ca. 90 % of the total 177 isolates), and lacked common terrestrial and freshwater root mycobionts. Our phylogenetic analysis suggests that the dominating species represents a new monotypic lineage within the recently described Aigialaceae family (Pleosporales, Ascomycota), probably representing a new genus. Most of its examined colonies developed from intracellular microsclerotia occupying host hypodermis and resembling microsclerotia of terrestrial DSE fungi. Biological significance of this hitherto overlooked seagrass root mycobiont remains obscure, but its presence across the NW Mediterranean Sea and apparent root intracellular lifestyle indicate an intriguing symbiotic relationship with the dominant Mediterranean seagrass. Our microscopic observations suggest that it may form the DSE association recently described in P. oceanica roots.
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Affiliation(s)
- Martin Vohník
- Department of Mycorrhizal Symbioses, Institute of Botany ASCR, Lesní 322, Průhonice, 25243, Czech Republic.
- Department of Experimental Plant Biology, Faculty of Science, Charles University in Prague, Viničná 5, Prague, 12843, Czech Republic.
| | - Ondřej Borovec
- Department of Mycorrhizal Symbioses, Institute of Botany ASCR, Lesní 322, Průhonice, 25243, Czech Republic
- Department of Experimental Plant Biology, Faculty of Science, Charles University in Prague, Viničná 5, Prague, 12843, Czech Republic
| | - Miroslav Kolařík
- Laboratory of Genetics, Physiology and Bioengineering of Fungi, Institute of Microbiology ASCR, Vídeňská 1083, Prague, 14200, Czech Republic
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Phookamsak R, Norphanphoun C, Tanaka K, Dai DQ, Luo ZL, Liu JK, Su HY, Bhat DJ, Bahkali AH, Mortimer PE, Xu JC, Hyde KD. Towards a natural classification of Astrosphaeriella-like species; introducing Astrosphaeriellaceae and Pseudoastrosphaeriellaceae fam. nov. and Astrosphaeriellopsis, gen. nov. FUNGAL DIVERS 2015. [DOI: 10.1007/s13225-015-0352-7] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Panzer K, Yilmaz P, Weiß M, Reich L, Richter M, Wiese J, Schmaljohann R, Labes A, Imhoff JF, Glöckner FO, Reich M. Identification of Habitat-Specific Biomes of Aquatic Fungal Communities Using a Comprehensive Nearly Full-Length 18S rRNA Dataset Enriched with Contextual Data. PLoS One 2015. [PMID: 26226014 PMCID: PMC4520555 DOI: 10.1371/journal.pone.0134377] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
Abstract
Molecular diversity surveys have demonstrated that aquatic fungi are highly diverse, and that they play fundamental ecological roles in aquatic systems. Unfortunately, comparative studies of aquatic fungal communities are few and far between, due to the scarcity of adequate datasets. We combined all publicly available fungal 18S ribosomal RNA (rRNA) gene sequences with new sequence data from a marine fungi culture collection. We further enriched this dataset by adding validated contextual data. Specifically, we included data on the habitat type of the samples assigning fungal taxa to ten different habitat categories. This dataset has been created with the intention to serve as a valuable reference dataset for aquatic fungi including a phylogenetic reference tree. The combined data enabled us to infer fungal community patterns in aquatic systems. Pairwise habitat comparisons showed significant phylogenetic differences, indicating that habitat strongly affects fungal community structure. Fungal taxonomic composition differed considerably even on phylum and class level. Freshwater fungal assemblage was most different from all other habitat types and was dominated by basal fungal lineages. For most communities, phylogenetic signals indicated clustering of sequences suggesting that environmental factors were the main drivers of fungal community structure, rather than species competition. Thus, the diversification process of aquatic fungi must be highly clade specific in some cases.The combined data enabled us to infer fungal community patterns in aquatic systems. Pairwise habitat comparisons showed significant phylogenetic differences, indicating that habitat strongly affects fungal community structure. Fungal taxonomic composition differed considerably even on phylum and class level. Freshwater fungal assemblage was most different from all other habitat types and was dominated by basal fungal lineages. For most communities, phylogenetic signals indicated clustering of sequences suggesting that environmental factors were the main drivers of fungal community structure, rather than species competition. Thus, the diversification process of aquatic fungi must be highly clade specific in some cases.
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Affiliation(s)
- Katrin Panzer
- University of Bremen, Molecular Ecology, FB2, Leobener Str. 2, 28359, Bremen, Germany
- Jacobs University Bremen gGmbH, Department of Life Sciences and Chemistry, Campusring 1, 28759, Bremen, Germany
| | - Pelin Yilmaz
- Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstr.1, 28359, Bremen, Germany
| | - Michael Weiß
- University of Tübingen, Department of Biology, Auf der Morgenstelle 1, 72076 Tübingen, Germany
| | - Lothar Reich
- Potsdam Transfer, August-Bebel-Straße 89, Haus 7, 14482, Potsdam, Germany
| | - Michael Richter
- Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstr.1, 28359, Bremen, Germany
| | - Jutta Wiese
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Marine Microbiology, Düsternbrooker Weg 20, 24105, Kiel, Germany
| | - Rolf Schmaljohann
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Marine Microbiology, Düsternbrooker Weg 20, 24105, Kiel, Germany
| | - Antje Labes
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Marine Microbiology, Düsternbrooker Weg 20, 24105, Kiel, Germany
| | - Johannes F. Imhoff
- GEOMAR Helmholtz Centre for Ocean Research Kiel, Marine Microbiology, Düsternbrooker Weg 20, 24105, Kiel, Germany
| | - Frank Oliver Glöckner
- Jacobs University Bremen gGmbH, Department of Life Sciences and Chemistry, Campusring 1, 28759, Bremen, Germany
- Max Planck Institute for Marine Microbiology, Microbial Genomics and Bioinformatics Research Group, Celsiusstr.1, 28359, Bremen, Germany
| | - Marlis Reich
- University of Bremen, Molecular Ecology, FB2, Leobener Str. 2, 28359, Bremen, Germany
- * E-mail:
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Fungal Community Successions in Rhizosphere Sediment of Seagrasses Enhalus acoroides under PAHs Stress. Int J Mol Sci 2015; 16:14039-55. [PMID: 26096007 PMCID: PMC4490537 DOI: 10.3390/ijms160614039] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2015] [Revised: 05/21/2015] [Accepted: 06/05/2015] [Indexed: 11/17/2022] Open
Abstract
Seagrass meadows represent one of the highest productive marine ecosystems and are of great ecological and economic values. Recently, they have been confronted with worldwide decline. Fungi play important roles in sustaining the ecosystem health as degraders of polycyclic aromatic hydrocarbons (PAHs), but fewer studies have been conducted in seagrass ecosystems. Hence, we investigated the dynamic variations of the fungal community succession under PAH stress in rhizosphere sediment of seagrasses Enhalus acoroides in this study. Polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE), quantitative PCR (qPCR) and a clone library have been employed to analyze the fungal community’s shifts. Sequencing results of DGGE and the clone library showed that the predominant species belong to phyla Ascomycota and Basidiomycota. The abundance of three groups decreased sharply over the incubation period, whereas they demonstrated different fungal diversity patterns. Both the exposure time and the PAH concentrations affected the microbial diversity as assessed by PCR-DGGE analysis. Redundancy analysis (RDA) indicated that significant factors driving community shifts were ammonium and pH (p < 0.05). Significant amounts of the variations (31.1%) were explained by pH and ammonium, illustrating that those two parameters were the most likely ones to influence or be influenced by the fungal communities’ changes. Investigation results also indicated that fungal communities in seagrass meadow were very sensitive to PAH-induced stress and may be used as potential indicators for the PAH contamination.
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Venkatachalam A, Thirunavukkarasu N, Suryanarayanan TS. Distribution and diversity of endophytes in seagrasses. FUNGAL ECOL 2015. [DOI: 10.1016/j.funeco.2014.07.003] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
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40
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Martin R, Gazis R, Skaltsas D, Chaverri P, Hibbett D. Unexpected diversity of basidiomycetous endophytes in sapwood and leaves of Hevea. Mycologia 2015; 107:284-97. [PMID: 25572095 DOI: 10.3852/14-206] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Research on fungal endophytes has expanded dramatically in recent years, but little is known about the diversity and ecological roles of endophytic basidiomycetes. Here we report the analysis of 310 basidiomycetous endophytes isolated from wild and planted populations of the rubber tree genus, Hevea. Species accumulation curves were nonasymptotic, as in the majority of endophyte surveys, indicating that more sampling is needed to recover the true diversity of the community. One hundred eighteen OTUs were delimited, representing nine orders of Basidiomycota (Agaricales, Atheliales, Auriculariales, Cantharellales, Hymenochaetales, Polyporales, Russulales, Septobasidiales, Tremellales). The diversity of basidiomycetous endophytes found inhabiting wild populations of Hevea was comparable to that present in plantations. However, when samples were segregated by tissue type, sapwood of wild populations was found to contain a higher number of species than sapwood of planted trees. Seventy-five percent of isolates were members of the Polyporales, the majority in the phlebioid clade. Most of the species belong to clades known to cause a white-rot type of wood decay. Two species in the insect-associated genus Septobasidium were isolated. The most frequently isolated genera included Bjerkandera, Ceriporia, Phanerochaete, Phlebia, Rigidoporus, Tinctoporellus, Trametes (Polyporales), Peniophora, Stereum (Russulales) and Coprinellus (Agaricales), all of which have been reported as endophytes from a variety of hosts, across wide geographic locations. Literature records on the geographic distribution and host association of these genera revealed that their distribution and substrate affinity could be extended if the endophytic niche was investigated as part of fungal biodiversity surveys.
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Affiliation(s)
- Rachael Martin
- Clark University, Biology Department, 950 Main Street, Worcester, Massachusetts 01610
| | - Romina Gazis
- Clark University, Biology Department, 950 Main Street, Worcester, Massachusetts 01610
| | - Demetra Skaltsas
- University of Maryland, Department of Plant Science and Landscape Architecture, 2112 Plant Sciences Building, College Park, Maryland 20742
| | - Priscila Chaverri
- University of Maryland, Department of Plant Science and Landscape Architecture, 2112 Plant Sciences Building, College Park, Maryland 20742, and Universidad de Costa Rica, Escuela de Biología, Apdo. 11501-2060, San Pedro, San José, Costa Rica
| | - David Hibbett
- Clark University, Biology Department, 950 Main Street, Worcester, Massachusetts 01610
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Supaphon P, Phongpaichit S, Rukachaisirikul V, Sakayaroj J. Antimicrobial potential of endophytic fungi derived from three seagrass species: Cymodocea serrulata, Halophila ovalis and Thalassia hemprichii. PLoS One 2013; 8:e72520. [PMID: 23977310 PMCID: PMC3745589 DOI: 10.1371/journal.pone.0072520] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2013] [Accepted: 07/15/2013] [Indexed: 11/18/2022] Open
Abstract
Endophytic fungi from three commonly found seagrasses in southern Thailand were explored for their ability to produce antimicrobial metabolites. One hundred and sixty endophytic fungi derived from Cymodoceaserrulata (Family Cymodoceaceae), Halophilaovalis and Thalassiahemprichii (Family Hydrocharitaceae) were screened for production of antimicrobial compounds by a colorimetric broth microdilution test against ten human pathogenic microorganisms including Staphylococcus aureus ATCC 25923, a clinical isolate of methicillin-resistant S. aureus, Escherichia coli ATCC 25923, Pseudomonas aeruginosa ATCC 27853, Candida albicans ATCC 90028 and NCPF 3153, Cryptococcus neoformans ATCC 90112 and ATCC 90113 and clinical isolates of Microsporumgypseum and Penicilliummarneffei. Sixty-nine percent of the isolates exhibited antimicrobial activity against at least one test strain. Antifungal activity was more pronounced than antibacterial activity. Among the active fungi, seven isolates including Hypocreales sp. PSU-ES26 from C. serrulata, Trichoderma spp. PSU-ES8 and PSU-ES38 from H. ovalis, and Penicillium sp. PSU-ES43, Fusarium sp. PSU-ES73, Stephanonectria sp. PSU-ES172 and an unidentified endophyte PSU-ES190 from T. hemprichii exhibited strong antimicrobial activity against human pathogens with minimum inhibitory concentrations (MIC) of less than 10 µg/ml. The inhibitory extracts at concentrations of 4 times their MIC destroyed the targeted cells as observed by scanning electron microscopy. These results showed the antimicrobial potential of extracts from endophytic fungi from seagrasses.
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Affiliation(s)
- Preuttiporn Supaphon
- Department of Microbiology and Natural Products Research Center of Excellence, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, Thailand
| | - Souwalak Phongpaichit
- Department of Microbiology and Natural Products Research Center of Excellence, Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, Thailand
- * E-mail:
| | - Vatcharin Rukachaisirikul
- Department of Chemistry and Center of Excellence for Innovation in Chemistry Faculty of Science, Prince of Songkla University, Hat Yai, Songkhla, Thailand
| | - Jariya Sakayaroj
- National Center for Genetic Engineering and Biotechnology, Klong Luang, Pathumthani, Thailand
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Samerpitak K, Van der Linde E, Choi HJ, Gerrits van den Ende AHG, Machouart M, Gueidan C, de Hoog GS. Taxonomy of Ochroconis, genus including opportunistic pathogens on humans and animals. FUNGAL DIVERS 2013. [DOI: 10.1007/s13225-013-0253-6] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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43
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de Souza Leite T, Cnossen-Fassoni A, Pereira OL, Mizubuti ESG, de Araújo EF, de Queiroz MV. Novel and highly diverse fungal endophytes in soybean revealed by the consortium of two different techniques. J Microbiol 2013; 51:56-69. [PMID: 23456713 DOI: 10.1007/s12275-013-2356-x] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2012] [Accepted: 09/28/2012] [Indexed: 12/17/2022]
Abstract
Fungal endophytes were isolated from the leaves of soybean cultivars in Brazil using two different isolation techniques - fragment plating and the innovative dilution-to-extinction culturing - to increase the species richness, frequency of isolates and diversity. A total of 241 morphospecies were obtained corresponding to 62 taxa that were identified by analysis of the internal transcribed spacer (ITS) of the ribosomal DNA (rDNA). The Phylum Ascomycota predominated, representing 99% and 95.2% of isolates in the Monsoy and Conquista cultivars, respectively, whereas the Phylum Basidiomycota represented 1% and 4.8% of isolates, respectively. The genera Ampelomyces, Annulohypoxylon, Guignardia, Leptospora, Magnaporthe, Ophiognomonia, Paraconiothyrium, Phaeosphaeriopsis, Rhodotorula, Sporobolomyces, and Xylaria for the first time were isolated from soybean; this suggests that soybean harbours novel and highly diverse fungi. The yeasts genera Rhodotorula and Sporobolomyces (subphylum Pucciniomycotina) represent the Phylum Basidiomycota. The species richness was greater when both isolation techniques were used. The diversity of fungal endophytes was similar in both cultivars when the same isolation technique was used except for Hill's index, N1. The use of ITS region sequences allowed the isolates to be grouped according to Order, Class and Phylum. Ampelomyces, Chaetomium, and Phoma glomerata are endophytic species that may play potential roles in the biological control of soybean pathogens. This study is one of the first to apply extinction-culturing to isolate fungal endophytes in plant leaves, thus contributing to the development and improvement of this technique for future studies.
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Affiliation(s)
- Tiago de Souza Leite
- Department of Microbiology/Institute of Microbiology Applied to Agriculture and Livestock Raising (BIOAGRO), Laboratory of Microorganism Molecular Genetics, Vicosa, Brazil
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Tejesvi MV, Sauvola T, Pirttilä AM, Ruotsalainen AL. Neighboring Deschampsia flexuosa and Trientalis europaea harbor contrasting root fungal endophytic communities. MYCORRHIZA 2013; 23:1-10. [PMID: 22592854 DOI: 10.1007/s00572-012-0444-0] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/21/2012] [Accepted: 05/02/2012] [Indexed: 05/21/2023]
Abstract
Fungal endophytic communities and potential host preference of root-inhabiting fungi of boreal forest understory plants are poorly known. The objective of this study was to find out whether two neighboring plant species, Deschampsia flexuosa (Poaceae) and Trientalis europaea (Primulaceae), share similar root fungal endophytic communities and whether the communities differ between two sites. The study was carried out by analysis of pure culture isolates and root fungal colonization percentages. A total of 84 isolates from D. flexuosa and 27 isolates from T. europaea were obtained. The roots of D. flexuosa harbored 16 different isolate types based on macromorphological characteristics, whereas only 4 isolate types were found in T. europaea. The root colonization by dark septate and hyaline septate hyphae correlated with isolate numbers being higher in D. flexuosa compared to T. europaea. The different isolate types were further identified on the basis of internal transcribed spacer sequence and phylogenetic analysis. An isolate type identified as dark septate endophyte Phialocephala fortinii colonized 50 % of the T. europaea and 21 % of the D. flexuosa specimens. In addition, Meliniomyces variabilis, Phialocephala sphaeroides, and Umbelopsis isabellina were found colonizing the grass, D. flexuosa, for the first time and Mycena sp. was confirmed as an endophyte of D. flexuosa. Site-specific differences were observed in the abundance and diversity of endophytic fungi in the roots of both study plants, but the differences were not as predominant as those between plant species. It is concluded that D. flexuosa harbors both higher amount and more diverse community of endophytic fungi in its roots compared to T. europaea.
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Affiliation(s)
- Mysore V Tejesvi
- Department of Biology, University of Oulu, P.O. Box 3000, Oulu 90014, Finland.
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Liu JK, Phookamsak R, Doilom M, Wikee S, Li YM, Ariyawansha H, Boonmee S, Chomnunti P, Dai DQ, Bhat JD, Romero AI, Zhuang WY, Monkai J, Jones EBG, Chukeatirote E, Ko Ko TW, Zhao YC, Wang Y, Hyde KD. Towards a natural classification of Botryosphaeriales. FUNGAL DIVERS 2012. [DOI: 10.1007/s13225-012-0207-4] [Citation(s) in RCA: 132] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
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Pimenta RS, da Silva JFM, Buyer JS, Janisiewicz WJ. Endophytic fungi from plums (Prunus domestica) and their antifungal activity against Monilinia fructicola. J Food Prot 2012; 75:1883-9. [PMID: 23043843 DOI: 10.4315/0362-028x.jfp-12-156] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Enophytic fungi were isolated from plum (Prunus domestica) leaves, identified with ITS1 and ITS4 primers, and their antagonistic activity was tested against Monilinia fructicola, which causes brown rot, blossom blight, and twig blight of stone fruits, and Colletotrichum gloeosporioides, which causes anthracnose on a variety of fruit crops. The production of antifungal compounds was determined in agar-diffusion and volatile inverted-plate tests. A total of 163 fungi were recovered from 30 plum trees, representing 22 cultivars. Twenty-nine morphotypes were detected, but only 14 species were identified genetically. The most frequently isolated species was Phaeosphaeria nodorum, constituting 86.5% of the total isolates. Four isolates produced inhibitory volatiles to M. fructicola; however, no isolate produced volatiles inhibitory to C. gloeosporioides. The volatiles produced by these fungi were identified as ethyl acetate, 3-methyl-1-butanol, acetic acid, 2-propyn-1-ol, and 2-propenenitrile. The fungal volatiles inhibited growth and reduced width of the hyphae, and caused disintegration of the hyphal content. This is the first study describing fungal endophytes in stone fruits. The P. nodorum strains producing inhibitory volatiles could play a significant role in reduction of M. fructicola expansion in plum tissues. Potential of these strains for biological control of this pathogen on stone fruits warrants further investigation.
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Affiliation(s)
- Raphael Sanzio Pimenta
- Appalachian Fruit Research Station, U.S. Department of Agriculture, Agricultural Research Service, 2217 Wiltshire Road, Kearneysville, West Virginia 25430, USA
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Rhoden S, Garcia A, Rubin Filho C, Azevedo J, Pamphile J. Phylogenetic diversity of endophytic leaf fungus isolates from the medicinal tree Trichilia elegans (Meliaceae). GENETICS AND MOLECULAR RESEARCH 2012; 11:2513-22. [DOI: 10.4238/2012.june.15.8] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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Liu JK, Phookamsak R, Jones EBG, Zhang Y, Ko-Ko TW, Hu HL, Boonmee S, Doilom M, Chukeatirote E, Bahkali AH, Wang Y, Hyde KD. Astrosphaeriella is polyphyletic, with species in Fissuroma gen. nov., and Neoastrosphaeriella gen. nov. FUNGAL DIVERS 2011. [DOI: 10.1007/s13225-011-0142-9] [Citation(s) in RCA: 62] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Thirunavukkarasu N, Suryanarayanan TS, Girivasan KP, Venkatachalam A, Geetha V, Ravishankar JP, Doble M. Fungal symbionts of marine sponges from Rameswaram, southern India: species composition and bioactive metabolites. FUNGAL DIVERS 2011. [DOI: 10.1007/s13225-011-0137-6] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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