1
|
Journeaux KL, Boddy L, Rowland L, Hartley IP. A positive feedback to climate change: The effect of temperature on the respiration of key wood-decomposing fungi does not decline with time. GLOBAL CHANGE BIOLOGY 2024; 30:e17212. [PMID: 38450825 DOI: 10.1111/gcb.17212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2023] [Revised: 01/21/2024] [Accepted: 02/05/2024] [Indexed: 03/08/2024]
Abstract
Heterotrophic soil microorganisms are responsible for ~50% of the carbon dioxide released by respiration from the terrestrial biosphere each year. The respiratory response of soil microbial communities to warming, and the control mechanisms, remains uncertain, yet is critical to understanding the future land carbon (C)-climate feedback. Individuals of nine species of fungi decomposing wood were exposed to 90 days of cooling to evaluate the medium-term effect of temperature on respiration. Overall, the effect of temperature on respiration increased in the medium term, with no evidence of compensation. However, the increasing effect of temperature on respiration was lost after correcting for changes in biomass. These results indicate that C loss through respiration of wood-decomposing fungi will increase beyond the direct effects of temperature on respiration, potentially promoting greater C losses from terrestrial ecosystems and a positive feedback to climate change.
Collapse
Affiliation(s)
- Katie L Journeaux
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Exeter, UK
| | - Lynne Boddy
- School of Biosciences, Cardiff University, Cardiff, UK
| | - Lucy Rowland
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Exeter, UK
| | - Iain P Hartley
- Geography, Faculty of Environment, Science and Economy, University of Exeter, Exeter, UK
| |
Collapse
|
2
|
Ma X, Lu L, Yao F, Fang M, Wang P, Meng J, Shao K, Sun X, Zhang Y. High-quality genome assembly and multi-omics analysis of pigment synthesis pathway in Auricularia cornea. Front Microbiol 2023; 14:1211795. [PMID: 37396365 PMCID: PMC10308021 DOI: 10.3389/fmicb.2023.1211795] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 05/22/2023] [Indexed: 07/04/2023] Open
Abstract
Owing to its great market potential for food and health care, white Auricularia cornea, a rare edible fungus, has received increased attention in recent years. This study presents a high-quality genome assembly of A. cornea and multi-omics analysis of its pigment synthesis pathway. Continuous Long Reads libraries, combined with Hi-C-assisted assembly were used to assemble of white A. cornea. Based on this data, we analyzed the transcriptome and metabolome of purple and white strains during the mycelium, primordium, and fruiting body stages. Finally, we obtained the genome of A.cornea assembled from 13 clusters. Comparative and evolutionary analysis suggests that A.cornea is more closely related to Auricularia subglabra than to Auricularia heimuer. The divergence of white/purple A.cornea occurred approximately 40,000 years ago, and there were numerous inversions and translocations between homologous regions of the two genomes. Purple strain synthesized pigment via the shikimate pathway. The pigment in the fruiting body of A. cornea was γ-glutaminyl-3,4-dihydroxy-benzoate. During pigment synthesis, α-D-glucose-1P, citrate, 2-Oxoglutarate, and glutamate were four important intermediate metabolites, whereas polyphenol oxidase and other 20 enzyme genes were the key enzymes. This study sheds light on the genetic blueprint and evolutionary history of the white A.cornea genome, revealing the mechanism of pigment synthesis in A.cornea. It has important theoretical and practical implications for understanding the evolution of basidiomycetes, molecular breeding of white A.cornea, and deciphering the genetic regulations of edible fungi. Additionally, it provides valuable insights for the study of phenotypic traits in other edible fungi.
Collapse
Affiliation(s)
- Xiaoxu Ma
- Lab of Genetic Breeding of Edible Fungi, Horticultural, College of Horticulture, Jilin Agricultural University, Changchun, China
- Guizhou Academy of Agricultural Sciences, Guizhou Key Laboratory of Edible Fungi Breeding, Guiyang, China
| | - Lixin Lu
- Lab of Genetic Breeding of Edible Fungi, Horticultural, College of Horticulture, Jilin Agricultural University, Changchun, China
| | - Fangjie Yao
- Lab of Genetic Breeding of Edible Fungi, Horticultural, College of Horticulture, Jilin Agricultural University, Changchun, China
- Country Engineering Research Centre of Chinese Ministry of Education for Edible and Medicinal Fungi, Jilin Agricultural University, Changchun, China
| | - Ming Fang
- Lab of Genetic Breeding of Edible Fungi, Horticultural, College of Horticulture, Jilin Agricultural University, Changchun, China
| | - Peng Wang
- Economic Plants Research Insitute, Jilin Academy of Agricultural Sciences, Changchun, China
| | - Jingjing Meng
- Lab of Genetic Breeding of Edible Fungi, Horticultural, College of Horticulture, Jilin Agricultural University, Changchun, China
| | - Kaisheng Shao
- Guizhou Academy of Agricultural Sciences, Guizhou Key Laboratory of Edible Fungi Breeding, Guiyang, China
| | - Xu Sun
- Guizhou Academy of Agricultural Sciences, Guizhou Key Laboratory of Edible Fungi Breeding, Guiyang, China
| | - Youmin Zhang
- Lab of Genetic Breeding of Edible Fungi, Horticultural, College of Horticulture, Jilin Agricultural University, Changchun, China
| |
Collapse
|
3
|
Maillard F, Jusino MA, Andrews E, Moran M, Vaziri GJ, Banik MT, Fanin N, Trettin CC, Lindner DL, Schilling JS. Wood-decay type and fungal guild dominance across a North American log transplant experiment. FUNGAL ECOL 2022. [DOI: 10.1016/j.funeco.2022.101151] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
|
4
|
Senanayake IC, Pem D, Rathnayaka AR, Wijesinghe SN, Tibpromma S, Wanasinghe DN, Phookamsak R, Kularathnage ND, Gomdola D, Harishchandra D, Dissanayake LS, Xiang MM, Ekanayaka AH, McKenzie EHC, Hyde KD, Zhang HX, Xie N. Predicting global numbers of teleomorphic ascomycetes. FUNGAL DIVERS 2022. [DOI: 10.1007/s13225-022-00498-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
AbstractSexual reproduction is the basic way to form high genetic diversity and it is beneficial in evolution and speciation of fungi. The global diversity of teleomorphic species in Ascomycota has not been estimated. This paper estimates the species number for sexual ascomycetes based on five different estimation approaches, viz. by numbers of described fungi, by fungus:substrate ratio, by ecological distribution, by meta-DNA barcoding or culture-independent studies and by previous estimates of species in Ascomycota. The assumptions were made with the currently most accepted, “2.2–3.8 million” species estimate and results of previous studies concluding that 90% of the described ascomycetes reproduce sexually. The Catalogue of Life, Species Fungorum and published research were used for data procurement. The average value of teleomorphic species in Ascomycota from all methods is 1.86 million, ranging from 1.37 to 2.56 million. However, only around 83,000 teleomorphic species have been described in Ascomycota and deposited in data repositories. The ratio between described teleomorphic ascomycetes to predicted teleomorphic ascomycetes is 1:22. Therefore, where are the undiscovered teleomorphic ascomycetes? The undescribed species are no doubt to be found in biodiversity hot spots, poorly-studied areas and species complexes. Other poorly studied niches include extremophiles, lichenicolous fungi, human pathogens, marine fungi, and fungicolous fungi. Undescribed species are present in unexamined collections in specimen repositories or incompletely described earlier species. Nomenclatural issues, such as the use of separate names for teleomorph and anamorphs, synonyms, conspecific names, illegitimate and invalid names also affect the number of described species. Interspecies introgression results in new species, while species numbers are reduced by extinctions.
Collapse
|
5
|
Global Diversity and Updated Phylogeny of Auricularia (Auriculariales, Basidiomycota). J Fungi (Basel) 2021; 7:jof7110933. [PMID: 34829220 PMCID: PMC8625027 DOI: 10.3390/jof7110933] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2021] [Revised: 10/26/2021] [Accepted: 10/29/2021] [Indexed: 11/21/2022] Open
Abstract
Auricularia has a worldwide distribution and is very important due to its edibility and medicinal properties. Morphological examinations and multi-gene phylogenetic analyses of 277 samples from 35 countries in Asia, Europe, North and South America, Africa, and Oceania were carried out. Phylogenetic analyses were based on ITS, nLSU, rpb1, and rpb2 sequences using methods of Maximum Likelihood and Bayesian Inference analyses. According to the morphological and/or molecular characters, 37 Auricularia species were identified. Ten new species, A. camposii and A. novozealandica in the A. cornea complex, A. australiana, A. conferta, A. lateralis, A. pilosa and A. sinodelicata in the A. delicata complex, A. africana, A. srilankensis, and A. submesenterica in the A. mesenterica complex, are described. The two known species A. pusio and A. tremellosa, respectively belonging to the A. mesenterica complex and the A. delicata complex, are redefined, while A. angiospermarum, belonging to the A. auricula-judae complex, is validated. The morphological characters, photos, ecological traits, hosts and geographical distributions of those 37 species are outlined and discussed. Morphological differences and phylogenetic relations of species in five Auricularia morphological complexes (the A. auricula-judae, the A. cornea, the A. delicata, the A. fuscosuccinea and the A. mesenterica complexes) are elaborated. Synopsis data on comparisons of species in the five complexes are provided. An identification key for the accepted 37 species is proposed.
Collapse
|
6
|
Chakraborty K, Roy Das A, Saha AK, Das P. A culture based diversity of saprobic fungi associated with leaf litter of Hevea brasiliensis along a chronosequence of plantations in Tripura, Northeast India. Trop Ecol 2020. [DOI: 10.1007/s42965-020-00104-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
7
|
Chen J, Heikkinen J, Hobbie E, Rinne-Garmston K, Penttilä R, Mäkipää R. Strategies of carbon and nitrogen acquisition by saprotrophic and ectomycorrhizal fungi in Finnish boreal Picea abies-dominated forests. Fungal Biol 2019; 123:456-464. [DOI: 10.1016/j.funbio.2019.03.005] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2019] [Accepted: 03/20/2019] [Indexed: 10/27/2022]
|
8
|
Epps MJ, Arnold AE. Quantifying beetle-macrofungal associations in a temperate biodiversity hot spot. Mycologia 2018; 110:269-285. [DOI: 10.1080/00275514.2018.1430439] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Mary Jane Epps
- Department of Ecology and Evolutionary Biology, The University of Arizona, Tucson, Arizona 85721
| | - A. Elizabeth Arnold
- School of Plant Sciences and Department of Ecology and Evolutionary Biology, The University of Arizona, Tucson, Arizona 85721
| |
Collapse
|
9
|
Strukelj M, Brais S, Mazerolle MJ, Paré D, Drapeau P. Decomposition Patterns of Foliar Litter and Deadwood in Managed and Unmanaged Stands: A 13-Year Experiment in Boreal Mixedwoods. Ecosystems 2017. [DOI: 10.1007/s10021-017-0135-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
10
|
Song Z, Kennedy PG, Liew FJ, Schilling JS. Fungal endophytes as priority colonizers initiating wood decomposition. Funct Ecol 2016. [DOI: 10.1111/1365-2435.12735] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Zewei Song
- Department of Plant Pathology University of Minnesota St Paul MN55108 USA
| | - Peter G. Kennedy
- Department of Plant Biology University of Minnesota St Paul MN55108 USA
| | - Feng J. Liew
- Department of Bioproducts & Biosystems Engineering University of Minnesota St Paul MN55108 USA
| | - Jonathan S. Schilling
- Department of Bioproducts & Biosystems Engineering University of Minnesota St Paul MN55108 USA
- Institute on the Environment University of Minnesota St Paul MN55108 USA
| |
Collapse
|
11
|
|
12
|
Hiscox J, Savoury M, Johnston SR, Parfitt D, Müller CT, Rogers HJ, Boddy L. Location, location, location: priority effects in wood decay communities may vary between sites. Environ Microbiol 2016; 18:1954-69. [PMID: 26626102 DOI: 10.1111/1462-2920.13141] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2015] [Revised: 11/17/2015] [Accepted: 11/18/2015] [Indexed: 10/22/2022]
Abstract
Priority effects are known to have a major influence on fungal community development in decomposing wood, but it has not yet been established whether these effects are consistent between different geographical locations. Here, beech (Fagus sylvatica) wood disks that had been pre-colonized with three wood decay basidiomycetes were placed in seven woodland sites with similar characteristics for 12-24 months, and the successor communities profiled using culture-based techniques coupled with amplicon sequencing. On the majority of sites, assembly history differed as a result of primary versus secondary resource capture only (i.e. different communities developed in uncolonized control disks compared with those that had been pre-colonized), but on certain sites distinct successor communities followed each pre-colonizer species. This study provides preliminary evidence that differences in abiotic factors and species pools between sites can cause spatial variation in how priority effects influence wood decay communities.
Collapse
Affiliation(s)
- Jennifer Hiscox
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - Melanie Savoury
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - Sarah R Johnston
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - David Parfitt
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - Carsten T Müller
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - Hilary J Rogers
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| | - Lynne Boddy
- School of Biosciences, Cardiff University, Cardiff, CF10 3AX, UK
| |
Collapse
|
13
|
Prakash C, Thirumalai E, Govinda Rajulu M, Thirunavukkarasu N, Suryanarayanan T. Ecology and diversity of leaf litter fungi during early-stage decomposition in a seasonally dry tropical forest. FUNGAL ECOL 2015. [DOI: 10.1016/j.funeco.2015.05.004] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
|
14
|
Hiscox J, Savoury M, Müller CT, Lindahl BD, Rogers HJ, Boddy L. Priority effects during fungal community establishment in beech wood. THE ISME JOURNAL 2015; 9:2246-60. [PMID: 25798754 PMCID: PMC4579477 DOI: 10.1038/ismej.2015.38] [Citation(s) in RCA: 112] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/31/2014] [Revised: 01/28/2015] [Accepted: 02/06/2015] [Indexed: 11/13/2022]
Abstract
Assembly history of fungal communities has a crucial role in the decomposition of woody resources, and hence nutrient cycling and ecosystem function. However, it has not been clearly determined whether the fungal species that arrive first may, potentially, dictate the subsequent pathway of community development, that is, whether there is a priority effect at the species level. We used traditional culture-based techniques coupled with sequencing of amplified genetic markers to profile the fungal communities in beech (Fagus sylvatica) disks that had been pre-colonised separately with nine species from various stages of fungal succession. Clear differences in community composition were evident following pre-colonisation by different species with three distinct successor communities identified, indicating that individual species may have pivotal effects in driving assembly history. Priority effects may be linked to biochemical alteration of the resource and combative ability of the predecessor.
Collapse
Affiliation(s)
- Jennifer Hiscox
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Cardiff CF10 3AX, UK
| | - Melanie Savoury
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Cardiff CF10 3AX, UK
| | - Carsten T Müller
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Cardiff CF10 3AX, UK
| | - Björn D Lindahl
- Department of Soil and Environment, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Hilary J Rogers
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Cardiff CF10 3AX, UK
| | - Lynne Boddy
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Cardiff CF10 3AX, UK
| |
Collapse
|
15
|
Kellner H, Luis P, Pecyna MJ, Barbi F, Kapturska D, Krüger D, Zak DR, Marmeisse R, Vandenbol M, Hofrichter M. Widespread occurrence of expressed fungal secretory peroxidases in forest soils. PLoS One 2014; 9:e95557. [PMID: 24763280 PMCID: PMC3999038 DOI: 10.1371/journal.pone.0095557] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2013] [Accepted: 03/28/2014] [Indexed: 11/18/2022] Open
Abstract
Fungal secretory peroxidases mediate fundamental ecological functions in the conversion and degradation of plant biomass. Many of these enzymes have strong oxidizing activities towards aromatic compounds and are involved in the degradation of plant cell wall (lignin) and humus. They comprise three major groups: class II peroxidases (including lignin peroxidase, manganese peroxidase, versatile peroxidase and generic peroxidase), dye-decolorizing peroxidases, and heme-thiolate peroxidases (e.g. unspecific/aromatic peroxygenase, chloroperoxidase). Here, we have repeatedly observed a widespread expression of all major peroxidase groups in leaf and needle litter across a range of forest ecosystems (e.g. Fagus, Picea, Acer, Quercus, and Populus spp.), which are widespread in Europe and North America. Manganese peroxidases and unspecific peroxygenases were found expressed in all nine investigated forest sites, and dye-decolorizing peroxidases were observed in five of the nine sites, thereby indicating biological significance of these enzymes for fungal physiology and ecosystem processes. Transcripts of selected secretory peroxidase genes were also analyzed in pure cultures of several litter-decomposing species and other fungi. Using this information, we were able to match, in environmental litter samples, two manganese peroxidase sequences to Mycena galopus and Mycena epipterygia and one unspecific peroxygenase transcript to Mycena galopus, suggesting an important role of this litter- and coarse woody debris-dwelling genus in the disintegration and transformation of litter aromatics and organic matter formation.
Collapse
Affiliation(s)
- Harald Kellner
- Department of Bio- and Environmental Sciences, International Institute Zittau, Technische Universität Dresden, Zittau, Germany
- * E-mail:
| | - Patricia Luis
- Ecologie Microbienne, UMR CNRS 5557, USC INRA 1364, Université de Lyon, Université Lyon 1, Villeurbanne, France
| | - Marek J. Pecyna
- Department of Bio- and Environmental Sciences, International Institute Zittau, Technische Universität Dresden, Zittau, Germany
| | - Florian Barbi
- Ecologie Microbienne, UMR CNRS 5557, USC INRA 1364, Université de Lyon, Université Lyon 1, Villeurbanne, France
| | - Danuta Kapturska
- Department of Bio- and Environmental Sciences, International Institute Zittau, Technische Universität Dresden, Zittau, Germany
- Department of Soil Ecology, UFZ - Helmholtz Center for Environmental Research, Halle/Saale, Germany
| | - Dirk Krüger
- Department of Soil Ecology, UFZ - Helmholtz Center for Environmental Research, Halle/Saale, Germany
| | - Donald R. Zak
- School of Natural Resources and Environment, University of Michigan, Ann Arbor, Michigan, United States of America
| | - Roland Marmeisse
- Ecologie Microbienne, UMR CNRS 5557, USC INRA 1364, Université de Lyon, Université Lyon 1, Villeurbanne, France
| | - Micheline Vandenbol
- Unité de Microbiologie et Génomique, Gembloux Agro-Bio Tech, Université de Liège, Gembloux, Belgium
| | - Martin Hofrichter
- Department of Bio- and Environmental Sciences, International Institute Zittau, Technische Universität Dresden, Zittau, Germany
| |
Collapse
|