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Yang J, Yun J, Liu X, Du W, Xiang M. Niche and ecosystem preference of earliest diverging fungi in soils. Mycology 2023; 14:239-255. [PMID: 37583459 PMCID: PMC10424602 DOI: 10.1080/21501203.2023.2237047] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Accepted: 07/11/2023] [Indexed: 08/17/2023] Open
Abstract
Within the supergroup Rotosphaeromycetes, or "Holomycota"/"Nucletmycea", there are several well-recognised unicellular clades in the earliest diverging fungi (EDF). However, we know little about their occurrence. Here, we investigated EDF in the rhizosphere and bulk soils from cropland, forest, orchard, and wetland ecosystems around the Beijing-Hebei area, China, to illustrate their niche and ecosystem preference. More than 500 new operational taxonomic units (OTUs) of EDF were detected based on the 18S rRNA genes. Microsporida and Aphelida constitute dominant groups, whereas Rozellosporida was quite rare. Although the EDF community was site-specific, the soil chemical characteristics, vegetation, and other eukaryotic microorganisms were the key factors driving the occurrence of EDF. Moreover, the stochastic process consisted the most of the EDF community assembly.
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Affiliation(s)
- Jiarui Yang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of the Chinese Academy of Sciences, Beijing, China
| | - Juanli Yun
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi’an, China
| | - Xingzhong Liu
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of the Chinese Academy of Sciences, Beijing, China
- Department of Microbiology, College of Life Sciences, Nankai University, Tianjin, China
| | - Wenbin Du
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- School of Environmental Science and Engineering, Shaanxi University of Science and Technology, Xi’an, China
| | - Meichun Xiang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences, University of the Chinese Academy of Sciences, Beijing, China
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2
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Wang N, Fu Q, Zhou Z, Shao Y, Wang J, Li W, Ye Y, Chen Y, Yuan Z. Humus microhabitat affects distributions of soil fungi and bacteria in a temperate mountain forest. Ecol Evol 2021. [DOI: 10.1002/ece3.7759] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Affiliation(s)
- Nan Wang
- College of Life Sciences Henan Agricultural University Zhengzhou China
| | - Qiang Fu
- College of Forestry Henan Agricultural University Zhengzhou China
| | - Ziyu Zhou
- College of Life Sciences Henan Agricultural University Zhengzhou China
| | - Yizhen Shao
- College of Life Sciences Henan Agricultural University Zhengzhou China
| | - Jing Wang
- Henan Academy of Forestry Sciences Zhengzhou China
- Field Scientific Observation and Research Station of Forest Ecosystem in the North‐South Transition Zone of Funiu Mountain Zhengzhou China
| | - Wang Li
- Section for Ecoinformatics and Biodiversity Department of Biology Aarhus University Aarhus C Denmark
- State Key Laboratory of Remote Sensing Science Aerospace Information Research Institute Chinese Academy of Sciences Beijing China
| | - Yongzhong Ye
- College of Life Sciences Henan Agricultural University Zhengzhou China
| | - Yun Chen
- College of Life Sciences Henan Agricultural University Zhengzhou China
| | - Zhiliang Yuan
- College of Life Sciences Henan Agricultural University Zhengzhou China
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3
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Fiore-Donno AM, Richter-Heitmann T, Bonkowski M. Contrasting Responses of Protistan Plant Parasites and Phagotrophs to Ecosystems, Land Management and Soil Properties. Front Microbiol 2020; 11:1823. [PMID: 32849427 PMCID: PMC7422690 DOI: 10.3389/fmicb.2020.01823] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Accepted: 07/10/2020] [Indexed: 11/13/2022] Open
Abstract
Functional traits are increasingly used in ecology to link the structure of microbial communities to ecosystem processes. We investigated two important protistan lineages, Cercozoa and Endomyxa (Rhizaria) in soil using Illumina sequencing and analyzed their diversity and functional traits along with their responses to environmental factors in grassland and forest across Germany. From 600 soil samples, we obtained 2,101 Operational Taxonomic Units representing ∼18 million Illumina reads (region V4, 18S rRNA gene). All major taxonomic and functional groups were present, dominated by small bacterivorous flagellates (Glissomonadida). Endomyxan plant parasites were absent from forests. In grassland, Cercozoa and Endomyxa were promoted by more intensive land use management. Grassland and forest strikingly differed in community composition. Relative abundances of bacterivores and eukaryvores were inversely influenced by environmental factors. These patterns provide new insights into the functional organization of soil biota and indications for a more sustainable land-use management.
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Affiliation(s)
- Anna Maria Fiore-Donno
- Terrestrial Ecology Group, Institute of Zoology, University of Cologne, Cologne, Germany.,Cluster of Excellence on Plant Sciences (CEPLAS), Cologne, Germany
| | - Tim Richter-Heitmann
- Microbial Ecophysiology Group, Faculty of Biology/Chemistry, University of Bremen, Bremen, Germany
| | - Michael Bonkowski
- Terrestrial Ecology Group, Institute of Zoology, University of Cologne, Cologne, Germany.,Cluster of Excellence on Plant Sciences (CEPLAS), Cologne, Germany
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4
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Zhao H, Li X, Zhang Z, Yang J, Zhao Y, Yang Z, Hu Q. Effects of natural vegetative restoration on soil fungal and bacterial communities in bare patches of the southern Taihang Mountains. Ecol Evol 2019; 9:10432-10441. [PMID: 31624558 PMCID: PMC6787810 DOI: 10.1002/ece3.5564] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Revised: 07/25/2019] [Accepted: 07/26/2019] [Indexed: 11/25/2022] Open
Abstract
Understanding the distribution and composition of soil microbes in bare patches is a critical step to improving ecological remediation. The effects of different vegetative restoration types on soil microbes within semi-arid bare patches remain unclear. Here, we evaluated the distribution of soil fungi and bacteria among different ecological restoration types at the southern Taihang Mountains. Analysis of variance showed that the chemical properties of soil with vegetation cover have higher nutrient quality than those of the exposed soil. The results also suggested that vegetative restoration significantly improved the diversity and the richness of the soil fungal and bacterial communities. Sequencing results showed that Ascomycota and Basidiomycota were the main soil fungal communities, whereas Proteobacteria, Acidobacteria, and Actinobacteria were the main soil bacterial communities. There were significant relationships between the contents of moisture, organic matter and organic carbon and the soil fungal/bacterial communities. Venn and network diagrams indicated that the vegetative restoration types largely influenced the soil fungi and weakly influenced the soil bacteria in the bare patches. This study discusses the importance of vegetative restoration in the ecological remediation of bare patches. These findings provide effective references for soil restorative measures, water conservation, and bare-spot reduction at the southern Taihang Mountains in future.
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Affiliation(s)
- He Zhao
- College of ForestryHenan Agricultural UniversityZhengzhouChina
| | - Xuanzhen Li
- College of ForestryHenan Agricultural UniversityZhengzhouChina
| | - Zhiming Zhang
- College of ForestryHenan Agricultural UniversityZhengzhouChina
| | - JianTao Yang
- College of ForestryHenan Agricultural UniversityZhengzhouChina
| | - Yong Zhao
- College of ForestryHenan Agricultural UniversityZhengzhouChina
| | - Zi Yang
- College of ForestryHenan Agricultural UniversityZhengzhouChina
| | - Qili Hu
- College of ForestryHenan Agricultural UniversityZhengzhouChina
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5
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Deng J, Zhang Y, Yin Y, Zhu X, Zhu W, Zhou Y. Comparison of soil bacterial community and functional characteristics following afforestation in the semi-arid areas. PeerJ 2019; 7:e7141. [PMID: 31275750 PMCID: PMC6598672 DOI: 10.7717/peerj.7141] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2019] [Accepted: 05/17/2019] [Indexed: 01/08/2023] Open
Abstract
Changes in soil bacterial communities, which are crucial for the assessment of ecological restoration in Chinese plantations, have never been studied in the "Three North Shelterbelt" project in the semi-arid areas. We used high-throughput sequencing of the 16S rDNA gene to investigate the soil bacterial community diversity, structure, and functional characteristics in three plantation forests, including Populus × canadensis Moench (PC), Pinus sylvestris var. mongolica (PS), and Pinus tabuliformis (PT). In addition, soil environment factors were measured. There were distinct differences in soil characteristics among different plantation forests. Compared to PS and PT, PC had a higher soil pH, dissolved organic carbon (DOC), and available P, as well as a lower C/N ratio. Furthermore, afforestation with different tree species significantly altered the abundance of Proteobacteria, and Chloroflexi in the soil, and its influence on the bacterial diversity indices. The bacterial community compositions and functional groups related to C and N cycling from PS, and PT were grouped tightly, indicating that the soil bacterial phylogenetic distance of PS and PT were closer than that between PS plus PT and PC. Our results implied that the soil characteristics, as well as the diversity, compositions and functions related to C and N cycling of soil bacterial community obviously differed from the following afforestation, especially between PC and PS plus PT, which in turn enormously established the correlation between the soil microbial community characteristics and the afforestation tree species.
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Affiliation(s)
- Jiaojiao Deng
- College of Forestry, Shenyang Agriculture University, Shenyang, China.,Research Station of Liaohe-River Plain Forest Ecosystem, Chinese Forest Ecosystem Research Network (CFERN), Shenyang Agricultural University, Tieling, China
| | - Yan Zhang
- College of Forestry, Shenyang Agriculture University, Shenyang, China.,Research Station of Liaohe-River Plain Forest Ecosystem, Chinese Forest Ecosystem Research Network (CFERN), Shenyang Agricultural University, Tieling, China
| | - You Yin
- College of Forestry, Shenyang Agriculture University, Shenyang, China.,Research Station of Liaohe-River Plain Forest Ecosystem, Chinese Forest Ecosystem Research Network (CFERN), Shenyang Agricultural University, Tieling, China
| | - Xu Zhu
- LliaoNing JianZhu Vocational College, Liaoyang, China
| | - Wenxu Zhu
- College of Forestry, Shenyang Agriculture University, Shenyang, China.,Research Station of Liaohe-River Plain Forest Ecosystem, Chinese Forest Ecosystem Research Network (CFERN), Shenyang Agricultural University, Tieling, China
| | - Yongbin Zhou
- College of Forestry, Shenyang Agriculture University, Shenyang, China.,Research Station of Liaohe-River Plain Forest Ecosystem, Chinese Forest Ecosystem Research Network (CFERN), Shenyang Agricultural University, Tieling, China
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