黄河三角洲不同类型盐生植物土壤真菌群落结构特征

盐生植物种类及其所具有的不同耐盐调节方式影响着根际微生物群落的结构与组成。为明确不同类型盐生植物根际与非根际土壤中真菌群落结构与组成的差异及其与土壤环境间的相互关系,该研究采集了黄河三角洲地区芦苇、盐地碱蓬、獐毛3种不同类型盐生植物0～20 cm土层的根际和非根际土壤,通过高通量测序对其真菌群落多样性和结构进行了分析,以探究真菌群落特征与土壤理化因子间的关系。结果表明：(1)3种不同类型盐生植物根际土壤真菌群落丰富度显著大于各自非根际土,且獐毛根际土壤真菌群落丰富度显著大于芦苇和盐地碱蓬的根际土。(2)距离热图分析表明,芦苇和盐地碱蓬非根际土壤真菌群落间的相似性最大。(3)土壤真菌多样性和丰富度与土壤总碳、总氮、有效磷、pH呈正相关关系,与土壤盐分含量呈负相关关系。(4)3种不同类型盐生植物的根际与非根际土壤中,球囊菌门(Glomeromycota)均为绝对优势门,盾巨孢囊霉属(Scutellospora)为优势属。(5)RDA分析表明,土壤盐分含量是影响土壤真菌群落结构的重要因子,球囊菌门丰度与土壤总氮、总碳、有效磷、有机碳、pH呈正相关关系,与盐分呈负相关关系。(6)植物土壤真菌群...     

Molecular trait indicators: moving beyond phylogeny in arbuscular mycorrhizal ecology

Arbuscular mycorrhizal (AM) fungi form symbiotic associations with the roots of most plants, thereby mediating nutrient and carbon fluxes, plant performance, and ecosystem dynamics. Although considerable effort has been expended to understand the keystone ecological position of AM symbioses, most studies have been limited in scope to recording organism occurrences and identities, as determined from morphological characters and (mainly) ribosomal sequence markers. In order to overcome these restrictions and circumvent the shortcomings of culture- and phylogeny-based approaches, we propose a shift toward plant and fungal protein-encoding genes as more immediate indicators of mycorrhizal contributions to ecological processes. A number of candidate target genes, involved in the uptake of phosphorus and nitrogen, carbon cycling, and overall metabolic activity, are proposed. We discuss the advantages and disadvantages of future protein-encoding gene marker and current (phylo-) taxonomic approaches for studying the impact of AM fungi on plant growth and ecosystem functioning. Approaches based on protein-encoding genes are expected to open opportunities to advance the mechanistic understanding of ecological roles of mycorrhizas in natural and managed ecosystems.     

Fungal response from oat (Avena sativa) plants and surface residue in relation to soil aggregation and organic carbon

Abstract

The influence of soil fungi on soil organic carbon (OC) from surface residue was tested in outdoor plots in southern Ontario, Canada, 2004. Fungal hyphal length, soil aggregation, OC and light and heavy fractions of organic matter were compared with factors of plant growth (with or without oat [Avena sativa]) and surface residue (no residue, oat straw (low C:N) or corn (Zea mays) stalks (high C:N)) in a factorial arrangement. Significant increases were observed in soil OC from the oat plants, and from corn stalks compared to straw residue, in the growing season with very moist, high OC, sandy soil. In treatments with corn stalk residue, fungal hyphal length was increased with interaction from the oat plants and residue and was positively correlated with the heavy fraction organic matter along with soil OC. Fungal hyphae, plant roots and high C:N residue were all factors in soil OC increases.     

Species abundance distributions and richness estimations in fungal metagenomics--lessons learned from community ecology

Results of diversity and community ecology studies strongly depend on sampling depth. Completely surveyed communities follow log-normal distribution, whereas power law functions best describe incompletely censused communities. It is arguable whether the statistics behind those theories can be applied to voluminous next generation sequencing data in microbiology by treating individual DNA sequences as counts of molecular taxonomic units (MOTUs). This study addresses the suitability of species abundance models in three groups of plant-associated fungal communities - phyllosphere, ectomycorrhizal and arbuscular mycorrhizal fungi. We tested the impact of differential treatment of molecular singletons on observed and estimated species richness and species abundance distribution models. The arbuscular mycorrhizal community of 48 MOTUs was exhaustively sampled and followed log-normal distribution. The ectomycorrhizal (153 MOTUs) and phyllosphere (327 MOTUs) communities significantly differed from log-normal distribution. The fungal phyllosphere community in particular was clearly undersampled. This undersampling bias resulted in strong sensitivity to the exclusion of molecular singletons and other rare MOTUs that may represent technical artefacts. The analysis of abundant (core) and rare (satellite) MOTUs clearly identified two species abundance distributions in the phyllosphere data - a log-normal model for the core group and a log-series model for the satellite group. The prominent log-series distribution of satellite phyllosphere fungi highlighted the ecological significance of an infrequent fungal component in the phyllosphere community.     

两个海拔亚高山粗枝云杉林土壤真菌群落差异及其驱动因素

土壤真菌对维持植物地上生物量具有重要作用,植物也会通过根系分泌物等调控土壤真菌群落组成,然而,人们对森林树种影响土壤真菌及其功能群落组成和多样性的认识仍不足。选择川西亚高山两种海拔(2900 m和3200 m)下年龄相似的粗枝云杉(Picea asperata)天然林为研究对象,采集粗枝云杉根际、非根际及空地土壤,采用高通量测序技术和FUNGuild数据库比对,分析土壤真菌及其功能真菌群落的组成和多样性变化。结果表明,土壤真菌及其功能真菌群落的组成和多样性在3个土壤取样位置间差异不显著,但在2个海拔之间具有显著差异,例如,海拔2900 m和3200 m土壤的优势真菌分别为蜡壳耳属(Sebacina)和红菇属(Russula)。对于真菌功能群落α多样性,发现外生菌根(ECM)真菌群落的ACE指数在2900 m海拔处显著高于3200 m海拔,而植物病原真菌的ACE指数和Shannon指数恰好相反,土壤真菌及其腐生真菌群落的α多样性指数在不同海拔间无显著差异。进一步通过网络分析发现,两个海拔之间土壤真菌群落的相互关系和核心菌群明显不同,其中3200m海拔的土壤真菌群落表现出更明显的负相关性。另外,影响土壤真菌及其功能群落的关键因子也不相同,土壤真菌和腐生真菌群落主要受pH影响,而外生菌根真菌和植物病原真菌群落分别受到土壤含水量和全氮的影响。本研究有助于深入理解森林生态系统的地下微生物学机制,为森林保护和恢复提供科学依据。     

Fungal and plant gene expression in arbuscular mycorrhizal symbiosis

Arbuscular mycorrhizas (AMs) are a unique example of symbiosis between two eukaryotes, soil fungi and plants. This association induces important physiological changes in each partner that lead to reciprocal benefits, mainly in nutrient supply. The symbiosis results from modifications in plant and fungal cell organization caused by specific changes in gene expression. Recently, much effort has gone into studying these gene expression patterns to identify a wider spectrum of genes involved. We aim in this review to describe AM symbiosis in terms of current knowledge on plant and fungal gene expression profiles.An erratum to this article can be found at     

Biodelignification of wheat straw by different fungal associations

Seven strains of fungi were tested individually as well as in different combinations to determine their lignin degrading ability using wheat straw as natural substrate. When tested individuallyPhanerochaete chrysosporium caused a maximum loss in total organic matter (26.45%) as well as in the lignin component (28.93%). The associations between different groups: white-rot plus white-rot, white-rot plus brown-rot and white-rot plus soft-rot fungi revealed that in certain combinations the ligninolysis was enhanced to variable extent.Deadalea flavida plusP. chrysosporium was the best association to bring about a lignin loss of 36.27%.     

Integrating information from existing databases for enhanced function annotation of genes, genomes and networks

Uncovering functional associations for genes and gene products remains one of the most significant challenges in biology. The classical approaches, such as homology detection, are mainly suited for predicting approximate molecular function of a protein and should be used in context with other methods. Several studies have emerged that employ knowledge-based procedures to extract functional data for genes from a variety of biological sources. However, data derived from a single biological resource often provides only a limited perspective on their functional associations largely due to systematic bias in the underlying data. The post-genomic era has witnessed the emergence of knowledge-based studies that aim to decipher functional associations by combining several biological evidence types. These are expected to provide better insights into the functional aspects of diverse genes, genomes and networks.