Lipid composition of Collembola and their food resources in deciduous forest stands—Implications for feeding strategies

The lipid composition of Collembola and their potential food resources was assessed in three deciduous forest stands, in order to gain insight into food web linkages under field conditions. Fatty acids (FAs) previously assigned as trophic markers in laboratory experiments were used to investigate feeding strategies in situ. As potential food sources soil microbiota and plant debris were characterised by their phospholipid fatty acid (PLFA) composition. Both the amount and the pattern of PLFAs differed between sites and soil depth, in particular the bacterial and plant marker FAs in the upper soil layer. Thus, the availability of resources for micro-detritivores varied due to forest and soil layer. The lipid composition of vital and senescent beech leaves was predominantly influenced by metabolic status and represented a quite homogenous FA resource across forest stands. Comparing Folsomia quadrioculata, Lepidocyrtus lignorum, Neanura muscorum and Pogonognathellus longicornis between the different forests revealed FA profiles to be predominantly affected by site, suggesting a diet shift depending on resources at hand. However, species-specific differences in individual FAs occurred, likely related to feeding strategy and physiological activity. Lipids of Collembola comprised low amounts of bacterial marker FAs, and bacterial consumption may occur to some extent, particularly on Gram-positives. The marker FA for predatory feeding, 20:1ω9, was found in several species, although in low amounts. This contradicts known feeding habits and caution is advisable in using 20:1ω9 as trophic marker. Overall, as indicated by high proportions of oleic (18:1ω9) or linoleic (18:2ω6,9) acid, most species were either plant litter or fungal feeders, with some transitions. The ratio 18:1ω9/18:2ω6,9 is proposed as a tool to distinguish between these two major feeding strategies in Collembola.     

Identification of rumen microbial biomarkers linked to methane emission in Holstein dairy cows

Mitigation of greenhouse gas emissions is relevant for reducing the environmental impact of ruminant production. In this study, the rumen microbiome from Holstein cows was characterized through a combination of 16S rRNA gene and shotgun metagenomic sequencing. Methane production (CH₄) and dry matter intake (DMI) were individually measured over 4–6 weeks to calculate the CH₄ yield (CH₄y = CH₄/DMI) per cow. We implemented a combination of clustering, multivariate and mixed model analyses to identify a set of operational taxonomic unit (OTU) jointly associated with CH₄y and the structure of ruminal microbial communities. Three ruminotype clusters (R1, R2 and R3) were identified, and R2 was associated with higher CH₄y. The taxonomic composition on R2 had lower abundance of Succinivibrionaceae and Methanosphaera, and higher abundance of Ruminococcaceae, Christensenellaceae and Lachnospiraceae. Metagenomic data confirmed the lower abundance of Succinivibrionaceae and Methanosphaera in R2 and identified genera (Fibrobacter and unclassified Bacteroidales) not highlighted by metataxonomic analysis. In addition, the functional metagenomic analysis revealed that samples classified in cluster R2 were overrepresented by genes coding for KEGG modules associated with methanogenesis, including a significant relative abundance of the methyl-coenzyme M reductase enzyme. Based on the cluster assignment, we applied a sparse partial least-squares discriminant analysis at the taxonomic and functional levels. In addition, we implemented a sPLS regression model using the phenotypic variation of CH₄y. By combining these two approaches, we identified 86 discriminant bacterial OTUs, notably including families linked to CH₄ emission such as Succinivibrionaceae, Ruminococcaceae, Christensenellaceae, Lachnospiraceae and Rikenellaceae. These selected OTUs explained 24% of the CH₄y phenotypic variance, whereas the host genome contribution was ~14%. In summary, we identified rumen microbial biomarkers associated with the methane production of dairy cows; these biomarkers could be used for targeted methane-reduction selection programmes in the dairy cattle industry provided they are heritable.     

Plant-N incorporation into microbial amino sugars as affected by inorganic N addition: A microcosm study of N-labeled maize residue decomposition

Carbon (C) and/or nitrogen (N) in plant residues can be assimilated into microbial biomass during the plant residue decomposition before incorporation into SOM in the form of microbial residues. Yet, microbial transformation of plant residue-N into microbial residues and the effects of inorganic N inputs on this process have not been well documented. Here, we undertook a 38-week incubation with a silt loam soil amended with a ¹⁵N-labeled maize (Zea mays L.) residue to determine how the transformation of maize residue-N into soil amino sugars was affected by rates of inorganic N addition. The newly metabolized amino sugars derived from maize residue-N were differentiated and quantified by using an isotope-based gas chromatography-mass spectrometry technique. We found that greater amounts of maize residue-N were transformed into amino sugars with lower inorganic N addition at the early stages of the plant residue degradation. However, the trend was reversed during later stages of decay as greater percentage of maize residue-N (8.6-9.4%) were enriched in amino sugars in the N_med and N_high soils, as compared with N₀ and N_low (7.5-8.2%). This indicated that higher availability of inorganic N could delay the transformation process of plant-N into microbial residues during the mineralization of plant residues. The dynamic transformations of the plant residue-N into individual amino sugars were compound-specific, with very fast incorporation into bacterial MurA_M-new found during the initial weeks, while the dynamics of maize residue-derived GluN exhibited a delayed response to assimilate plant-N into fungal products. The findings indicated differential contributions of maize residue decomposing microorganisms over time. Moreover, we found no preferential utilization of inorganic N over plant residue-N into amino sugars during the incubation course, but inorganic N inputs altered the rate of plant-N accumulation in microbial-derived organic matters. Our results indicated that higher N availability had a positive impact on the accumulation or stabilization of newly-produced microbial residues in the long term.     

Analysis of respiratory quinones in soil for characterization of microbiota

Method for the analysis of respiratory quinones in soil was developed to characterize soil microbiota. The respiratory quinones were extracted with a mixture of chloroform and methanol using a Wahling blender or a sonicator and cleaned-up by a silicagel column cartridge. The quinone species were determined by reverse-phase high performance liquid chromatography. Spectra of peaks were measured with a photodiode array detector to examine the purity. More than 90% of extractable quinones in soil were recovered by three extractions. The recovery of quinones, added to soil as freeze-dried powder of microorganisms, was higher than 96%. This procedure led to higher representative results as follows. Fluctuations within 95% of cumulative frequency were 13% for the extracted amount of quinones and 20% for the dissimilarity, respectively. The quinone profiles of four soils were determined as follows: a soil from the aerobic layer of a paddy field, an ando soil and two yellow upland soils which had received chemical fertilizers with and without farmyard manure. The quinone profiles displayed clear differences in the microbial composition and in the microbial diversity among the soils. It was demonstrated that the analysis of the respiratory quinone profile was useful to characterize the microbial community structure in soil.     

镉胁迫对碱蓬种子萌发及幼苗生长的影响

为探究镉(Cd)污染对盐碱湿地植被的毒性效应,以盐碱湿地典型植物碱蓬为供试植物,采用溶液培养方法研究了0～300mg·L-1镉胁迫下碱蓬种子萌发特征及幼苗生长特征.结果表明,3 mg· L-1镉胁迫显著提高发芽势、发芽指数、根冠比、幼茎直径、根系直径并降低根系长度(P＜0.05),10 mg·L-1镉胁迫显著提高活力指数、幼茎重量、根系重量并降低根系活力(P＜0.05),30 mg· L-1镉胁迫显著提高发芽率和幼茎长度(P＜0.05).主成分分析结果表明,在第一主成分上碱蓬种子发芽势具有最高的载荷,说明发芽势可以很好地反映镉胁迫下碱蓬的生长状态.碱蓬种子发芽势可以作为一种潜在的生物标志物,在盐碱湿地镉污染监测或表征中具有较大的应用潜力.     

浅谈定向质谱法验证蛋白质生物标记物

特异性生物标记物的发现有益于疾病的早期诊断,促进靶向治疗的发展,并提供精确的治疗反应监控方法。血浆中候选生物标记物的验证过程中的一个主要问题是血浆中蛋白质浓度的动态范围非常广。本文回顾了当前能够在所预期的血浆浓度范围内(如ng/ml浓度水平)量化候选生物标记物的定向蛋白质组学策略。另外,提供了基于定向质谱法,可对大部分候选生物标记蛋白进行快速验证的技术流程。这些公开数据库中的技术对生物标记的验证研究中的处理量具有极大影响潜力。