Preface

Biological properties of soil are not only essential for the maintenance of soil fertility and the sustainability of the plant-soil ecosystems, but also indicators of land reclamation of contaminated or disturbed soils. This experiment involves two plants (barley and field pea) growing in four soils with different hydrocarbon contents. The objective was to study the effect of hydrocarbons on plant growth and microbial activity, and to evaluate the acid phosphatase activity as an indicator of reclamation of hydrocarbon-contaminated soils. Barley root mass decreased with the increase of the hydrocarbon content but field pea roots were not sensitive to the hydrocarbon content in this experiment. The hydrocarbon contamination reduced the plant growth but increased the microbial activity. The acid phosphatase activity was controlled by both plant root production and microbial activity, therefore it was not a good indicator of the reclamation of oil-contaminated soils.     

Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions

1. Download : Download high-res image (236KB)
2. Download : Download full-size image

     

Optimal Management of Two-Species Bioeconomics Systems

1IntroductionOptimalmanagementofsystemsofrenewableresourcesisanimportantbranchofMathemati-calEcology.Theoptimalmanagementofbiologicalspecies,asatypicalrepresentativeoftheopti-malmanagementofrenewableresourcesisbeingattachedmuchmoreinportancebyBioeconomistandbecameanindependentbranchinthe1980's.C.W.ClarkandR.W.Mcklvey,etc,didalotofresearchworkinthisfield.Themajorcharacteristicoftheoptimalmanagementofbioeconomicsystemistooptimizetheharvestrevenueonthebasisofecologicalbalance(e.g.,permanentex…     

模拟根系分泌物输入对高寒退化草地土壤微生物残体的影响

微生物残体是稳定土壤碳库的重要来源，对退化生境碳的固持和积累具有重要意义。植物根系分泌物作为植物-土壤-微生物"交流"的媒介，是调控土壤微生物残体迁移转化的关键。因此，以极度退化草地土壤为对象，以氨基糖为标志物，模拟研究了不同氮浓度（低氮-LN：0.1 gN/kg；高氮-HN：0.2 gN/kg）和多样性（3种化合物、9种化合物）根系分泌物输入对土壤微生物残体的影响。结果表明：（1）根系分泌物输入可显著增加高寒退化草地土壤微生物残体含量，且主要由真菌残体贡献。其中高氮和低多样性处理增加最明显，微生物残体和真菌残体分别增加了101.14%，125.16%，而低氮和高多样性处理微生物残体和真菌残体仅增加了35.79%，33.51%。（2）根系分泌物的输入可增加土壤β-葡萄糖苷酶、土壤磷酸酶和过氧化物酶活性，促进微生物的生长，而降低β-N-乙酰氨基葡萄糖苷酶活性，减少微生物残体的分解。（3）回归分析结果显示，土壤微生物残体与土壤环境的C/N呈显著负相关，与微生物生物量C/N呈显著正相关。上述结果表明，在未来退化草地恢复中，可充分利用模拟根系分泌物输入的土壤固碳策略，即通过提高土壤氮的有效性，促进微生物的生长，加快代谢周转，进一步提高微生物残体含量。     

Quantitative Metaproteomics and Activity-based Protein Profiling of Patient Fecal Microbiome Identifies Host and Microbial Serine-type Endopeptidase Activity Associated With Ulcerative Colitis

The gut microbiota plays an important yet incompletely understood role in the induction and propagation of ulcerative colitis (UC). Organism-level efforts to identify UC-associated microbes have revealed the importance of community structure, but less is known about the molecular effectors of disease. We performed 16S rRNA gene sequencing in parallel with label-free data-dependent LC-MS/MS proteomics to characterize the stool microbiomes of healthy (n = 8) and UC (n = 10) patients. Comparisons of taxonomic composition between techniques revealed major differences in community structure partially attributable to the additional detection of host, fungal, viral, and food peptides by metaproteomics. Differential expression analysis of metaproteomic data identified 176 significantly enriched protein groups between healthy and UC patients. Gene ontology analysis revealed several enriched functions with serine-type endopeptidase activity overrepresented in UC patients. Using a biotinylated fluorophosphonate probe and streptavidin-based enrichment, we show that serine endopeptidases are active in patient fecal samples and that additional putative serine hydrolases are detectable by this approach compared with unenriched profiling. Finally, as metaproteomic databases expand, they are expected to asymptotically approach completeness. Using ComPIL and de novo peptide sequencing, we estimate the size of the probable peptide space unidentified (“dark peptidome”) by our large database approach to establish a rough benchmark for database sufficiency. Despite high variability inherent in patient samples, our analysis yielded a catalog of differentially enriched proteins between healthy and UC fecal proteomes. This catalog provides a clinically relevant jumping-off point for further molecular-level studies aimed at identifying the microbial underpinnings of UC.     

Aeromonas hydrophila strains as biocatalysts for transglycosylation

Abstract

Microbial transglycosylation is useful as a green alternative in the preparation of purine nucleosides and analogues, especially for those that display pharmacological activities. In a search for new transglycosylation biocatalysts, two Aeromonas hydrophila strains were selected. The substrate specificity of both micro-organisms was studied and, as a result, several nucleoside analogues have been prepared. Among them, ribavirin, a broad spectrum antiviral, and the well-known anti HIV didanosine, were prepared, in 77 and 62% yield using A. hydrophila CECT 4226 and A. hydrophila CECT 4221, respectively. In order to scale-up the processes, the reaction conditions, product purification and biocatalyst preparation were analyzed and optimized.     

Movements,status, access to nectar,and spatial organisation of the tui

Abstract

Movements of tui (Prosthetnadera novaeseelandiae) breeding on Tiritiri Matangi Island were followed and related to changes in nectar access. The island has limited nectar sources and birds must move to gain access to nectar year round. All tui leave the island, although the extent and timing of movement varies for different individuals. Tui return for breeding but again the timing of the return varies for individuals. Nectar sources were typically concentrated in both time and space, and access was related to individual asymmetries such as sex, residential status and age. These same asymmetries also relate to the timing of individuals movements, and where individuals nest relative to nectar sources. At concentrated food sources, access was determined by an absolute social hierarchy. Although tui defend exclusive feeding territories, breeding territories are not exclusive and access to nectar is determined by distance to nest site. Such variability in spatial organisation is related to a continuum concept of social organisation.