Wageningen University and Research Centre

About: Wageningen University and Research Centre is a education organization based out in Wageningen, Netherlands. It is known for research contribution in the topics: Population & Sustainability. The organization has 23474 authors who have published 54833 publications receiving 2608897 citations.

Bifidobacterial Diversity in Human Feces Detected by Genus-Specific PCR and Denaturing Gradient Gel Electrophoresis

Abstract: We describe the development and validation of a method for the qualitative analysis of complex bifidobacterial communities based on PCR and denaturing gradient gel electrophoresis (DGGE). Bifidobacterium genus-specific primers were used to amplify an approximately 520-bp fragment from the 16S ribosomal DNA (rDNA), and the fragments were separated in a sequence-specific manner in DGGE. PCR products of the same length from different bifidobacterial species showed good separation upon DGGE. DGGE of fecal 16S rDNA amplicons from five adult individuals showed host-specific populations of bifidobacteria that were stable over a period of 4 weeks. Sequencing of fecal amplicons resulted in Bifidobacterium-like sequences, confirming that the profiles indeed represent the bifidobacterial population of feces. Bifidobacterium adolescentis was found to be the most common species in feces of the human adult subjects in this study. The methodological approach revealed intragenomic 16S rDNA heterogeneity in the type strain of B. adolescentis, E-981074. The strain was found to harbor five copies of 16S rDNA, two of which were sequenced. The two 16S rDNA sequences of B. adolescentis E-981074T exhibited microheterogeneity differing in eight positions over almost the total length of the gene.

Mucin-bacterial interactions in the human oral cavity and digestive tract

Abstract: Mucins are a family of heavily glycosylated proteins that are the major organic components of the mucus layer, the protective layer covering the epithelial cells in many human and animal organs, including the entire gastro-intestinal tract. Microbes that can associate with mucins benefit from this interaction since they can get available nutrients, experience physico-chemical protection and adhere, resulting in increased residence time. Mucin-degrading microorganisms, which often are found in consortia, have not been extensively characterized as mucins are high molecular weight glycoproteins that are hard to study because of their size, complexity and heterogeneity. The purpose of this review is to discuss how advances in mucus and mucin research, and insight in the microbial ecology promoted our understanding of mucin degradation. Recent insight is presented in mucin structure and organization, the microorganisms known to use mucin as growth substrate, with a specific attention on Akkermansia muciniphila, and the molecular basis of microbial mucin degradation owing to availability of genome sequences.

Analysis of engineered nanomaterials in complex matrices (environment and biota): General considerations and conceptual case studies

Abstract: Advances in the study of the environmental fate, transport, and ecotoxicological effects of engineered nanomaterials (ENMs) have been hampered by a lack of adequate techniques for the detection and quantification of ENMs at environmentally relevant concentrations in complex media. Analysis of ENMs differs from traditional chemical analysis because both chemical and physical forms must be considered. Because ENMs are present as colloidal systems, their physicochemical properties are dependent on their surroundings. Therefore, the simple act of trying to isolate, observe, and quantify ENMs may change their physicochemical properties, making analysis extremely susceptible to artifacts. Many analytical techniques applied in materials science and other chemical/biological/physical disciplines may be applied to ENM analysis as well; however, environmental and biological studies may require that methods be adapted to work at low concentrations in complex matrices. The most pressing research needs are the development of techniques for extraction, cleanup, separation, and sample storage that introduce minimal artifacts to increase the speed, sensitivity, and specificity of analytical techniques, as well as the development of techniques that can differentiate between abundant, naturally occurring particles, and manufactured nanoparticles.

Genomics and the challenging translation into conservation practice

Abstract: The global loss of biodiversity continues at an alarming rate. Genomic approaches have been suggested as a promising tool for conservation practice as scaling up to genome-wide data can improve traditional conservation genetic inferences and provide qualitatively novel insights. However, the generation of genomic data and subsequent analyses and interpretations remain challenging and largely confined to academic research in ecology and evolution. This generates a gap between basic research and applicable solutions for conservation managers faced with multifaceted problems. Before the real-world conservation potential of genomic research can be realized, we suggest that current infrastructures need to be modified, methods must mature, analytical pipelines need to be developed, and successful case studies must be disseminated to practitioners.