Schmidt, Marcus

[["dc.bibliographiccitation.artnumber","1519"],["dc.bibliographiccitation.journal","Frontiers in Microbiology"],["dc.bibliographiccitation.volume","10"],["dc.contributor.author","Dukunde, Amélie"],["dc.contributor.author","Schneider, Dominik"],["dc.contributor.author","Schmidt, Marcus"],["dc.contributor.author","Veldkamp, Edzo"],["dc.contributor.author","Daniel, Rolf"],["dc.date.accessioned","2019-07-12T07:24:37Z"],["dc.date.available","2019-07-12T07:24:37Z"],["dc.date.issued","2019"],["dc.description.abstract","Amplicon-based analysis of 16S rRNA genes and transcripts was used to assess the effect of tree species composition on soil bacterial community structure and function in a temperate deciduous forest. Samples were collected from mono and mixed stands of Fagus sylvatica (beech), Carpinus betulus (hornbeam), Tilia sp. (lime), and Quercus sp. (oak) in spring, summer, and autumn. Soil bacterial community exhibited similar taxonomic composition at total (DNA-based) and potentially active community (RNA-based) level, with fewer taxa present at active community level. Members of Rhizobiales dominated at both total and active bacterial community level, followed by members of Acidobacteriales, Solibacterales, Rhodospirillales, and Xanthomonadales. Bacterial communities at total and active community level showed a significant positive correlation with tree species identity (mono stands) and to a lesser extent with tree species richness (mixed stands). Approximately 58 and 64% of indicator operational taxonomic units (OTUs) showed significant association with only one mono stand at total and active community level, respectively, indicating a strong impact of tree species on soil bacterial community composition. Soil C/N ratio, pH, and P content similarly exhibited a significant positive correlation with soil bacterial communities, which was attributed to direct and indirect effects of forest stands. Seasonality was the strongest driver of predicted metabolic functions related to C fixation and degradation, and N metabolism. Carbon and nitrogen metabolic processes were significantly abundant in spring, while C degradation gene abundances increased from summer to autumn, corresponding to increased litterfall and decomposition. The results revealed that in a spatially homogenous forest soil, tree species diversity and richness are dominant drivers of structure and composition in soil bacterial communities."],["dc.identifier.doi","10.3389/fmicb.2019.01519"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/16269"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/61470"],["dc.language.iso","en"],["dc.relation.issn","1664-302X"],["dc.title","Tree Species Shape Soil Bacterial Community Structure and Function in Temperate Deciduous Forests"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Cytogenetic and Genome Research"],["dc.bibliographiccitation.lastpage","6"],["dc.bibliographiccitation.volume","142"],["dc.contributor.author","Bierhals, Tatjana"],["dc.contributor.author","Kortuem, Fanny"],["dc.contributor.author","Bartels, I."],["dc.contributor.author","Liehr, Thomas"],["dc.contributor.author","Burfeind, Peter"],["dc.contributor.author","Shoukier, Moneef"],["dc.contributor.author","Frank, Vivian"],["dc.contributor.author","Bergmann, C."],["dc.contributor.author","Kutsche, Kerstin"],["dc.contributor.author","Schmidt, T."],["dc.date.accessioned","2018-11-07T09:47:05Z"],["dc.date.available","2018-11-07T09:47:05Z"],["dc.date.issued","2013-10-11"],["dc.description.abstract","Branchio-oto-renal (BOR) syndrome is an autosomal dominantly inherited developmental disorder, which is characterized by anomalies of the ears, the branchial arches and the kidneys. It is caused by mutations in the genes EYA1, SIX1 and SIX5. Genomic rearrangements of chromosome 8 affecting the EYA1 gene have also been described. Owing to this fact, methods for the identification of abnormal copy numbers such as multiplex ligation-dependent probe amplification (MLPA) have been introduced as routine laboratory techniques for molecular diagnostics of BOR syndrome. The advantages of these techniques are clear compared to standard cytogenetic and array approaches as well as Southern blot. MLPA detects deletions or duplications of a part or the entire gene of interest, but not balanced structural aberrations such as inversions and translocations. Consequently, disruption of a gene by a genomic rearrangement may escape detection by a molecular genetic analysis, although this gene interruption results in haploinsufficiency and, therefore, causes the disease. In a patient with clinical features of BOR syndrome, such as hearing loss, preauricular fistulas and facial dysmorphisms, but no renal anomalies, neither sequencing of the 3 genes linked to BOR syndrome nor array comparative genomic hybridization and MLPA were able to uncover a causative mutation. By routine cytogenetic analysis, we finally identified a pericentric inversion of chromosome 8 in the affected female. High-resolution multicolor banding confirmed the chromosome 8 inversion and narrowed down the karyotype to 46,XX,inv(8)(p22q13). By applying fluorescence in situ hybridization, we narrowed down both breakpoints on chromosome 8 and found the EYA1 gene in q13.3 to be directly disrupted. We conclude that standard karyotyping should not be neglected in the genetic diagnostics of BOR syndrome or other Mendelian disorders, particularly when molecular testing failed to detect any causative alteration in patients with a convincing phenotype. (C) 2013 S. Karger AG, Basel"],["dc.description.sponsorship","Deutsche Forschungsgemeinschaft [KU 1240/6-1]"],["dc.identifier.doi","10.1159/000355436"],["dc.identifier.isi","000329056600001"],["dc.identifier.pmid","24135068"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/10819"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/35029"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","S. Karger AG"],["dc.relation.eissn","1424-859X"],["dc.relation.issn","1424-859X"],["dc.relation.issn","1424-8581"],["dc.rights","Goescholar"],["dc.rights.uri","https://goescholar.uni-goettingen.de/licenses"],["dc.title","Branchio-Otic Syndrome Caused by a Genomic Rearrangement: Clinical Findings and Molecular Cytogenetic Studies in a Patient with a Pericentric Inversion of Chromosome 8"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.journal","Frontiers in Microbiology"],["dc.bibliographiccitation.volume","10"],["dc.contributor.author","Beule, Lukas"],["dc.contributor.author","Lehtsaar, Ena"],["dc.contributor.author","Corre, Marife D."],["dc.contributor.author","Schmidt, Marcus"],["dc.contributor.author","Veldkamp, Edzo"],["dc.contributor.author","Karlovsky, Petr"],["dc.date.accessioned","2020-12-10T18:44:28Z"],["dc.date.available","2020-12-10T18:44:28Z"],["dc.date.issued","2020"],["dc.description.abstract","Agroforestry, which is the integration of trees into monoculture cropland, can alter soil properties and nutrient cycling. Temperate agroforestry practices have been shown to affect soil microbial communities as indicated by changes in enzyme activities, substrate-induced respiration, and microbial biomass. Research exploring soil microbial communities in temperate agroforestry with the help of molecular tools which allow for the quantification of microbial taxa and selected genes is scarce. Here, we quantified 13 taxonomic groups of microorganisms and nine genes involved in N cycling (N2 fixation, nitrification, and denitrification) in soils of three paired temperate agroforestry and conventional monoculture croplands using real-time PCR. The agroforestry croplands were poplar-based alley-cropping systems in which samples were collected in the tree rows as well as within the crop rows at three distances from the tree rows. The abundance of Acidobacteria, Actinobacteria, Alpha- and Gammaproteobacteria, Firmicutes, and Verrucomicrobia increased in the vicinity of poplar trees, which may be accounted for by the presence of persistent poplar roots as well as by the input of tree litter. The strongest population increase was observed for Basidiomycota, which was likely related to high soil moisture, the accumulation of tree litter, and the absence of tillage in the tree rows. Soil microorganisms carrying denitrification genes were more abundant in the tree rows than in the crop rows and monoculture systems, suggesting a greater potential for nitrate removal through denitrification, which may reduce nitrate leaching. Since microbial communities are involved in critical soil processes, we expect that the combination of real-time PCR with soil process measurements will greatly enhance insights into the microbial control of important soil functions in agroforestry systems."],["dc.identifier.doi","10.3389/fmicb.2019.03108"],["dc.identifier.eissn","1664-302X"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/17329"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/78469"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.publisher","Frontiers Media S.A."],["dc.relation.eissn","1664-302X"],["dc.rights","http://creativecommons.org/licenses/by/4.0/"],["dc.title","Poplar Rows in Temperate Agroforestry Croplands Promote Bacteria, Fungi, and Denitrification Genes in Soils"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","e0218779"],["dc.bibliographiccitation.issue","6"],["dc.bibliographiccitation.journal","PLOS ONE"],["dc.bibliographiccitation.volume","14"],["dc.contributor.author","Beule, Lukas"],["dc.contributor.author","Corre, Marife D."],["dc.contributor.author","Schmidt, Marcus"],["dc.contributor.author","Göbel, Leonie"],["dc.contributor.author","Veldkamp, Edzo"],["dc.contributor.author","Karlovsky, Petr"],["dc.date.accessioned","2019-07-09T11:51:50Z"],["dc.date.available","2019-07-09T11:51:50Z"],["dc.date.issued","2019"],["dc.description.abstract","Integration of trees in agroforestry systems can increase the system sustainability compared to monocultures. The resulting increase in system complexity is likely to affect soil-N cycling by altering soil microbial community structure and functions. Our study aimed to assess the abundance of genes encoding enzymes involved in soil-N cycling in paired monoculture and agroforestry cropland in a Phaeozem soil, and paired open grassland and agroforestry grassland in Histosol and Anthrosol soils. The soil fungi-to-bacteria ratio was greater in the tree row than in the crop or grass rows of the monoculture cropland and open grassland in all soil types, possibly due to increased input of tree residues and the absence of tillage in the Phaeozem (cropland) soil. In the Phaeozem (cropland) soil, gene abundances of amoA indicated a niche differentiation between archaeal and bacterial ammonia oxidizers that distinctly separated the influence of the tree row from the crop row and monoculture system. Abundances of nitrate (napA and narG), nitrite (nirK and nirS) and nitrous oxide reductase genes (nosZ clade I) were largely influenced by soil type rather than management system. The soil types' effects were associated with their differences in soil organic C, total N and pH. Our findings show that in temperate regions, conversion of monoculture cropland and open grassland to agroforestry systems can alter the abundance of soil bacteria and fungi and soil-N-cycling genes, particularly genes involved in ammonium oxidation."],["dc.identifier.doi","10.1371/journal.pone.0218779"],["dc.identifier.pmid","31246995"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/16207"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/60024"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation.orgunit","Zentrum für Biodiversität und Nachhaltige Landnutzung"],["dc.relation.orgunit","Zentrum für Biodiversität und Nachhaltige Landnutzung"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.subject.ddc","630"],["dc.title","Conversion of monoculture cropland and open grassland to agroforestry alters the abundance of soil bacteria, fungi and soil-N-cycling genes"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]