cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.20387/bonares-1naq-dvww
title: 13C labeling experiment catch crops

description: We investigate the impacts of increasing plant diversity in catch crop rotations on rhizosphere C input and microbial utilization. Mustard (Sinapis alba L.) planted as a single cultivar was compared to diversified catch crop mixtures of four (Mix4) or 12 species (Mix12). We traced the C transfer from shoots to roots towards the soil microbial community and the soil respiration in a 13C pulse labelling field experiment. The data set included measurements of organic carbon, total nitrogen as well as their stable isotopes in plant and soil material.  The growth and activity of the soil microbiome was investigated by phospholipid fatty acid (PLFA) analyses. The transferred of C from plants towards the microbiome was measured by 13C label concentration in specific PLFA markers.

More information is available: Gentsch, N., Boy, J., Batalla, J.D.K. et al. Catch crop diversity increases rhizosphere carbon input and soil microbial biomass. Biol Fertil Soils 56, 943–957 (2020). https://doi.org/10.1007/s00374-020-01475-8

Research domain: Soil Sciences

Research question: The aim of the study was to test how catch crop diversity affects C cycling from the atmosphere through the plant-soil-microbiome system. More specifically, the efficiency for C uptake and the belowground input of recently photosynthesized C products and their partitioning in the rhizosphere was investigated. We hypothesized that diversified catch cropping systems would (I) increase photosynthetic C fixation with higher transport rates of newly assimilated C to the roots, (II) stimulate microbial growth through higher C utilization when C reaches the rhizosphere and (III) prolongate the C cycling throughout the plant-soil-microbiome system.
DOI: 10.20387/bonares-1f76-nepa
title: Agronomic data of long term field experiment CATCHY Asendorf

description: This WMS Service includes spatial information used by all datasets using information from the long-term field experiment CATCHY in Asendorf
DOI: 10.20387/bonares-eff3-0mb4
title: Agricultural long-term experiments in Europe outside Germany

description: This dataset provides information about more than 200 agricultural long-term experiments (LTE) in Europe (without Germany; For LTE in Germany see https://doi.org/10.20387/BonaRes-3TR6-MG8R) with a duration of at least 20 years. The following information is provided, if available: site, name, start, end (if appropriate), holding institution, research theme, website, networks, research parameters, farming category, size, exact position, experimental setup, crop rotation, soil type, etc.

Research domain: Other

Research question: Which kind of agricultural long-term experiments do exist in Europe? Where do they exist? On which soils? How can networking be simplified?
DOI: 10.20387/bonares-00ty-1j47
title: V140 Kiel: Geographical reference and description of trial plots

description: This fileset provides the geographical reference(as shape-file) and a detailed treatment description of every plot of trial V140 on experimental farm Hohenschulen, Achterwehr, Germany. The trial is conducted by Uni Kiel, Institute of Crop Science and Plant Breeding, Agronomy and Crop Science.
DOI: 10.20387/bonares-25h2-a5yp
title: V140 Kiel: Greenhouse gas emissions and supporting temperatures 2015-2018

description: Nitrate surplus after harvest of winter oilseed rape and faba beans is a serious issue regarding groundwater pollution and GHG emission. Stimulation of microbial N immobilization by organic amendments might be an option to prevent N-losses and optimize N use efficiency on crop rotation level.
In this trial two crop rotations were established in a split plot design. The soil microbial activity is manipulated in field scale by post-harvest application of different organic amendments: preceding crop residues, winter wheat straw and spruce sawdust.
This file provides greenhouse gas emission rates from trial V140 on exeprimental farm Hohenschulen, Achterwehr, Germany. The trial is conducted by Uni Kiel, Institute of Crop Science and Plant Breeding, Agronomy and Crop Science. Geographical reference for the trial plots can be found in  V140_Parzellen_neu.shp (join by 'Plot_ID' and 'id'). UKiel_V140_Plot_Description_2015_2018_BonaResDataCenter.csv contains detailed information about the experimental setup and the treatment of the individual plots.
The emissions have been sampled from harvest of the preceding crops till the first fertilizer application on winter wheat plots. Sampling has been done with the static closed chamber method. Calculation of flux rates has been done in R with the package 'gasfluxes'.
DOI: 10.20387/bonares-zdw4-083t
title: V140 Kiel: Soil mineral Nitrogen and soil water contents 2015-2018

description: Nitrate surplus after harvest of winter oilseed rape and faba beans is a serious issue regarding groundwater pollution and GHG emission. Stimulation of microbial N immobilization by organic amendments might be an option to prevent N-losses and optimize N use efficiency on crop rotation level. In this trial two crop rotations were established in a split plot design. The soil microbial activity is manipulated in field scale by post-harvest application of different organic amendments: preceding crop residues, winter wheat straw and spruce sawdust. 
This file provides soil mineral Nitrogen and soil water contents from trial V140 on experimental farm Hohenschulen, Achterwehr, Germany, from 2015-07-23 (harvest winter barley) till 2018-08-02 (harvest faba beans) The trial is conducted by Uni Kiel, Institute of Crop Science and Plant Breeding, Agronomy and Crop Science. Geographical reference for the trial plots can be found in V140_plot_coordinates.shp (join by 'Plot_ID'). UKiel_V140_Plot_Description_2015_2018_BonaResDataCenter.csv offers detailed information about the experimental setup and the treatment of the individual plots. 
Soil samples were taken with probes (2 cm inner diameters) from 0 - 90 cm. Divided into 3 30 cm layers three cores per plot were pooled, homogenized and frozen (-18°C) till lab processing. SMN (sum of NH4+ -N and NO3- -N contents) was determined with a spectrophotometer after extraction with 125 mM CaCl2 solution. A subsample of each soil sample was used for determination of the gravimetric water content (based on drying at 105°C). A uniform bulk density of 1.45 g cm-3 for all plots and dates was assumed.
DOI: 10.20387/bonares-47cd-h5az
title: The effect of tillage and cover crops

description: The dataset consists of data from a repeated one-year experiment (2011/2012 and 2012/2013) under organic management with conventional versus reduced tillage and three different kinds of cover crops plus bare fallow as a control. The measured parameters are associated with cover crop yield, weed emergence, mineralized nitrogen, and yield of main crop oats. The site was the experimental farm of University of Kassel, Domaene Frankenhausen. Soil type was a Haplic Luvisol.

Research domain: Plant Cultivation and Agricultural Technology

Research question: How do the tillage treatments and the different cover crops affect the Nmin content of the soil?
How do the tillage treatments and the different cover crops affect the weed emergence?
How do the tillage treatments and the different cover crops affect the yield of the main crop oats?
DOI: 10.20387/bonares-rmtx-ttaj
title: Basic information of three beech forest sites in Lower Saxony (GER), part of the research unit SubSOM

description: This dataset includes general information about the sites used in our study. Our main investigations were done in the Grinderwald research forest by conducting a litter manipulation experiment with 13C-enriched beech litter combined with DOC and CO2 monitoring from February 2015 until November 2016, and soil core sampling. The monitoring was complemented by burial of 13C-coated minerals (goethite and vermiculite) with subsequent field incubation for two years (May 2016 – May 2018) and laboratory batch sorption and desorption experiments. The latter was additionally done with soil from two beech forest sites (Rüdershausen and Ebergötzen) with varying parent material, texture, and pedogenic oxides. This dataset further serves as a parent dataset, which is connected to more detailed research data of the mentioned experiments.

Research domain: Soil Sciences

Research question: This dataset and all connected research data aim at evaluating temperate forest subsoils as potential future C-sinks.
DOI: 10.20387/bonares-c6pk-yxq8
title: Cropland agroforestry 2015-2018

description: Data were collected at a short rotation coppice agroforestry site established at Wendhausen (Lower Saxony, Germany) in 2008. At this site, 10 m wide poplar strips ("Max 1" (P. nigra L. x P. maximowiczii Henry)) are alternating with 48 m wide crop alleys. Yield and selected quality parameters of annual crop plants were assessed in 2016 and 2017. The total amount of litter per square meter was assessed yearly (2015-2017) during the whole period of litterfall. The biomass yield of the poplar short-rotation coppice was  estimated yearly (2016 to 2018).
DOI: 10.20387/bonares-4gjt-f0y0
title: Grassland yield and quality, leaf litter input, and wood yield in a short rotation coppice agroforestry systemin Lower Saxony, Germany, in 2015, 2016, and 2017

description: Data were collected at a short rotation coppice agroforestry site established at Mariensee (Lower Saxony, Germany) in 2008. At this site, three 10 m wide willow strips ("Tora" (Salix schwerinii x S. viminalis)) are alternating with 48 m wide grassland strips. Yield and selected quality parameters of perennial grassland were assessed yearly from 2015 to 2017. The total amount of litter per square meter was also assessed yearly during the whole period of litterfall. The biomass yield of the willow short-rotation coppice was  measured in 2016 as well as estimated yearly (2015 to 2017).
DOI: 10.20387/bonares-kwh2-fmh3
title: Grassland agroforestry 2017-2018

description: Data were collected at a short rotation alley cropping agroforestry site established at Mariensee (Lower Saxony, Germany) in 2008. At this site, three 10 m wide willow strips ("Tora" (Salix schwerinii x S. viminalis)) are alternating with 48 m wide grassland strips. Yield and selected quality parameters of perennial grassland were assessed yearly from 2017 to 2018. The total amount of litter per square meter was also assessed yearly during the whole period of litterfall. The biomass yield of the willow short-rotation coppice was estimated yearly (2017 to 2018).
DOI: 10.20387/bonares-qp1a-wdcc
title: BonaRes-SIGNAL biomass production starting in 2016

description: This data set contains leaf litter, woody biomass, grain, shredded corn, straw and grass production on the sites of SIGNAL (Sustainable Intensification of Agriculture through Agroforestry) at Dornburg (Thuringia), Forst (Brandenburg), Wendhausen and Mariensee (both Lower Saxony). Research domain: Ecology of Agricultural Landscapes Research question: Does alley-cropping agroforestry pose a more sustainable alternative to conventional monocultures?
DOI: 10.20387/bonares-q82e-t008
title: Nutrient response efficiency (NRE) of cropland agroforestry and monoculture in Germany 2016 and 2017

description: This data set includes general soil characteristics, data on plant-available N, P and K as well as N, P and K response efficiencies measured on three sites in Germany in alley-cropping agroforestry and monocultures. Each site is represented by 4 replicates per land use, at the following distances from the tree row for agroforestry: 1m, 4m, 7m and 24m (24m for NRE only). Research domain: Soil Sciences Research question: How do nutrient availability and nutrient response efficiency (NRE) differ between monocultures and alley-cropping agroforestry, with consideration of various distances from the tree row?
DOI: 10.20387/bonares-agdc-m0dm
title: Cropland Agroforestry 2017 and 2018
DOI: 10.20387/bonares-955z-7h2p
title: Spatial detection of water containing objects in soil using THz radiation.

description: The detectability of a water-containing object in sand with THz radiation was investigated as a function of the grain size of the material. The investigated frequency range of the spectrometer was between 258-375 GHz. The grain size was between 20-1250 μm. The thickness of the sand in front of the object was 7 mm. With increasing grain size the spatial resolution of the object covered by sand decreased significantly. Independent of the grain size, the object was always clearly detectable.

Further information on the experimental setup, materials and measurement data can be found in the supplementary information.

Data can be downloaded here: https://b-web.bonares.de/smartEditor/rest/upload/ID_3006_2020_1_20_I4S_Mahns.zip
DOI: 10.20387/bonares-hsq7-8tbq
title: Amplicon sequencing data of 16S, ITS and cox2 at site S

description: Amplicon sequencing data of 16S rRNA gene fragments (bacteria), ITS regions (fungi) and cox2 (oomycetes) from site S (x-coordinate 51.47, y-coordinate 11.31) , Yim et al. 2020_rose replant disease

Research domain: Other

Research question:  do treatments of rose replant disease soil have effects on rhizosphere microbiome ?
DOI: 10.20387/bonares-1pds-0x9r
title: Amplicon data of 16S rRNA, ITS and cox2

description: Amplicon sequencing data of 16S rRNA gene fragments (bacteria), ITS regions (fungi) and cox2 (oomycetes) from site H (x-coordinate 53.69, y-coordinate 9.68) , Yim et al. 2020_rose replant disease

Research domain: Other

Research question:  do treatments of rose replant disease soil have effects on rhizosphere microbiome?
DOI: 10.20387/bonares-7xd5-stvn
title: Primary and secondary metabolites in roots of Rosa corymbifera 'Laxa'

description: Primary and secondary metabolites detected in roots of Rosa corymbifera 'Laxa' grown in different treatments of rose replant disease soil, Yim et al. 2020_rose replant disease

Research domain: Other

Research question: are there differences between the primary and secondary metabolites in roots of R. 'Laxa' grown in untreated and treated rose replant disease soil?
DOI: 10.20387/bonares-b0f0-27sv
title: Shoot dry mass of Rosa corymbifera 'Laxa'

description: Shoot dry mass (g) of Rosa corymbifera 'Laxa' from different treatments of rose replant disease soil, Yim et al. 2020_rose replant disease

Research domain: Other

Research question: are there any differences between the shoot dry masses of R. 'Laxa' plants grown in untreated and treated rose replant disease soil?
DOI: 10.20387/bonares-khe6-deb9
title: Shoot length of Rosa corymbifera 'Laxa'

description: Shoot length (cm) of Rosa corymbifera 'Laxa' grown in different treatments of replant disease soil, Yim et al. 2020_rose replant disease

Research question: Are there any differences between the shoot length of R. 'Laxa' grown in untreated and treated rosee replant disease soil?
DOI: 10.20387/bonares-kvak-frbf
title: ARD Biomarkers

description: This dataset includes data from two experiments, which aimed at the identification and characterization of candidate genes for ARD biomarkers in roots of the ARD sensitive apple rootstock M26. It is a supplement to the research article DOI 10.1371/journal.pone.0238876. 

In the first experiment, plants of M26 were grown in a biotest, including untreated and disinfected ARD soil from the three ORDIAmur reference sites Ellerhoop, Heidgraben and Ruthe. Plant shoot length was recorded over a course of eight weeks. After 0, 1, 3 and 7 days, root samples for gene expression analysis were taken. Further root samples for phytoalexin analysis were taken after 3, 7, 10 and 56 days. After 8 weeks, shoot and root fresh and dry masses were determined from the remaining plants to assess ARD severity in the soils. The genes biphenyl synthase 3 (BIS3), biphenyl 4-hydroxylase (B4Hb) and ethylene-responsive transcription factor 1B (ERF1B) were identified for further testing. 

In experiment 2, the expression of BIS3, B4Hb and ERF1B was investigated in M26 in response to the stressors heat, high salinity and nutrient starvation, which were applied in peat substrate (heat, salt) or quartz sand (nutrient starvation). Furthermore, grass soil from Heidgraben with no previous apple culture was tested. ARD soil from Heidgraben and peat substrate served as controls. Gene expression was investigated in the roots after 7 and 14 days and phytoalexin contents were analyzed after 14 days. Shoot lengths were recorded weekly and after 8 weeks and fresh and dry masses of shots and roots were taken. A nutrient analysis was conducted with the shoot material to investigate the effects of the nutrient starvation. The second experiment revealed a response of ERF1B to heat stress. All three genes responded to grass soil but to a lesser extent than to ARD soil after two weeks.

Research domain: Plant Breeding

Research question: This study aimed at the identification and characterization biomarkers for apple replant disease (ARD). The first experiment aimed at narrowing down a set of previously identified set of candidate genes by studying their expression in apple roots in a biotest with soil from three ARD sites. These genes were further characterized in the second experiment by studying their expression in response to common unspecific stressors. The identified candidates may serve to improve our understanding of the disease and upon further characterization aid in the breeding of ARD tolerant apple rootstocks.
DOI: 10.20387/bonares-hrv8-3xf3
title: ARD Biomarkers: qPCR data

description: This dataset contains raw data of RT-qPCR runs from two experiments, which aimed at the identification and characterization of candidate genes for ARD biomarkers in roots of the ARD sensitive apple rootstock M26. The experiments underlying this study are presented in DOI 10.1371/journal.pone.0238876. This dataset is a continuation of DOI 10.20387/bonares-kvak-frbf. 

In the first experiment, plants of M26 were grown in a biotest, including untreated and disinfected ARD soil from the three ORDIAmur reference sites Ellerhoop, Heidgraben and Ruthe. Plant shoot length was recorded over a course of eight weeks. After 0, 1, 3 and 7 days, root samples for gene expression analysis were taken. The expression of the previously identified candidate genes 1-aminocyclopropane-1-carboxylate oxidase homolog 1-like (ACO1), ethylene-responsive transcription factor RAP2-11-like (ERF RAP2.11), ethylene-responsive transcription factor 1B-like (ERF1B), gibberellin-regulated protein 1-like (GASA1), zinc finger domain-containing protein 10-like (GATAD10), biphenyl synthase 3 (BIS3) and biphenyl 4-hydroxylase (B4Hb) was investigated. As reference genes elongation factor 1-alpha (EF1a), elongation factor 1-beta 2-like (EF1b) and tubulin beta chain (TUBB) were selected after their expression stability was tested. The genes biphenyl synthase 3 (BIS3), biphenyl 4-hydroxylase (B4Hb) and ethylene-responsive transcription factor 1B (ERF1B) showed a strong and uniform regulation amongst the three soils tested and were identified as candidates for further testing in experiment 2. 

In experiment 2, the expression of BIS3, B4Hb and ERF1B was investigated in M26 in response to the stressors heat, high salinity and nutrient starvation, which were applied in peat substrate (heat salt) or quartz sand (nutrient starvation). Furthermore, grass soil from Heidgraben with no previous apple culture was tested. ARD soil from Heidgraben and peat substrate served as controls. Gene expression was investigated in the roots after 0, 7 and 14 days and phytoalexin contents were analyzed after 14 days. The second experiment revealed a response of ERF1B to heat stress. All three genes responded to grass soil but to a lesser extent than to ARD soil after two weeks.

Research domain: Plant Breeding

Research question: This study aimed at the identification and characterization biomarkers for apple replant disease (ARD). The first experiment aimed at narrowing down a set of previously identified set of candidate genes by studying their expression in apple roots in a biotest with soil from three ARD sites. These genes were further characterized in the second experiment by studying their expression in response to common unspecific stressors. The identified candidates may serve to improve our understanding of the disease and upon further characterization aid in the breeding of ARD tolerant apple rootstocks.
DOI: 10.20387/bonares-dndw-5t58
title: Litter manipulation experiment Grinderwald - Density fractionation data from soil core samples

description: We conducted a litter manipulation experiment with 13C enriched beech litter at the Grinderwald research site, 40 km north of Hannover, Germany. The study site contains a more than 100 years old beech forest on a Dystric Cambisol. At 2 time points (11.2016, 05.2018), we took soil cores down to 180 cm soil depth and divided them in 15 depth increments. We conducted density fractionation from chosen depth increments (0-50 cm, 100-140 cm soil depth) and analyzed the organic carbon distribution in different organic matter fractions, carbon contents in addition to their 13C isotopy and the recovered labeled litter-derived C. Research domain: Soil Sciences Research question: We studied the contribution of litter-derived carbon (C) in the formation of subsoil organic matter (OM).
DOI: 10.20387/bonares-69h2-56q9
title: Litter manipulation experiment Grinderwald - Bulk soil data from soil core samples

description: We conducted a litter manipulation experiment with 13C enriched beech litter at the Grinderwald research site, 40 km north of Hannover, Germany. The study site contains a more than 100 years old beech forest on a Dystric Cambisol. At 2 time points (11.2016, 05.2018), we took soil cores down to 180 cm soil depth and divided them in 15 depth increments. We analyzed all bulk samples for organic carbon, total nitrogen, the carbon isotopy, oxalate and dithionite extractable Fe, Al, and Mn. Further we conducted water extractions to determine the mobilizable carbon fraction. Research domain: Soil Sciences Research question: We studied the contribution of litter-derived carbon (C) in the formation of subsoil organic matter (OM).
DOI: 10.20387/bonares-hzgx-gb9s
title: Soil profile description from the research site Grinderwald, part of the research unit SubSOM

description: We conducted a litter manipulation experiment with 13C enriched beech litter at the Grinderwald research site, 40 km north of Hannover, Germany. The study site contains a more than 100 years old beech forest on a Dystric Cambisol. At 2 time points (11.2016, 05.2018), we took soil cores down to 180 cm soil depth and divided them in 15 depth increments. These data serve as a basis for interpretation of the field experiments conducted at this site. Data were adapted from Leinemann et al. 2016. Research domain: Soil Sciences Research question: We studied the contribution of litter-derived carbon (C) in the formation of subsoil organic matter (OM). Literature: Leinemann, T., Mikutta, R., Kalbitz, K. et al. Small scale variability of vertical water and dissolved organic matter fluxes in sandy Cambisol subsoils as revealed by segmented suction plates. Biogeochemistry 131, 1–15 (2016). https://doi.org/10.1007/s10533-016-0259-8