cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4755008
title: Representative metagenomics assembled genomes (rMAGS) from longitudinally sampled anoxic tank floating sludge islets of the Schifflange (Luxembourg) communal wastewater treatment plant

description: This archive contains the representative metagenomics assembled genomes (rMAGs) derived from the longitudinally sampled anoxic tank floating sludge islets of the Schifflange (Luxembourg) communal wastewater treatment plant. These rMAGs were assembled using both metagenomic and metatranscriptomic data. These rMAGs were used in the publications referenced as part of this record. Please refer to these publications for more information about raw data and details about methods.
description: {"references": ["Mart\u00ednez Arbas, S., Narayanasamy, S., Herold, M. et al. Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics. Nat Microbiol 6, 123\u2013135 (2021). https://doi.org/10.1038/s41564-020-00794-8", "Herold, M., Mart\u00ednez Arbas, S., Narayanasamy, S. et al. Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance. Nat Commun 11, 5281 (2020). https://doi.org/10.1038/s41467-020-19006-2"]}
DOI: 10.48443/nxd5-m293
title: NEON prototype bathymetric sonar data from D08 BLWA, 2017

description: The Bathymetric and Morphological Map data product provides depths of lakes and non-wadeable streams (rivers), sediment and substrate characteristics, as well as the presence or absence, approximate abundance, distribution, and size of underwater flora. High accuracy depth (bathymetric) maps are obtained using a suite of hydroacoustic instrumentation interfaced with a differential global positioning system (DGPS) mounted on a vessel. The Wide Area Augmentation System (WAAS) is a form of DGPS that provides enhanced position accuracy (<3 m). Acoustic images of biota, substrate, and benthic structures are obtained with side scan sonar which are georeferenced and mosaicked in post-processing. The data provided in this file are raw sonar data files with little or no post processing that were collected but not used to develop bathymetric or habitat maps.
description: Sonar data collected from NEON lake and river sites using a Humminbird 1198c SI Combo with sonar and side imaging capability. Refer to the AOS Protocol and Procedure: Bathymetry and Morphology of Lakes and Non-Wadeable Streams [NEON.DOC.001197] for additional details regarding the spatio-temporal study design.
DOI: 10.48443/mz04-j291
title: NEON prototype bathymetric sonar data from D08 TOMB, 2017

description: The Bathymetric and Morphological Map data product provides depths of lakes and non-wadeable streams (rivers), sediment and substrate characteristics, as well as the presence or absence, approximate abundance, distribution, and size of underwater flora. High accuracy depth (bathymetric) maps are obtained using a suite of hydroacoustic instrumentation interfaced with a differential global positioning system (DGPS) mounted on a vessel. The Wide Area Augmentation System (WAAS) is a form of DGPS that provides enhanced position accuracy (<3 m). Acoustic images of biota, substrate, and benthic structures are obtained with side scan sonar which are georeferenced and mosaicked in post-processing. The data provided in this file are raw sonar data files with little or no post processing that were collected but not used to develop bathymetric or habitat maps.
description: Sonar data collected from NEON lake and river sites using a Humminbird 1198c SI Combo with sonar and side imaging capability. Refer to the AOS Protocol and Procedure: Bathymetry and Morphology of Lakes and Non-Wadeable Streams [NEON.DOC.001197] for additional details regarding the spatio-temporal study design.
DOI: 10.48443/pwbm-6q24
title: NEON depth profile and secchi data from lakes and rivers, D03 and D09, 2015-2017

description: This data package contains from NEON's depth profile at specific depths and secchi depth data collected in the field. After 2017, these data are collected only at the buoy location at each site. Data collected at other NEON infrastructure (not the buoy) are provided in this package.  Depth profile data include water temperature, conductivity, and dissolved oxygen collected using a YSI handheld meter. Secchi data are collected using a secchi disk during ice-off periods. For additional details, see NEON.DOC.002792 AOS Protocol and Procedure: Secchi Disk and Depth Profile Sampling in Lakes and Non-wadeable Streams.
description: Depth and secchi data are collected concurrently with all other protocols that sample the water column (i.e., surface water chemistry and stable isotopes, surface water microbes, phytoplankton, zooplankton). Data are collected at the buoy (deepest) location at each NEON lake and river site. Prior to 2017, additional data may have been collected at the inlet and outlet infrastructure locations. Data for the vertical profile are collected using a handheld YSI meter in order to determine thermal stratification of the water body. Stratification determines the sample depth of water chemistry and surface microbe sampling. Secchi data are used to calculate the euphotic zone, used to determine phytoplankton sampling depth. All data for this package are collected in the field and not further processed.
DOI: 10.48443/djxa-9680
title: NEON soil heat flux (SHF) prototype data,  2013-2014

description: The National Ecological Observatory Network (NEON) plans to deploy self-calibrating soil heat flux plates at NEON’s 60 terrestrial research sites. Unlike other types of soil heat flux plates, self-calibrating versions have the ability to correct for errors caused by differences in thermal conductivity between the plates and the surrounding soil. This is done with integrated heaters, well defined heat pulses, and subsequent dynamic adjustments the calibration coefficients of each individual plate. This should provide a more accurate estimation of soil heat flux though field studies implementing self-calibrating units and routines are limited and continued investigation is needed. Here, a set of self-calibrating soil heat flux plates are evaluated in-situ in Nunn clay loam soil at NEON’s calibration and validation outdoor laboratory.
The soil heat flux plates were installed 8 cm below the ground surface and the sensor output was recorded at 1 sec intervals. The manufacturer recommended self-calibration procedures were followed, and a short (3 min) heat pulse from the integrated heater was activated every 3.25 hours. Preliminary results show that the in-situ calibration coefficients are 30% lower on average that the original manufacturer supplied calibration coefficient. This was particularly evident after major rain events when soil moisture increased by up to 190% of the pre-rain event soil moisture. During these times, the calibration coefficients were nearly 32% lower than prior to the rain event. Using only the manufacturer supplied calibration coefficients, the soil heat flux is underestimated by up to 100%. We also found that during the calibration cycle, the heat pulse from the integrated heater influences the readings for about 30 min following the calibration cycle. This causes erroneous soil heat flux measurements that should be discarded. These preliminary results are used by NEON in designing configurations which mitigate soil heat flux uncertainties.
description: The soil heat flux plates were installed 8 cm below the surface. The sensor output was recorded at 1 Hz. Manufacturer recommended self-calibration procedures were followed. A short (3 min) heat pulse from the integrated heater was activated every 3.25 hours. Soil temperature (2 and 6 cm) and soil water content (6 cm) were also measured.
DOI: 10.48443/dczq-3y52
title: NEON prototype reaeration data from Kings Creek STREON site (STKG), 2015

description: This data product contains the quality-controlled, native sampling resolution data from NEON's wadeable stream reaeration sampling protocol. Grab samples of stream water at NEON aquatic sites are collected in streams at 4 sampling locations downstream of a continuous injection of an inert gas (SF6) and conservative tracer (NaCl or NaBr). Background samples are collected prior to tracer injection and are analyzed for background salt tracer concentrations. Plateau samples are collected once the tracer concentration reaches a constant concentration (as measured by conductivity) and 5 replicate samples from each station are analyzed for both salt and gas tracer concentrations. Data users should refer to the user guide for reaeration and salt-based discharge ([NEON_ReaerSaltBasedQ_userGuide_vA](https://data.neonscience.org/api/v0/documents/NEON_ReaerSaltBasedQ_userGuide_vA)) for suggestions on how to calculate reaeration rates from the published data packages. For additional details on NEON field and laboratory protocols, see the AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](https://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH).
description: Tracer injections of conservative salt and inert, volatile gas are completed 6-10 times per year to capture a range of flows at NEON wadeable stream sites. The first sampling station is located near sensor set #1 and the fourth sampling station is located near sensor set #2. Sampling stations #2 and #3 are approximately evenly spaced between sampling stations #1 and #4. The injection (drip) station is located far enough upstream of sampling station #1 that the tracer is well mixed within the stream channel for all sampling stations. Conductivity data loggers are located near sampling stations #1 and #4 as well to capture the rising limb and plateau in situ conductivity values. For more information see AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](https://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH)
DOI: 10.48443/tt0p-6z15
title: NEON prototype reaeration data from Mayfield Creek STREON site (STMA), 2014 and 2015

description: This data product contains the quality-controlled, native sampling resolution data from NEON's wadeable stream reaeration sampling protocol. Grab samples of stream water at NEON aquatic sites are collected in streams at 4 sampling locations downstream of a continuous injection of an inert gas (SF6) and conservative tracer (NaCl or NaBr). Background samples are collected prior to tracer injection and are analyzed for background salt tracer concentrations. Plateau samples are collected once the tracer concentration reaches a constant concentration (as measured by conductivity) and 5 replicate samples from each station are analyzed for both salt and gas tracer concentrations. Data users should refer to the user guide for reaeration and salt-based discharge ([NEON_ReaerSaltBasedQ_userGuide_vA](https://data.neonscience.org/api/v0/documents/NEON_ReaerSaltBasedQ_userGuide_vA)) for suggestions on how to calculate reaeration rates from the published data packages. For additional details on NEON field and laboratory protocols, see the AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](https://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH).
description: Reaeration measurements collected at the Mayfield Creek STREON Site (STMA). STREON (STReam Experimental Observatory Network) sites were initially designed as a major long-term nutrient addition experiment to intentionally alter stream ecosystems. These sites have since been descoped and data are no longer collected at these locations. This data package includes field and external laboratory data from salt-tracer and gas injection field reaeration measurements.
DOI: 10.48443/8qhc-9364
title: NEON prototype reaeration data from Walker Branch STREON site (STWA), 2015

description: This data product contains the quality-controlled, native sampling resolution data from NEON's wadeable stream reaeration sampling protocol. Grab samples of stream water at NEON aquatic sites are collected in streams at 4 sampling locations downstream of a continuous injection of an inert gas (SF6) and conservative tracer (NaCl or NaBr). Background samples are collected prior to tracer injection and are analyzed for background salt tracer concentrations. Plateau samples are collected once the tracer concentration reaches a constant concentration (as measured by conductivity) and 5 replicate samples from each station are analyzed for both salt and gas tracer concentrations. Data users should refer to the user guide for reaeration and salt-based discharge ([NEON_ReaerSaltBasedQ_userGuide_vA](http://data.neonscience.org/api/v0/documents/NEON_ReaerSaltBasedQ_userGuide_vA)) for suggestions on how to calculate reaeration rates from the published data packages. For additional details on NEON field and laboratory protocols, see the AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](http://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH).
description: Tracer injections of conservative salt and inert, volatile gas are completed 6-10 times per year to capture a range of flows at NEON wadeable stream sites. The first sampling station is located near sensor set #1 and the fourth sampling station is located near sensor set #2. Sampling stations #2 and #3 are approximately evenly spaced between sampling stations #1 and #4. The injection (drip) station is located far enough upstream of sampling station #1 that the tracer is well mixed within the stream channel for all sampling stations. Conductivity data loggers are located near sampling stations #1 and #4 as well to capture the rising limb and plateau in situ conductivity values. For more information see AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](http://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH)
DOI: 10.48443/md3z-jm29
title: NEON prototype reaeration data from Rio Cupeyes STREON site (STCU), 2014 and 2015

description: This data product contains the quality-controlled, native sampling resolution data from NEON's wadeable stream reaeration sampling protocol. Grab samples of stream water at NEON aquatic sites are collected in streams at 4 sampling locations downstream of a continuous injection of an inert gas (SF6) and conservative tracer (NaCl or NaBr). Background samples are collected prior to tracer injection and are analyzed for background salt tracer concentrations. Plateau samples are collected once the tracer concentration reaches a constant concentration (as measured by conductivity) and 5 replicate samples from each station are analyzed for both salt and gas tracer concentrations. Data users should refer to the user guide for reaeration and salt-based discharge ([NEON_ReaerSaltBasedQ_userGuide_vA](http://data.neonscience.org/api/v0/documents/NEON_ReaerSaltBasedQ_userGuide_vA)) for suggestions on how to calculate reaeration rates from the published data packages. For additional details on NEON field and laboratory protocols, see the AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](http://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH).
description: Tracer injections of conservative salt and inert, volatile gas are completed 6-10 times per year to capture a range of flows at NEON wadeable stream sites. The first sampling station is located near sensor set #1 and the fourth sampling station is located near sensor set #2. Sampling stations #2 and #3 are approximately evenly spaced between sampling stations #1 and #4. The injection (drip) station is located far enough upstream of sampling station #1 that the tracer is well mixed within the stream channel for all sampling stations. Conductivity data loggers are located near sampling stations #1 and #4 as well to capture the rising limb and plateau in situ conductivity values. For more information see AOS Protocol and Procedure: Reaeration in Streams [NEON.DOC.000693](http://data.neonscience.org/api/v0/documents/NEON.DOC.000693vH)
DOI: 10.48443/jf9x-a875
title: NEON Prototype data: Soil Microbes, Soil Biogeochem., and Plant Structure and Chem., D01 HARV, 2012

description: A key component of the NEON Science Designs is co-located sampling of a variety of types of ecological data. This prototype dataset contains a number of these ecological data types, collected in July and August of 2012 at site HARV in domain D01 by the Terrestrial Observation System (TOS) before the development of the final standardized protocols. This effort informed numerous data products, including Soil physical properties (Distributed periodic) (DP1.10086), Soil chemical properties (Distributed periodic) (DP1.10078), Soil stable isotopes (Distributed periodic) (NEON.DP1.10100), Soil microbe metagenome sequences (DP1.10107), Plant foliar physical and chemical properties (DP1.10026), Plant foliar stable isotopes (DP1.10053), Digital hemispheric photos of plot vegetation (DP1.10017), and Woody plant vegetation structure (DP1.10098). This prototype field campaign also informed logistics and methods necessary for collocated collection of remote-sensing and ground-based datasets.
description: Soil and plant samples were collected in July and August of 2012 at the D01 Harvard Forest and Quabbin sites. Plots were established across the landscape according to dominant National Vegetation Classification Standard Alliance-level vegetation types, with plot number per type proportional to area. Within parcels of a given Alliance type, exact plot locations were selected to overlap with coincident NEON Airborne remote sensing observations, and to minimize edge effects with different adjacent Alliance types. Soil samples were collected for various analyses, including nutrients, bulk density, stable isotope, and microbial function. Soil samples were separated into organic and mineral horizons. Following collection in the field, foliar samples were subsampled for analysis of nutrients, isotopes, and leaf mass per area. Field measurements of vegetation structure were used together with allometric equations to calculate live and dead aboveground plant biomass (Jenkins 2003, Smith et al. 2003 GTR-NE-298). Vegetation structure measurements were complemented by digital hemispherical photos that were used to calculate plant area index using CanEye software (leaf plus stem area index). The timing of data collection was coincident with a NEON remote-sensing flight, and plot locations and ground measurements were selected to test integration of NEON ground and remote-sensing data collection efforts across a range of plant community types.
DOI: 10.48443/ka0p-7549
title: NEON Prototype data: Vegetation structure and canopy chemistry, D17 SJER and SOAP sites, 2013

description: A key component of the NEON Science Designs is co-located sampling of a variety of types of ecological data. This prototype dataset contains a number of these ecological data types, collected in June of 2013 at the SJER and SOAP sites in Domain D17 by the Terrestrial Observation System (TOS) before the development of the final standardized protocols. This effort informed development of numerous data products, including Plant foliar physical and chemical properties (DP1.10026), Plant foliar stable isotopes (DP1.10053), and Woody plant vegetation structure (DP1.10098). This prototype field campaign also informed logistics and methods necessary for collocated collection of remote-sensing and ground-based datasets.
description: Plant samples were collected in June of 2013 at the D17 Soaproot Saddle and San Joaquin Experimental Range sites. Plots were established across the landscape according to dominant National Land Cover Database (2009) vegetation types, with plot number per type proportional to area. Within parcels of a given NLCD type, exact plot locations were selected to overlap with coincident NEON Airborne remote sensing observations, and to minimize edge effects with different adjacent vegetation types. The vegetation structure of woody species was characterized via measurements of dbh and canopy height in the field. Following collection in the field, plant samples from tree canopy foliage and ground-level herbaceous biomass were subsampled for analysis of nutrients (carbon and nitrogen content) and isotopes (d13C and d15N). Canopy foliage samples were also analyzed for leaf mass per area. The timing of data collection was coincident with a NEON remote-sensing flight, and plot locations and ground measurements were selected to test integration of NEON ground and remote-sensing data collection efforts across a range of plant community types.
DOI: 10.48443/1dve-7j80
title: NEON Alliance vegetation maps for Domain 01 HARV, 2010

description: The National Ecological Observatory Network (NEON) contracted Aerial Information Systems (AIS) and their subcontractor, NatureServe, to produce a vegetation map using the US National Vegetation Classification (USNVC) Alliance level for the Harvard Forest and Quabbin Reserve (HFQR) site in Massachusetts. An on-the-ground map validation effort and field survey was performed concurrently with the voucher specimen collection before and during the process of producing the HFQR vegetation map. The final vegetation map represents a cooperative effort between AIS photo interpreters and NatureServe ecologists.
description: Field work was planned for three purposes in four separate field trips by NatureServe ecologists. The first visit was a general reconnaissance of the study area. In addition, the purpose of the first visit was to identify alliances of the study area and to compare them against their signatures on aerial photography. The second field visit was made with AIS photo interpreter John Menke to familiarize him with the alliances, their environmental setting, appropriate scale for mapping, and to identify their aerial photo signatures. The third purpose of field work was a map validation phase spread over two field visits in September. In this phase, the draft linework and identification of alliances for each polygon of a portion of the study area was provided by the photo interpreter. Field work was conducted to determine the accuracy of polygon identifications, as well as to provide input on appropriate polygon size (minimum mapping unit) for each alliance. Photo interpreters at AIS utilized high resolution (30-cm) leaf-off imagery from 2009, 1-meter resolution leaf-on National Agriculture Inventory Program imagery from 2005, and heads-up digitizing techniques.
DOI: 10.48443/hf6x-1q47
title: NEON Alliance and association vegetation maps for Domain 10 CPER, 2010

description: ESCO Associates was contracted by the National Ecological Observatory Network (NEON) to conduct mapping of the vegetation of the Domain 10 Central Plains Experimental Range (CPER) in 2010.  The mapping undertaken for this contract was intended to be done to the Alliance and association levels as per the hierarchy of the US National Vegetation Classification.  Field work in support of this mapping was conducted during the period of May to September 2010.
description: During initial field visits the variability of vegetation with regard to landform, especially geology and geomorphology, was noted. Therefore, soils mapping data from the Weld County Soil Survey, Northern Part (NRCS 1982) was used as a starting point for distribution of points at which quantitative sampling would document plant species composition and abundance.  Initial point distribution proceeded with approximately ten in each of the larger soil units and five in each of the smaller. At each sample site, at 1-meter intervals along a 50-meter transect, point-intercept data were collected 50 cm to the left and 50 cm to the right of the transect for a maximum of 100 possible point intercept hits per transect. Interceptions were tallied by species. This quantitative vegetation data from the field, stratified by soil mapping unit, allowed for vegetation mapping based on soil mapping units.