cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48443/4d20-5292
title: Groundwater and active layer measurements at permafrost sites (DP1.20099.001)
title: RELEASE-2023

description: In arctic environments with permafrost there is a seasonal change in active thawed layer and liquid water that drive the hydrology of the system. This seasonal freeze/thaw cycle causes frost heaving of groundwater wells, making measurements of groundwater elevation inaccurate due to sensor movement. Therefore, this data product contains measurements of depth to liquid water and thaw relative to the ground surface made manually rather than using a sensor that would require a fixed elevation throughout the season. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage.
description: Up to eight shallow groundwater wells per site are installed in inter-tussock areas surrounding the lake and stream reaches to capture groundwater flow paths. Wells are pushed down to thaw depth on a weekly basis and hand measurements are reported for depth to water and depth to thaw relative to the ground surface. Instrumentation:
DOI: 10.48443/jhag-hc60
title: Elevation of groundwater (DP1.20100.001)
title: RELEASE-2023

description: There are important linkages and feedbacks between groundwater and surface water in streams, rivers, and lakes.  NEON measurements of groundwater elevation at high resolution temporal changes informs these linkages. Three to  eight wells are available per aquatic site.  In this way, magnitude and direction of groundwater flow can be calculated.  Wells are located both near the water body and further from the water body to enable investigation of hyporheic groundwater flow paths.  This data product contains continuous, quality-controlled, groundwater depth converted to elevation above mean sea level. Measurements are captured every five minutes and reported as 5-minute instantaneous measurements and 30-minute averages.

Latency:
Data collected in any given month are published during the second full week of the following month.
description: Multiple groundwater wells per aquatic site are installed in triangular arrays where local features allow. Elevation of groundwater is measured in an site-specific array designed to capture shallow groundwater flow and exchange with the surface water feature at the site. Instrumentation: In-Situ, Inc. - Aqua TROLL 200
DOI: 10.48443/4pfx-2c72
title: Fish sequences DNA barcode (DP1.20105.001)
title: RELEASE-2023

description: This data product contains the quality-controlled laboratory metadata and QA results for NEON's cytochrome oxidase I (COI) barcoding of fish sequences. Fin clips are taken from a subset of collected fish for DNA analysis. The DNA barcoding procedure involves the removal of tissue, extracting and sequencing DNA from the tissue, and matching that sequence data to sequences from previously identified voucher specimens. DNA analysis serves a number of purposes, including verification of taxonomy of specimens that do not receive expert identification, clarification of the taxonomy of rare or cryptic species, and characterization of diversity using molecular markers. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage. Queries for this data product will return metadata tables formatted for submission to the Barcode of Life Database. These queries will also provide links to the actual sequence data, which are publicly available on the [Barcode of Life Data System](http://www.boldsystems.org/) (BOLD) website. The sequence data can be obtained by following the links from the NEON data portal, or by directly querying NEON data sets on the BOLD server. From the NEON portal, the link "BOLD Project: Fish sequences DNA barcode" redirects to a page on the BOLD public data portal for the queried data. This is a dynamic link and will automatically update based on the user query.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

fsh_BOLDcollectionData:  390

fsh_BOLDspecimenDetails:  390

fsh_BOLDtaxonomy:  390

fsh_BOLDvoucherInfo:  390
description: Fin clips will be collected from 5-10 individuals of a target species. These tissues will be preserved in an appropriate tissue vial and shipped to an external lab. DNA will be extracted and target sequences amplified via PCR. Barcodes of cytochrome oxidase I will be generated per specimen. Instrumentation:
DOI: 10.48443/etgd-3s49
title: Fish electrofishing, gill netting, and fyke netting counts (DP1.20107.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's fish sampling. Fish are sampled using a combination of electrofishing, gill-nets and mini-fyke nets. Field technicians identify fish to the lowest practical taxonomic level and then weigh and measure a subset of captured individuals before releasing. Fish that cannot be identified  to species in the field are assigned a morphospecies name and comments on potential identification traits are noted in the comments. In addition at D04 decapod bycatch is collected, identified, tallied, and recorded.  For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

fsh_fieldData:  45

fsh_perPass:  45

fsh_perFish:  45

fsh_bulkCount:  45

fsh_invertBycatch: 45

fsh_morphospecies:  390
description: Fish are sampled twice per year at lakes and wadeable stream sites, during spring and fall. 10 fish sampling reaches or segments are established at each site; with 3 fixed reaches sampled during every sampling bout and a random subset of 3 additional reaches or segments selected for sampling each year. Instrumentation:
DOI: 10.48443/zj4y-4073
title: Macroinvertebrate collection (DP1.20120.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's aquatic macroinvertebrate collection and field metadata, as well as associated taxonomic, morphometric, and count analyses data provided by a contracted lab. Benthic field samples are collected in wadeable streams, rivers, and lakes three times per year during the growing season using the type of sampler most suitable to the habitat types present at the site. Samples are preserved in ethanol in the field and shipped to a contracting lab for analysis. For additional details, see the user guide, protocols, science design, and lab SOPs listed in the Documentation section in this data product's details webpage.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

inv_fieldData:  30

inv_persample:  210

inv_taxonomyProcessed:  210

inv_taxonomyRaw:  210

inv_pervial:  210
description: Benthic macroinvertebrate samples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall. Samples are collected using the most appropriate sampler for the habitat type, including Surber, Hess, hand corer, modified kicknet, D-frame sweep, and petite ponar samplers. In wadeable streams, samples are collected in the two most dominant habitat types (e.g. riffles, runs, pools, step pools). In lakes, samples are collected near the buoy, and nearshore sensors using a petite ponar, and in littoral areas using a D-frame sweep. In rivers, samples are collected near the buoy and two other deep-water locations using a petite ponar sampler, and in littoral areas using a D-frame sweep or large-woody debris sampler. Samples are preserved in ethanol in the field, returned to the domain support facility for a preservative change where a small volume of glycerol is added to help keep invertebrates from getting brittle. Samples are shipped to a taxonomy lab for sorting and identification, including count of each taxon per size class (to nearest mm) and identification to lowest practical taxon (genus or species). Instrumentation:
DOI: 10.48443/06t7-1b34
title: Macroinvertebrate metabarcoding (DP1.20126.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's aquatic Macroinvertebrate metabarcoding sampling protocol, as well as associated metadata provided by a contracted lab. Benthic field samples are collected in wadeable streams, rivers, and lakes, three times per year during the growing season using the type of sampler most suitable to the habitat types present at the site. Samples are preserved in ethanol in the field and shipped to a contracting lab for analysis. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage.

Queries for this data product return a downloadable data package with laboratory methods and DNA extraction, PCR amplification, and sequencing metadata for samples from the queried sites and date range. Queries for the expanded package will also include a table containing links to the raw sequence data files.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

inv_fieldData:  30

inv_dnaExtraction:  240

inv_markerGeneSequencing:  240

inv_pcrAmplification:  240

inv_dnaRawDataFiles:  240

inv_metabarcodeTaxonomy:  240

inv_metabarcodeTaxonList:  240

inv_metabarcodeSummary:  240

inv_dnaStandardTaxon:  240

inv_dnaExtractionStandard:  240

inv_markerGeneSequencingStandard:  240

inv_pcrAmplificationStandard:  240

inv_dnaRawDataFilesStandard:  240

inv_metabarcodeTaxonomyStandard: 240
description: Benthic macroinvertebrate metabarcodingsamples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall, at the same time and location as morphological taxonomy samples. Samples are collected using the most appropriate sampler for the habitat type, including Surber, Hess, hand corer, modified kicknet, D-frame sweep, and petite ponar samplers. In wadeable streams, samples are collected in the most dominant habitat type (e.g. riffles, runs, pools, step pools). In lakes and rivers, samples are collected in littoral areas using a D-frame sweep. Samples collected during the mid-summer sampling bout (Bout 2) are sent to an external facility for homogenization and high-throughput sequencing. Samples collected during the spring and fall (Bout 1 and Bout 3) are preserved in ethanol and shipped to the NEON Biorepository for archiving. Instrumentation:
DOI: 10.48443/8ah9-h316
title: Surface water microbe cell count (DP1.20138.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's Surface water microbe cell count sample collection. Field samples are collected using a sterilized grab sampler in the water column of wadeable streams, rivers, and lakes in conjunction with standard recurrent surface water chemistry samples. Cell count field samples are collected 12 times per year in streams and 6 times per year in lakes and rivers, and are collected year-round unless ice cover is too thick to allow sampling. Samples are preserved in the field and shipped to a contracting lab for analysis. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

amc_cellCountLabSummary:  14

amc_cellCounts:  150

amc_fieldCellCounts:  30

amc_fieldSuperParent:  30
description: Surface water cell count samples are collected at the same time and location as surface water chemistry samples once per month in wadeable streams (12 times per year) and every-other month in lakes and rivers (6 times per year). In wadeable streams, cell count samples are collected near the downstream S2 sensor location. In flow-through lakes (site TOOK), cell count samples are collected near the buoy, inlet, and outlet sensors, and sampling depth(s) is dependent on lake stratification. In seepage lakes (all lake sites other than TOOK), cell count samples are collected near the buoy, and sampling depth(s) is dependent on lake stratification. In rivers, cell count samples are collected near the buoy sensor. Samples are collected using a grab sampler, typically a sterilized 4 gallon jug in streams and a Kemmerer sampler in lakes. Samples are preserved with 1% formaldehyde in the field, and sent to an external facility for cell count analysis using propidium iodide (PI) staining and epifluorescence microscopy. Cell counts are enumerated using image analysis software. Instrumentation:
DOI: 10.48443/0g3r-kw93
title: Surface water microbe community composition (DP1.20141.001)
title: RELEASE-2023

description: This data product contains the quality-controlled laboratory data and metadata for NEON's surface water bacterial, archaeal, and fungal community composition analysis derived from microbial sampling in lakes, rivers and streams. Taxon tables are derived from the 16S and ITS marker gene sequencing data product, NEON.DP1.20282. The DNA sequence data are processed using standard bioinformatics software to generate taxonomic data. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

mcc\_swSeqVariantMetadata\_16S:  730

mcc\_swSeqVariantMetadata\_ITS:  730

mcc\_taxonTableLabSummary:  7
description: Surface water microbe samples are collected at the same time and location as surface water cell count samples and surface water chemistry samples, which occurs once per month in wadeable streams (12 times per year), and every other month in lakes and rivers (6 times per year). In wadeable streams, samples are collected near the downstream S2 sensor location. In lakes and rivers, samples are collected near the buoy sensor set at 1 sampling depth in unstratified systems and up to 3 depths in stratified lakes. Surface water grab samples are filtered on 0.22 um Sterivex capsule filters, capped and flash-frozen in the field. The filters are stored and shipped frozen to an analytical facility for DNA sequence analysis using primer sets targeting the small subunit of the ribosomal RNA gene. Sequence data undergo QAQC and are processed bioinformatically using an in-house pipeline to identify unique sequence variants in the data and to taxonomically identify each sequence variant. Instrumentation:
DOI: 10.48443/j0k0-cv96
title: Periphyton, seston, and phytoplankton chemical properties (DP1.20163.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's aquatic periphyton and phytoplankton chemical analyses provided by a contracted lab. Benthic and water column field samples are collected in wadeable streams, rivers, and lakes three times per year during the growing season using the type of sampler most suitable to the habitat and substratum types present at the site. Samples are separated into aliquots at the domain support facility and filtered onto glass-fiber filters for chlorophyll, pheophytin, carbon, nitrogen, phosphorus, and carbon, nitrogen, and sulfur isotopes for analysis at external facilities. For additional details, see the user guide, protocols, science design, and laboratory SOPs listed in the Documentation section in this data product's details webpage.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

alg_fieldData:  60

alg_domainLabChemistry:  60

alg_algaeExternalLabDataPerSample:  180

alg_algaeExternalLabQA:  180

asi_externalLabPOMSummaryData:  14
description: Periphyton and phytoplankton samples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall. Samples are collected using the most appropriate sampler for the habitat and substratum type, including rock scrubs, grab samples, and epiphyton, and water column samplers for phytoplankton. In wadeable streams, periphyton samples are collected in the two most dominant benthic habitat types (e.g. riffles, runs, pools, step pools). In lakes, water-column phytoplankton samples are collected near the buoy and littoral sensors using a Kemmerer sampler, and in littoral areas using the best benthic sampling method for the substratum type. In rivers, phytoplankton samples are collected near the buoy and two other deep-water locations using a Kemmerer or Van Dorn sampler, and in littoral areas using the most appropriate benthic sampling method for the substratum type. All samples are returned to the domain support facility for subsampling. Subsamples are  filtered onto glass-fiber filters then frozen (chlorophyll/pheophytin) or dried (C, N, P, isotopes) and shipped to external analytical facilities for analysis. Instrumentation:
DOI: 10.48443/cebv-nn73
title: Periphyton, seston, and phytoplankton collection (DP1.20166.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's aquatic periphyton and phytoplankton collection and field metadata, as well as associated taxonomic,  and enumeration data provided by contracted labs. Benthic and water column field samples are collected in wadeable streams, rivers, and lakes three times per year during the growing season. Samples are separated into aliquots for taxonomic analysis at the domain support facility (preserved in glutaraldehyde or Lugol's iodine) for shipment to a external facilities, or filtered onto glass-fiber filters for biomass (ash-free dry mass). For additional details, see the user guide, protocols, science design, and lab SOPs listed in the Documentation section in this data product's details webpage.

The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

alg_fieldData:  60

alg_biomass:  60

alg_taxonomyProcessed:  210

alg_taxonomyRaw:  210

alg_qualityCheck:  210

alg_archive:  30

alg_biovolumes:  14
description: Periphyton and phytoplankton samples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall. Samples are collected using the most appropriate sampler for the habitat and substratum type, including rock scrubs, grab samples, and epiphyton. In wadeable streams, periphyton samples are collected in the two most dominant benthic habitat types (e.g. riffles, runs, pools, step pools). In lakes, water-column phytoplankton samples are collected near the buoy and littoral sensors using a Kemmerer sampler, and in littoral areas using the best benthic sampling method for the substratum type. In rivers, phytoplankton samples are collected near the buoy and two other deep-water locations using a Kemmerer or Van Dorn sampler, and in littoral areas using the most benthic sampling method for the substratum type. All field-collected samples are split into subsamples in the domain support facility, which are either processed in the facility (ash-free dry mass) or preserved and shipped to a contracting taxonomy laboratory. Diatoms and soft algae are identified and enumerated at the external taxonomy lab. Reference images are also collected. Slides and preserved subsamples are archived at the NEON Biorepository after analysis. Instrumentation:
DOI: 10.48443/bk29-6c91
title: Reaeration field and lab collection (DP1.20190.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's wadeable stream reaeration sampling protocol. During most reaeration experiments, 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 see `NEON_ReaerSaltBasedQ_userGuide` for suggestions on how to calculate reaeration rates from the published data packages. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage. During some reaeration experiments, denoted by injectionType “model - slug” or “model - CRI”, only the conservative tracer is injected, either via slug or constant rate, (i.e., inert gas is not injected). See NEON Data Product User Guide to Reaeration (DP1.20190.001) and Salt-based Discharge Sampling (DP1.20193.001) for more detail about when and where model type injections are used.

Latency:
The expected time from data and/or sample collection in the field to data publication is as follows, for each of the data tables (in days) in the downloaded data package. See the Data Product User Guide for more information.

rea_backgroundFieldCondData:  30

rea_backgroundFieldSaltData:  30

rea_conductivityFieldData:  30

rea_externalLabDataGas:  120

rea_externalLabDataSalt:  120

rea_fieldData:  30

rea_plateauMeasurementFieldData:  30

rea_plateauSampleFieldData:  30

rea_widthFieldData:  30

sdg_externalLabSummaryData:  14
description: Tracer injections are completed 6 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 to capture the rising limb and plateau (for constant rate injections) and falling limb (for slug injections) in situ conductivity values. Instrumentation: YSI Pro2030, HOBO U24