cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.48443/ecg2-af83
title: Root biomass and chemistry, periodic (DP1.10067.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's belowground biomass protocol. These data enable estimation of the amount of belowground plant biomass <= 10 mm diameter within the area surrounding the NEON eddy covariance tower. At many sites this will also be the dominant vegetation type(s). Samples are collected once every five years. Whenever possible, NEON uses a 3-inch outside diameter (6.65 cm inside diameter) soil corer for belowground biomass sampling, with samples cored to 30 cm depth in order to be consistent with the sampling depth used for soil biogeochemistry and microbe sampling. All roots are sorted into three size category bins: <1 mm, 1-2 mm, and 2-10 mm. After sorting, root material is dried, weighed, and analyzed, then any excess root material is archived in the NEON Biorepository and available upon request. For additional details, see the user guide, protocols, and science design listed in the Documentation section below. Products resulting from this sampling include root biomass by size class as well as root chemistry and stable isotope ratios. A summary table of analytical lab precision and accuracy is included in the expanded package.

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.

bbc_chemistryPooling:  90

bbc_dilution:  90

bbc_percore:  28

bbc_rootmass:  90

bbc_rootChemistry: 270

bgc\_CNiso\_externalSummary: 30
description: Each site is sampled every five years. At each terrestrial NEON site, roots are sampled from base plots (20-30) within the tower airshed (Tower plots). In each Tower plot, one or two clip cells (depending on plot size) are randomly chosen out of the pre-determined clip cell locations for root coring. The same clip cells are also used for annual aboveground Herbaceous Biomass sampling. In 20m x 20m Tower plots, two soil cores are sampled from one clip cell per bout. In 40m x 40m Tower plots soil core sampling occurs in two (out of four) randomly assigned 20m x 20m subplots, and two soil cores are sampled from one clip cell per subplot per bout. A root core is taken to 30 cm maximum depth from both the northern and southern end of the clip cell. Biomass per size category is pooled by clip strip prior to chemistry analyses, and only live or unsorted biomass is analyzed. Carbon and nitrogen concentrations and stable isotopes are measured, but other analyses are possible by requesting access to remaining root material from the NEON Biorepository. Instrumentation:
DOI: 10.48443/p4re-p954
title: Small mammal box trapping (DP1.10072.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from NEON's small mammal sampling protocol. Small mammal abundance and diversity are sampled at regular intervals by NEON field technicians at core and relocatable sites. Here small mammals are defined based on a combination of behavioral, dietary, and size constraints, as the NEON design is limited to species sampled by box traps. This definition includes any mammal that is (1) nonvolant; (2) nocturnally active; (3) forages predominantly aboveground; and (4) is greater than 5 grams but less than approximately 500-600 g. In North America, this includes cricetids, heteromyids, small sciurids, and introduced murids. It does not include shrews, large squirrels, rabbits, or weasels, despite the fact that individuals of these species may be incidentally captured. Products resulting from this sampling include the species identification and unique identifier for each individual captured, as well as a suite of standard size measurements and reproductive condition data. Sample identifiers for any blood, ear, hair, whisker, fecal, and/or voucher samples collected are also provided. For additional details, see the user guide, protocols, and science design listed in the Documentation section in this data product's details webpage. For spatial data (text and shapefiles), download [`NEON_TOS_Plots`](https://data.neonscience.org/api/v0/documents/All_NEON_TOS_Plots_V7).

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.

mam_perplotnight:  45

mam_pertrapnight:  45

mam_voucher:  45
description: Small mammal sampling is based on the lunar calendar, with timing of sampling constrained to occur within 10 days before or after the new moon. Typically, core sites are sampled 6 times per year, and relocatable sites 4 times per year. Small mammals are sampled using box traps (models LFA, XLK, H.B. Sherman Traps, Inc., Tallahassee, FL, USA). Box traps are arrayed in three to eight (depending on the size of the site) 10 x 10 grids with 10m spacing between traps at all sites. Small mammal trapping bouts are comprised of one or three nights of trapping, depending on whether a grid is designated for pathogen sample collection (3 nights) or not (1 night). Instrumentation:
DOI: 10.48443/pqzc-wq87
title: Small mammal sequences DNA barcode (DP1.10076.001)
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 small mammal sequences. The DNA barcoding procedure involves the non-distructive collection of tissue from live specimens in the field, 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. 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: Small Mammal 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.

mam_BOLDcollectionData:  375

mam_BOLDspecimenDetails:  375

mam_BOLDtaxonomy:  375

mam_BOLDvoucherInfo:  375
description: Up to 240 ear punches will be collected from each target and opportunistic species per site per year. These tissues will be preserved in an appropriate tissue vial and up to 95 tissue samples per domain will be 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/p0ge-z118
title: Soil microbe community composition (DP1.10081.001)
title: RELEASE-2023

description: This data product contains the quality-controlled laboratory data and metadata for NEON's soil bacterial, archaeal, and fungal community composition analysis derived from soil microbial sampling. Taxon tables are derived from the 16S and ITS marker gene sequencing data product, NEON.DP1.10108. 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\_soilSeqVariantMetadata\_16S:  730

mcc\_soilSeqVariantMetadata\_ITS:  730

mcc\_taxonTableLabSummary:  7
description: Soil sampling occurs annually at a minimum of one site per domain and once (sites with short growing seasons) to three times per year (sites with longer growing seasons), with collections occurring at every sampled site during the historic peak in vegetation greenness. Three pre-determined, randomly assigned locations are selected for each sampling event within each of 10 plots distributed throughout a site; sampling locations within a plot are not re-sampled. Soil samples are collected to a maximum depth of 30 cm, with organic and mineral soils sampled separately. The same samples are used for measurement of soil physical and chemical properties to maintain temporal and spatial connectivity. Subsamples of homogenized soil (rocks, roots and organic debris removed) from each of the 3 sampling locations are stored in sterile containers, frozen on dry ice in the field and shipped 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/nyst-jp72
title: Tick pathogen status (DP1.10092.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data derived from NEON's tick pathogen testing. Products resulting from this sampling include results of testing individual ticks collected during NEON tick sampling for pathogen presence/absence. See NEON Product Ticks sampled using drag cloths (DP1.10093.001) for data on the abundance and diversity of ticks collected at NEON sites. Following collection, tick samples are sent to a professional taxonomist where ticks are identified to species and sex. A subset of positively-identified nymphal ticks are tested for the presence of bacterial and protozoan pathogens. 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.

tck_pathogen:  390

tck_pathogenqa:  390
description: A target of 130 individual ticks per site per year are selected for pathogen testing, with the total numbers tested in a given site-year dependent on availability. Ixodes scapularis and Ixodes pacificus (if available beyond what is used for archive) nymphs are targeted for testing of Anaplasma phagocytophilum, Babesia microti, Ehrlichia muris-like agent, Borrelia burgdorferi sensu lato, Borrelia miyamotoi, and Borrelia mayonii. Nymphs in the genera Amblyomma and Dermacentor (if available beyond what is used for archive) are targeted for testing of Francisella tularensis, Rickettsia rickettsia, Anaplasma phagocytophilum, Ehrlichia chaffeensis, Ehrlichia ewingii, and Borrelia lonestari. Instrumentation:
DOI: 10.48443/fh83-k817
title: Ticks sampled using drag cloths (DP1.10093.001)
title: RELEASE-2023

description: This data product contains the quality-controlled, native sampling resolution data from the Tick and Tick-Borne Pathogen Sampling protocol. Tick abundance and diversity are sampled at regular intervals by NEON field technicians at core and relocatable sites using drag or flag sampling techniques. For additional details on protocol, see the TOS Protocol and Procedure: Tick and Tick-Borne Pathogen Sampling. Following collection, samples are sent to a professional taxonomist where ticks are identified to species and lifestage and/or sex. Identified ticks are then processed for pathogen analysis or preserved for final archiving. Products resulting from this sampling and processing include records of when ticks were sampled and the taxonomic and abundance data of ticks captured. 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.

tck_fielddata:  30

tck_taxonomyProcessed:  300

tck_taxonomyRaw:  300
description: During the growing season, sampling is conducted every three weeks at sites where more than five ticks have been detected in the last year and every six weeks elsewhere. Sampling also occurs only if the high temperature on two consecutive days prior to planned sampling exceeds 0 °C, and the ground is dry. Instrumentation:
DOI: 10.48443/rwbj-ry66
title: Soil microbe biomass (DP1.10104.001)
title: RELEASE-2023

description: This data product contains the quality-controlled laboratory data and metadata for microbial biomass derived from soil microbial sampling. Microbial biomass is measured by phospholipid fatty acid (PLFA) analysis, in which a set of microbial lipid biomarkers is extracted and quantified using either Gas Chromatography (GC) or Gas Chromatography-Mass Spectrometry (GS-MS).  The results are provided as the quantities of individual microbial lipids as well as the total of all measured phospholipids within a sample. 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.

sme_batchResults:  14

sme_labSummary:  14

sme_microbialBiomass:  240
description: Soil sampling occurs annually at a minimum of one site per domain and once (sites with short growing seasons) to three times per year (sites with longer growing seasons), with collections occurring at every sampled site during the historic peak in vegetation greenness. Three pre-determined, randomly assigned locations are selected for each sampling event within each of 10 plots distributed throughout a site; sampling locations within a plot are not re-sampled. Soil samples are collected to a maximum depth of 30 cm, with organic and mineral soils sampled separately. The same samples are used for measurement of soil physical and chemical properties to maintain temporal and spatial connectivity. Subsamples of homogenized soil are either sieved (mineral soils), or picked of coarse debris such as rocks, roots and organic material (organic soils) and 5-10g are transferred to cryo-safe vials. The samples are frozen and shipped on dry ice to an analytical facility, where freeze-drying, PLFA extraction and GC analysis is performed. Laboratory data are passed through the NEON automated ingest process, undergo additional QAQC testing, and quality-checked data are published on the NEON data portal. Instrumentation:
DOI: 10.48443/e4zf-b917
title: Soil microbe metagenome sequences (DP1.10107.001)
title: RELEASE-2023

description: Abstract: This data product contains the quality-controlled laboratory metadata and minimally processed sequence data from NEON's soil microbial shotgun metagenomics sequencing. Typically, measurements are done on plot-level composite samples and represent up to three randomly selected sampling locations within a plot. 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 the basic data product package will return metadata tables that include laboratory methods and results from DNA extraction, sample preparation, and DNA sequencing for samples from the specified sites and within the specified 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.

mms_metagenomeDnaExtraction:  240

mms_metagenomeSequencing:  240

mms_rawDataFiles: 240
description: Three pre-determined, randomly assigned locations are selected for each sampling event within each of 10 plots distributed throughout a site; sampling locations within a plot are not re-sampled. Soil metagenomics sampling occurs annually during the historic peak in vegetation greenness. Soil samples are collected to a maximum depth of 30 cm, with organic and mineral soils sampled separately. Subsamples of homogenized soil (rocks, roots and organic debris removed) from each of the 3 sampling locations are combined to form a plot-level composite sample that is used for metagenomics analysis. Samples are frozen on dry ice and shipped to an analytical facility for DNA extraction, sample preparation and shotgun metagenomic sequencing. Laboratory metadata are then delivered to NEON for QC testing and acceptance, and then are formatted for upload to public sequence repositories. Instrumentation:
DOI: 10.48443/y0ry-xp72
title: Soil microbe marker gene sequences (DP1.10108.001)
title: RELEASE-2023

description: This data product contains the quality-controlled laboratory metadata and 16S and ITS marker gene sequences derived from NEON's soil microbial sampling. 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 the basic data product package will return metadata tables that include 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, which can be used to download the sequences from the NEON data portal. 

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.

mmg_soilDnaExtraction:  240

mmg\_soilMarkerGeneSequencing\_16S:  240

mmg\_soilMarkerGeneSequencing\_ITS:  240

mmg\_soilPcrAmplification\_16S:  240

mmg\_soilPcrAmplification\_ITS:  240

mmg_soilRawDataFiles: 240
description: Soil sampling occurs annually at a minimum of one site per domain and once (sites with short growing seasons) to three times per year (sites with longer growing seasons), with collections ocurring at every sampled site during the historic peak in vegetation greenness. Three pre-determined, randomly assigned locations are selected for each sampling event within each of 10 plots distributed throughout a site; sampling locations within a plot are not re-sampled. Soil samples are collected to a maximum depth of 30 cm, with organic and mineral soils sampled separately. The same samples are used for measurement of soil physical and chemical properties to maintain temporal and spatial connectivity. Subsamples of homogenized soil (rocks, roots and organic debris removed) from each of the three sampling locations are stored in sterile containers, frozen on dry ice in the field and shipped to an analytical facility for DNA extraction, sample preparation and high-throughput sequence analysis using primer sets targeting the small subunit of the ribosomal RNA gene operon. Laboratory metadata are passed through the NEON automated ingest process for QC testing and are published on the NEON data portal. DNA sequence data undergo QC testing and unique URLs are generated to enable data download. Instrumentation:
DOI: 10.48443/pfs0-c061
title: Soil microbe group abundances (DP1.10109.001)
title: RELEASE-2023

description: This data product contains the quality-controlled laboratory data and metadata for NEON's soil bacterial, archaeal, and fungal group abundances analysis, which are derived from soil microbial sampling. Group abundances are quantified via qPCR on frozen, field-collected soils. For additional details, see protocol [NEON.DOC.014048](http://data.neonscience.org/api/v0/documents/NEON.DOC.014048vJ): TOS Protocol and Procedure for Soil Biogeochemical and Microbial Sampling; and science design [NEON.DOC.000908](http://data.neonscience.org/api/v0/documents/NEON.DOC.000908vB): TOS Science Design for Terrestrial Microbial Diversity.

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.

mga_batchResults:  14

mga_labSummary:  14

mga_soilGroupAbundances:  240
description: This data product was discontinued as of June 2020. Three predetermined, randomly assigned locations are selected for each sampling event within each of 10 plots distributed throughout a site; sampling locations within a plot are not re-sampled. Soil sampling occurs once (sites with short growing seasons) to three times a year (sites with longer growing seasons), with all sites sampled during the historic peak in vegetation greenness. Soil samples are collected to a maximum depth of 30 cm, with organic and mineral soils sampled separately. Subsamples of homogenized soil (rocks, roots and organic debris removed) from each of the 3 sampling locations are stored in sterile containers, frozen on dry ice in the field and shipped to an analytical facility for DNA extraction, sample preparation and qPCR analysis uses primer sets targeting the small subunit of the ribosomal RNA gene. Instrumentation:
DOI: 10.48443/qc0a-ve34
title: Site management and event reporting (DP1.10111.001)
title: RELEASE-2023

description: This data product contains records of land management activities, disturbances, and other incidents of ecological note within all NEON sites. Records are reported about management activities and disturbances that have the potential to impact or affect data products across all NEON data-generating systems (TIS, TOS, AIS, AOS, and AOP) that are not collected as part of existing data product protocols. 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.

sim_eventData: 60
description: Site management activity and disturbance reporting occurs at the time NEON staff are aware of the planned or unplanned event, either through direct observation during normal scheduled site visits or secondary reports from landowners, site hosts, and other reliable sources. For planned events, reporting is expected to occur only after the management activity has been started. For unplanned events, data recording takes place as soon as the disturbance is observed as well as when it is safe to assess the scale and intensity of the impact. Instrumentation: