ERDDAP > info > bcodmo_dataset_918841_v1

Grid DAP Data	Sub- set	Table DAP Data	Make A Graph	W M S	Source Data Files	Acces- sible	Title	Sum- mary	FGDC, ISO, Metadata	Back- ground Info	RSS	E mail	Institution	Dataset ID
		data	graph		files	public	[T. pseudonana starve-recover experiments: Physiological data] - Diatom (Thalassiosira pseudonana) physiological data from experiments designed to study single-cell transcriptional profiling of nutrient acquisition heterogeneity in diatoms conducted in December of 2022 (EAGER: Diatom Programmed Cell Death at Single-Cell Resolution)		M	background			BCO-DMO	bcodmo_dataset_918841_v1

The Dataset's Variables and Attributes

Row Type	Variable Name	Attribute Name	Data Type	Value
attribute	NC_GLOBAL	cdm_data_type	String	Other
attribute	NC_GLOBAL	Conventions	String	COARDS, CF-1.6, ACDD-1.3
attribute	NC_GLOBAL	creator_email	String	info at bco-dmo.org
attribute	NC_GLOBAL	creator_name	String	BCO-DMO
attribute	NC_GLOBAL	creator_url	String	https://www.bco-dmo.org/
attribute	NC_GLOBAL	doi	String	10.26008/1912/bco-dmo.918841.1
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/918841
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	license	String	The data may be used and redistributed for free but is not intended for legal use, since it may contain inaccuracies. Neither the data Contributor, ERD, NOAA, nor the United States Government, nor any of their employees or contractors, makes any warranty, express or implied, including warranties of merchantability and fitness for a particular purpose, or assumes any legal liability for the accuracy, completeness, or usefulness, of this information.
attribute	NC_GLOBAL	sourceUrl	String	(local files)
attribute	NC_GLOBAL	summary	String	This dataset includes physiological data for diatom Thalassiosira pseudonana grown during experiments conducted as part of a study of "Single-Cell transcriptional profiling of nutrient acquisition heterogeneity in diatoms." See "Related Datasets" section for T. pseudonana gene and cell information collected as part of the same study and experiments. Study description: Diatoms (Bacillariophyceae) are unicellular photosynthetic algae, accounting for about 40% of total marine primary production (equivalent to terrestrial rainforests) and critical ecological players in the contemporary ocean. Diatoms can form enormous blooms in the ocean that can be seen from space and are the base of food webs in coastal and upwelling systems, support essential fisheries, and are central to the biogeochemical cycling of important nutrients such as carbon and silicon. Over geological time, diatoms have influenced the world's climate by changing the carbon flux into the oceans. Diatoms have traditionally been studied on a population level. Growth is often measured by the total increase in biomass, and gene expression is analyzed by isolating mRNA from thousands or millions of cells. These methods generate a valuable analysis on the population's average functioning; however, they fail to show how each individual diatom cell contributes to the population phenotype. Bulk transcriptomes confound different stages and variability of cell states in heterogeneous populations. By contrast, single-cell transcriptomics measures gene expression in thousands of individual diatoms providing a quantitative and ultrahigh-resolution picture of transient cell states in population fractions enabling the reconstruction of the various phenotypic trajectories. Thus, the single-cell physiological and molecular parameters analysis allows an unsupervised assessment of cell heterogeneity within a population—a new dimension in diatoms and phytoplankton in general. In this dataset, we examine the model diatom Thalassiosira pseudonana clonal cells grown in different nitrogen conditions, at the single cell level when grown in a light: dark cycle (12:12 h). Nitrogen is the major limiting nutrient for primary production and growth in the ocean's surface, specifically for diatoms and the food webs they support. We investigate nutrient limitation, starvation and recovery. We used droplet-based, single-cell transcriptomics to analyze ten samples in two stages. In the first stage ("starvation"), six samples were collected over four days of culture as nutrient levels decreased. In the second stage ("recovery"), four samples were collected over twelve hours after nutrients were replenished.
attribute	NC_GLOBAL	time_coverage_end	String	2022-12-10T03:00:00Z
attribute	NC_GLOBAL	time_coverage_start	String	2022-12-04T21:00:00Z
attribute	NC_GLOBAL	title	String	[T. pseudonana starve-recover experiments: Physiological data] - Diatom (Thalassiosira pseudonana) physiological data from experiments designed to study single-cell transcriptional profiling of nutrient acquisition heterogeneity in diatoms conducted in December of 2022 (EAGER: Diatom Programmed Cell Death at Single-Cell Resolution)
variable	Species		String
attribute	Species	long_name	String	Species
attribute	Species	units	String	unitless
variable	Identification		int
attribute	Identification	actual_range	int	1, 1
attribute	Identification	long_name	String	Identification
attribute	Identification	units	String	unitless
variable	Date		String
attribute	Date	long_name	String	Date
attribute	Date	units	String	unitless
variable	Time		String
attribute	Time	long_name	String	Time
attribute	Time	units	String	unitless
variable	time		double
attribute	time	_CoordinateAxisType	String	Time
attribute	time	actual_range	double	1.6701876E9, 1.6706412E9
attribute	time	axis	String	T
attribute	time	ioos_category	String	Time
attribute	time	long_name	String	Iso_datetime_utc
attribute	time	standard_name	String	time
attribute	time	time_origin	String	01-JAN-1970 00:00:00
attribute	time	units	String	seconds since 1970-01-01T00:00:00Z
variable	Hours		int
attribute	Hours	actual_range	int	0, 128
attribute	Hours	long_name	String	Hours
attribute	Hours	units	String	unitless
variable	Diel		String
attribute	Diel	long_name	String	Diel
attribute	Diel	units	String	unitless
variable	PPM_CO2_analyzer		int
attribute	PPM_CO2_analyzer	actual_range	int	404, 442
attribute	PPM_CO2_analyzer	long_name	String	Ppm_co2_analyzer
attribute	PPM_CO2_analyzer	units	String	parts per million (ppm)
variable	cell_counts_q1		int
attribute	cell_counts_q1	actual_range	int	23, 281
attribute	cell_counts_q1	long_name	String	Cell_counts_q1
attribute	cell_counts_q1	units	String	cells
variable	cell_counts_q2		int
attribute	cell_counts_q2	actual_range	int	18, 241
attribute	cell_counts_q2	long_name	String	Cell_counts_q2
attribute	cell_counts_q2	units	String	cells
variable	cell_counts_q3		int
attribute	cell_counts_q3	actual_range	int	16, 286
attribute	cell_counts_q3	long_name	String	Cell_counts_q3
attribute	cell_counts_q3	units	String	cells
variable	cell_counts_q4		int
attribute	cell_counts_q4	actual_range	int	23, 264
attribute	cell_counts_q4	long_name	String	Cell_counts_q4
attribute	cell_counts_q4	units	String	cells
variable	dF		int
attribute	dF	actual_range	int	1, 1
attribute	dF	long_name	String	Df
attribute	dF	units	String	unitless
variable	cells_mL_avgerage		int
attribute	cells_mL_avgerage	actual_range	int	200000, 2560000
attribute	cells_mL_avgerage	long_name	String	Cells_ml_avgerage
attribute	cells_mL_avgerage	units	String	cells per ml (cells/ml)
variable	Quantum_yield_1		float
attribute	Quantum_yield_1	actual_range	float	0.13, 0.51
attribute	Quantum_yield_1	long_name	String	Quantum_yield_1
attribute	Quantum_yield_1	units	String	unitless
variable	Quantum_yield_2		float
attribute	Quantum_yield_2	actual_range	float	0.13, 0.51
attribute	Quantum_yield_2	long_name	String	Quantum_yield_2
attribute	Quantum_yield_2	units	String	unitless
variable	Quantum_Yield_3		float
attribute	Quantum_Yield_3	actual_range	float	0.08, 0.5
attribute	Quantum_Yield_3	long_name	String	Quantum_yield_3
attribute	Quantum_Yield_3	units	String	unitless
variable	QY_AVG		float
attribute	QY_AVG	actual_range	float	0.1166667, 0.5066667
attribute	QY_AVG	long_name	String	Qy_avg
attribute	QY_AVG	units	String	unitless
variable	FT1		int
attribute	FT1	actual_range	int	664, 1852
attribute	FT1	long_name	String	Ft1
attribute	FT1	units	String	unitless
variable	FT2		int
attribute	FT2	actual_range	int	648, 1875
attribute	FT2	long_name	String	Ft2
attribute	FT2	units	String	unitless
variable	FT3		int
attribute	FT3	actual_range	int	649, 1877
attribute	FT3	long_name	String	Ft3
attribute	FT3	units	String	unitless
variable	FT_AVG		float
attribute	FT_AVG	actual_range	float	654.3333, 1868.0
attribute	FT_AVG	long_name	String	Ft_avg
attribute	FT_AVG	units	String	unknown
variable	pH		float
attribute	pH	actual_range	float	7.965, 8.729
attribute	pH	long_name	String	Ph
attribute	pH	units	String	unitless
variable	Sample_for_RNA		String
attribute	Sample_for_RNA	long_name	String	Sample_for_rna
attribute	Sample_for_RNA	units	String	unitless
variable	Cell_Pellet		String
attribute	Cell_Pellet	long_name	String	Cell_pellet
attribute	Cell_Pellet	units	String	unitless
variable	CF_Media		String
attribute	CF_Media	long_name	String	Cf_media
attribute	CF_Media	units	String	unitless
variable	uM_Nitrate1		float
attribute	uM_Nitrate1	actual_range	float	-4.268657, 158.8852
attribute	uM_Nitrate1	long_name	String	Um_nitrate1
attribute	uM_Nitrate1	units	String	micromolar (uM)
variable	uM_Nitrate2		float
attribute	uM_Nitrate2	actual_range	float	-3.522388, 146.4262
attribute	uM_Nitrate2	long_name	String	Um_nitrate2
attribute	uM_Nitrate2	units	String	micromolar (uM)
variable	uM_Nitrate3		float
attribute	uM_Nitrate3	actual_range	float	-3.074627, 142.4918
attribute	uM_Nitrate3	long_name	String	Um_nitrate3
attribute	uM_Nitrate3	units	String	micromolar (uM)
variable	uM_Nitrate_AVG		float
attribute	uM_Nitrate_AVG	actual_range	float	-3.621891, 148.612
attribute	uM_Nitrate_AVG	long_name	String	Um_nitrate_avg
attribute	uM_Nitrate_AVG	units	String	micromolar (uM)

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.