This MEDINA_DATASET_LIGHTCOUNTERACTS_readme.txt file was generated on 2021-05-04 by F. Javier Medina



GENERAL INFORMATION

1. Title of Dataset: Light counteracts microgravity alterations in plant proliferating cells

2. Author Information
	A. Principal Investigator Contact Information
		Name: F. Javier Medina
		Institution: Centro de Investigaciones Biológicas Margarita Salas - CSIC
		Address: Ramiro de Maeztu 9, 28040 Madrid, Spain
		Email: fjmedina@cib.csic.es

	B. Associate or Co-investigator Contact Information
		Name: Aránzazu Manzano
		Institution: Centro de Investigaciones Biológicas Margarita Salas - CSIC
		Address: Ramiro de Maeztu 9, 28040 Madrid, Spain
		Email: aranzazu@cib.csic.es

	C. Alternate Contact Information
		Name: 
		Institution: 
		Address: 
		Email: 

3. Date of data collection (single date, range, approximate date): 2016-10-10/2017-07-25

4. Geographic location of data collection: Centro de Investigaciones Biológicas Margarita Salas - CSIC, Ramiro de Maeztu 9, 28040 Madrid, Spain

5. Information about funding sources that supported the collection of the data: 

Agencia Estatal de Investigación of the Spanish Ministry of Science and Innovation, Grants #ESP2015-64323-R and #RTI2018-099309-B-I00

ESA-CORA-Ground Based Facilities Program, contract Ref. #4000105761

Spanish Ministry of Science an Innovation Ref. #BES-2013-063933


SHARING/ACCESS INFORMATION

1. Licenses/restrictions placed on the data: None

2. Links to publications that cite or use the data: Light signals provide a mechanism of counteracting alterations caused by simulated microgravity in proliferating plant cells. Aránzazu Manzano; Veronica Pereda-Loth; Anne de Bures; Julio Sáez-Vásquez; Raúl Herranz; F. Javier Medina. American Journal of Botany (2021). In press.

3. Links to other publicly accessible locations of the data: 

4. Links/relationships to ancillary data sets: 

5. Was data derived from another source? No
	A. If yes, list source(s): 

6. Recommended citation for this dataset: Light counteracts microgravity alterations in plant proliferating cells - Dataset. F. Javier Medina; A. Manzano. Dryad. doi:10.5061/dryad.63xsj3v23  


DATA & FILE OVERVIEW

1. File List: 

The files included in dataset, in correspondence with manuscript´s figures, are as follows:

Growth direction (figure 2): angle of roots and shoots in relation to the vertical axis (zero degrees). 

Shoot_Root_Length (figure 3):Shoot and root length after the growth period (6 days) in mm.

RT-qPCR-45S_pre_rRNA_root_analyisis (figure 5): Efficiency of primary transcript processing (45S pre_rRNA) by RNA quantification at both ends of the transcript (5´ETS and 3´ETS) and 25S rRNA.  

LCPR_IOD (figure 6): Rate of local cell production (LCPR, number of cells/mm in cells rows) in root meristematic cell layers as indicative parameter of cell proliferation activity and Cyclin B1 gene expression (indicator of the cell proliferation activity, due to its regulator role in the G2/M cell cycle transition checkpoint) by intensity (Integrated Optical Density, I.O.D) GUS staining in root meristems. 

Nucleolar_area (figure 7): Nucleolar size was estimated by quantification of the area immunostained by anti-fibrillarin (nucleolar protein) antibody in the root meristematic cell layers from a central optical section. 

Fluorescence_Intensity (figure 8): Yellow fluorescence intensity of DII-VENUS line plants from confocal images. 

RTqPCR_Meristematic_Competence (figure 9): Expression changes of three sets of genes, selected as markers of meristematic competence: auxin polar transport and perception (EIR and TIR), cell proliferation status (CYCB1;2 and CK2A;2) and cell growth status (NUC1, NUC2 and FIB). 


2. Relationship between files, if important: 

3. Additional related data collected that was not included in the current data package: 

4. Are there multiple versions of the dataset? No
	

METHODOLOGICAL INFORMATION

1. Description of methods used for collection/generation of data: 

See the paper: Light signals provide a mechanism of counteracting alterations caused by simulated microgravity in proliferating plant cells. Aránzazu Manzano; Veronica Pereda-Loth; Anne de Bures; Julio Sáez-Vásquez; Raúl Herranz; F. Javier Medina. American Journal of Botany (2021). In press.  

2. Methods for processing the data: 

All quantifications were performed using ImageJ software from phase contrast and confocal laser scanning microscopical images. 
 
3. Instrument- or software-specific information needed to interpret the data: 

4. Standards and calibration information, if appropriate: 

5. Environmental/experimental conditions: 

1g Control Darkness
1g Control Light
Simulated microgravity (RPM) Darkness
Simulated microgravity (RPM) Light

6. Describe any quality-assurance procedures performed on the data: 

7. People involved with sample collection, processing, analysis and/or submission: 


DATA-SPECIFIC INFORMATION FOR: [FILENAME]

1. Number of variables: Gravity and Light

2. Number of cases/rows: WT (Col-0) and two nucleolin mutants (nuc1 and nuc2)

3. Variable List: 

Growth direction: degrees
Shoot_Root_Length: mm
RT-qPCR-45S_pre_rRNA_root_analyisis and RTqPCR_Meristematic_Competence: Ct
LCPR: LCPR, number of cells/mm in cells rows
Nucleolar_area: μm2


4. Missing data codes: 

5. Specialized formats or other abbreviations used: