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Sample GSM655599 Query DataSets for GSM655599
Status Public on Feb 01, 2011
Title Chickpea salt stressed and control roots and nodules - Salt stressed Roots
Sample type SRA
 
Source name Chickpea variety Inrat-93 roots - salt-stressed
Organism Cicer arietinum
Characteristics treatment: salt
Biomaterial provider ICARDA
Treatment protocol 2h 25 Mm NaCl
Growth protocol Seedlings were further grown for 20 days in a temperature-controlled glasshouse with a day/night temperature regime of 28/20°C and a 16h photoperiod with additional light of 400 µmol PAR m-2s-1. Micro- and macro-nutrient concentrations in the growth medium were adjusted to 0.7mM K2SO4, 1mM MgSO4.7H2O, 1.65 mM CaCl2, 22.5 mM H2PO4 (macronutrients), and 6.6 mM Mn2+, 4 mM Bo3+, 1.5 mM Cu2+, 1.5 mM Zn2+(micronutrients) and additionally 2.0 g L-1 CaCO3 as pH regulator. After one round of compression and filtering, a constant air flow of 400 mL (compressed air) / liter of solution / minute was applied to each bucket through ‘‘spaghetti” tubes system
Extracted molecule polyA RNA
Extraction protocol CTAB LiCl gradient; PolyA+ RNA capture
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model 454 GS
 
Description Sequencing Instrument: First gerenration 454-Machine
Place of sequencing: 454 Life Sciences, Branford, CT, USA
Data processing Discovery Space software data processing
 
Submission date Jan 14, 2011
Last update date Jun 11, 2013
Contact name Carlos Mauricio Molina
E-mail(s) carmolin@gmail.com, carlos.molina@dijon.inra.fr
Organization name INRA
Department UMRLEG
Lab P. sativum
Street address 17 Rue Sully
City Dijon
State/province Bourgogne
ZIP/Postal code 21000
Country France
 
Platform ID GPL11675
Series (1)
GSE26638 The salt-responsive transcriptome of chickpea roots and nodules via deepSuperSAGE
Relations
BioSample SAMN02197097

Data table header descriptions
SEQUENCE
COUNT

Data table
SEQUENCE COUNT
AATGGATTAACGAGATTCCCAC 456
CAAACGCTGATGATGTGTAGTT 392
TGTAAGCAAATATAGCTAATAT 375
TATCATAAAGTGAATACATAGC 366
GGCTTAAAGACGTATTTATGTA 339
GGAGGTTGTGAAACCACTTAAG 256
GACTAGTAGTGATTGGAAGGGT 239
TGTTAACGTTGCCTAAAGATAT 238
AAATTGTAGATAACTGTTTGTG 223
TGTGATGTATTGTTGTAATTGT 221
GGTGTTTGTGTATCGCACAATT 215
GGTTAGAGGAAGGCAACCCATT 207
CGTCAAACTGTTGCTGTCGGTG 206
TACGTGAAACGTTGAATGAATG 182
CATATTTGCTTATGTTGTTTCT 163
TCCTATGTTACTTGAGAGTTGA 160
TAACATAGAGACATAATAAACT 150
TTATGATGTAAAACACAATAAG 149
CATTGTCTATGTGGTTCGGTTC 147
CCAAGCGTGTTACAATTATGCC 131

Total number of rows: 14404

Table truncated, full table size 352 Kbytes.




Supplementary data files not provided
Raw data not provided for this record
Processed data included within Sample table

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