Hordeum spontaneum

BioProject Information

Project ID Title Publication Instrument Description Notes
PRJNA481620Hordeum vulgare Genome sequencingIdentification of microRNAs in response to aluminum stress in the roots of Tibetan wild barley and cultivated barleyIllumina HiSeq 2500Up to date, there is no report about sequencing and identification of miRNA responsive to Al stress in barley. Thus, this study could provide useful information for revealing molecular mechanism of miRNAs in regulating Al tolerance in barley.Aluminum stress
PRJNA485436A wild barley accession WB-1 and a barley cultivar Golden Promise Raw sequence readsIdentification of microRNAs Responding to Aluminium, Cadmium and Salt Stresses in Barley RootsIllumina HiSeq 250016 small RNA libraries of shoot and root tissues from a wild barley accession (WB-1) and a cultivar Golden Promise with contrasting Cd tolerance were constructed and sequenced. Moreover, a degradome library was also conducted to identify the target genes of miRNAs.Aluminium, Cadmium and Salt Stresses
PRJNA507337Small RNA and degradome sequencing of cultivated barley and Tibetan wild barleyDifferential changes in grain ultrastructure, amylase, protein and amino acid profiles between Tibetan wild and cultivated barleys under drought and salinity alone and combined stress.Illumina HiSeq 2500Using small RNA sequencing and degradome analysis to identify microRNAs in response to salt stress in cultivated and Tibetan wild barley.Drought and salinity alone and combined stress
PRJNA682179Identification of microRNAs in response to low potassium stress in the shoots of Tibetan wild barley and cultivated barley [miRNA-seq]Identification of microRNAs in response to low potassium stress in the shoots of Tibetan wild barley and cultivatedIllumina HiSeq 2500Soil potassium deficiency has become a global problem in agricultural production, seriously restricting crops productions and agricultural sustainable development. Identification of the microRNAs and understanding their functions in response to low K stress will be helpful for developing crop varieties with low K tolerance. Our previous study identified a low K tolerant accession XZ153 from Tibetan wild barley. In this study, small RNA and degradome analysis were performed on two barley genotypes differing in low K tolerance (XZ153, tolerant; ZD9, sensitive) to identify the miRNAs and their targets responding to low K stress. A total of 1108 miRNAs were detected in shoots of XZ153, and ZD9 at 2 d and 7 d after low K stress, and their targets were identified through bioinformatics prediction and degradome analysis. We identified 65 differentially expressed miRNAs responding to low K stress. The results also showed that miR164c, miR169h and miR395a modules could mediate TCA cycle, glycolysis pathway and pentose phosphate pathway responding to low K stress. The osa-miR166g-3p and ghr-miR482b may act as the regulators in Ca2+ signaling pathway in response to low K stress. The methionine salvage cycle involved in ethylene biosynthesis process mediated by miR396c-3p and osa-miR171e-5p might be also involved in responding to low K stress. Some miRNAs, including miR160a, miR396c and miR169h modules, which participated in photosynthesis regulation under low K stress, differed between the two barley genotypes. In conclusion, these exclusively expressed miRNAs and their targets play the crucial roles in low K tolerance. Overall design: A total of 24 shoot samples (two genotypes × two potassium conditions × two time periods × three replications) were harvested for further RNA isolation and library construction.Soil potassium deficiency

Sample Information

Run Library Name Library Selection Age Tissue Cultivar Sample Name Geographic Location Name Treatment Replicate
SRR8265663XZ16-S-Salt-2RT-PCRabout 25-day-oldShootTibetan wild barley accession XZ16XZ16-S-Salt-2China: Qinghai Tibet Plateau200mM NaClreplicate 2
SRR8265664XZ16-S-SaltRT-PCRabout 25-day-oldShootTibetan wild barley accession XZ16XZ16-S-Salt-1China: Qinghai Tibet Plateau200mM NaClreplicate 1
SRR8265665XZ16-R-ControlRT-PCRabout 25-day-oldRootTibetan wild barley accession XZ16XZ16-R-Control-1China: Qinghai Tibet Plateaucontrolreplicate 1
SRR8265667GP-R-Control-2RT-PCRabout 25-day-oldRootGolden PromiseGP-R-Control-2-controlreplicate 2
SRR8265668XZ16-R-Control-2RT-PCRabout 25-day-oldRootTibetan wild barley accession XZ16XZ16-R-Control-2China: Qinghai Tibet Plateaucontrolreplicate 2
SRR8265669GP-R-ControlRT-PCRabout 25-day-oldRootGolden PromiseGP-R-Control-1-controlreplicate 1
SRR8265670XZ16-R-Salt-2RT-PCRabout 25-day-oldRootTibetan wild barley accession XZ16XZ16-R-Salt-2China: Qinghai Tibet Plateau200mM NaClreplicate 2
SRR8265671GP-R-SaltRT-PCRabout 25-day-oldRootGolden PromiseGP-R-Salt-1-200mM NaClreplicate 1
SRR8265672GP-S-Control-2RT-PCRabout 25-day-oldShootGolden PromiseGP-S-Control-2-controlreplicate 2
SRR8265673XZ16-R-SaltRT-PCRabout 25-day-oldRootTibetan wild barley accession XZ16XZ16-R-Salt-1China: Qinghai Tibet Plateau200mM NaClreplicate 1
SRR8265674GP-S-ControlRT-PCRabout 25-day-oldShootGolden PromiseGP-S-Control-1-controlreplicate 1
SRR8265675GP-R-Salt-2RT-PCRabout 25-day-oldRootGolden PromiseGP-R-Salt-2-200mM NaClreplicate 2
SRR8265676GP-S-Salt-2RT-PCRabout 25-day-oldShootGolden PromiseGP-S-Salt-2-200mM NaClreplicate 2
SRR8265677GP-S-SaltRT-PCRabout 25-day-oldShootGolden PromiseGP-S-Salt-1-200mM NaClreplicate 1
SRR8265678XZ16-S-Control-2RT-PCRabout 25-day-oldShootTibetan wild barley accession XZ16XZ16-S-Control-2China: Qinghai Tibet Plateaucontrolreplicate 2
SRR8265679XZ16-S-ControlRT-PCRabout 25-day-oldShootTibetan wild barley accession XZ16XZ16-S-Control-1China: Qinghai Tibet Plateaucontrolreplicate 1

Run Library Selection Time Tissue Cultivar Phenotype Sample Name Treatment
SRR13183018size fractionation7 daysshootXZ153low K tolerantXZ153low K
SRR13183017size fractionation7 daysshootXZ153low K tolerantXZ153low K
SRR13183016size fractionation7 daysshootXZ153low K tolerantXZ153low K
SRR13183015size fractionation7 daysshootXZ153low K tolerantXZ153control
SRR13183014size fractionation7 daysshootXZ153low K tolerantXZ153control
SRR13183013size fractionation7 daysshootXZ153low K tolerantXZ153control
SRR13183012size fractionation7 daysshootZD9low K sensitiveZD9low K
SRR13183011size fractionation7 daysshootZD9low K sensitiveZD9low K
SRR13183010size fractionation7 daysshootZD9low K sensitiveZD9low K
SRR13183009size fractionation7 daysshootZD9low K sensitiveZD9control
SRR13183008size fractionation7 daysshootZD9low K sensitiveZD9control
SRR13183007size fractionation7 daysshootZD9low K sensitiveZD9control
SRR13183006size fractionation2 daysshootXZ153low K tolerantXZ153low K
SRR13183005size fractionation2 daysshootXZ153low K tolerantXZ153low K
SRR13183004size fractionation2 daysshootXZ153low K tolerantXZ153low K
SRR13183003size fractionation2 daysshootXZ153low K tolerantXZ153control
SRR13183002size fractionation2 daysshootXZ153low K tolerantXZ153control
SRR13183001size fractionation2 daysshootXZ153low K tolerantXZ153control
SRR13183000size fractionation2 daysshootZD9low K sensitiveZD9low K
SRR13182999size fractionation2 daysshootZD9low K sensitiveZD9low K
SRR13182998size fractionation2 daysshootZD9low K sensitiveZD9low K
SRR13182997size fractionation2 daysshootZD9low K sensitiveZD9control
SRR13182996size fractionation2 daysshootZD9low K sensitiveZD9control
SRR13182995size fractionation2 daysshootZD9low K sensitiveZD9control

Run Library Name Library Selection Age Tissue Cultivar Sample Name Replicate
SRR7687211Root_WB-1_Cd1cDNA22 daysrootWB-1Root_C_Cd1WB-1_Cd_root_replication 1
SRR7687212Root_WB-1_Cd2cDNA22 daysrootWB-1Root_C_Cd2WB-1_Cd_root_replication 2
SRR7687213Root_GP_Cd1cDNA22 daysrootGolden PromiseRoot_A_Cd1GP_Cd_root_replication 1
SRR7687214Root_GP_Cd2cDNA22 daysrootGolden PromiseRoot_A_Cd2GP_Cd_root_replication 2
SRR7687215Root_WB-1_CK1cDNA22 daysrootWB-1Root_C_CK1WB-1_CK_root_replication 1
SRR7687216Root_WB-1_CK2cDNA22 daysrootWB-1Root_C_CK2WB-1_CK_root_replication 2
SRR7687217Root_GP_CK1cDNA22 daysrootGolden PromiseRoot_A_CK1GP_CK_root_replication 1
SRR7687218Root_GP_CK2cDNA22 daysrootGolden PromiseRoot_A_CK2GP_CK_root_replication 2
SRR7687219Shoot_WB-1_Cd1cDNA22 daysshootWB-1Shoot_C_Cd1WB-1_Cd_shoot_replication 1
SRR7687220Shoot_WB-1_Cd2cDNA22 daysshootWB-1Shoot_C_Cd2WB-1_Cd_shoot_replication 2
SRR7687221Shoot_GP_Cd1cDNA22 daysshootGolden PromiseShoot_A_Cd1GP_Cd_shoot_replication 1
SRR7687222Shoot_GP_Cd2cDNA22 daysshootGolden PromiseShoot_A_Cd2GP_Cd_shoot_replication 2
SRR7687223Shoot_WB-1_CK1cDNA22 daysshootWB-1Shoot_C_CK1WB-1_CK_shoot_replication 1
SRR7687224Shoot_WB-1_CK2cDNA22 daysshootWB-1Shoot_C_CK2WB-1_CK_shoot_replication 2
SRR7687225Shoot_GP_CK1cDNA22 daysshootGolden PromiseShoot_A_CK1GP_CK_shoot_replication 1
SRR7687226Shoot_GP_CK2cDNA22 daysshootGolden PromiseShoot_A_CK2GP_CK_shoot_replication 2

Run Library Name Library Selection Ecotype Age Tissue Cultivar Sample Name Replicate
SRR7543962XZ29-Al1cDNAAI tolerant20 daysroot-XZ29-Al1XZ29 Al replicate 1
SRR7543963XZ29-Al2cDNAAI tolerant20 daysroot-XZ29-Al2XZ29 Al replicate 2
SRR7543964XZ29 control1cDNAAI tolerant20 daysroot-XZ29 control1XZ29 control replicate 1
SRR7543965XZ29 control2cDNAAI tolerant20 daysroot-XZ29 control2XZ29 control replicate 2
SRR7543966Golden Promise-Al1cDNAAI sensitive20 daysrootGolden PromiseGolden Promise-Al1GP Al replicate 1
SRR7543967Golden Promise-Al2cDNAAI sensitive20 daysrootGolden PromiseGolden Promise-Al2GP Al replicate 2
SRR7543968Golden Promise control1cDNAAI sensitive20 daysrootGolden PromiseGolden Promise control1GP control replicate 1
SRR7543969Golden Promise control2cDNAAI sensitive20 daysrootGolden PromiseGolden Promise control2GP control replicate 2
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