GEO DataSets

(Submitter supplied) Sweetpotato (Ipomoea batatas L.) is a globally important economic food crop. It belongs to Convolvulaceae family and origins in the tropics; however, sweetpotato is sensitive to cold stress during storage. In this study, we performed transcriptome sequencing to investigate the sweetpotato response to chilling stress during storage. A total of 110,110 unigenes were generated via high-throughput sequencing. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30016

9 Samples

Download data: XLSX

(Submitter supplied) To screen genes related to the development of sweet potato tuberous roots, the high throughput sequencing of different stages of sweet potato tuberous roots was performed. The fibrous roots (FR; roots at 20 dap), developing tuberous roots (DR; roots at 60 dap) and mature tuberous roots (MR; roots at 120 dap) of Ipomoea batatas (L.) Taizhong 6 and MBP3 overexpressed lines were used for transcriptome analysis. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30016

12 Samples

Download data: TXT

(Submitter supplied) We identified a leucine-rich repeat receptor kinase (IbLRR-RK1) that is induced upon wounding and herbivory, and related to peptide-elicitor receptors (PEPRs) from tomato and Arabidopsis. We also identified a gene encoding a precursor protein comprising a peptide ligand (IbPep1) for IbLRR-RK1. RNAseq of I. batatas reveals differentially expressed genes (DEGs) upon IbPep1 and IbHypSysIV treatment

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30016

12 Samples

Download data: TXT

(Submitter supplied) Total blood white blood cells from a FPIES subject were treated with individual treatmens of 2 foods that were safe for the subject (pear and breast milk), two foods that were triggers (quinoa and sweet potato), and 19 foods of unknown status for the subject. These treatments were compared to LPS treatment and untreated.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17692

23 Samples

Download data: CEL

(Submitter supplied) In the process of field production, crops are often affected by a variety of abiotic stresses, among which heat (HT) and drought (DR) stress are the most common co-stresses in summer. Although a large number of studies have been carried out on HT and DR stress respectively, little is known about how their combination (DH) affects plants. In this study, we investigated the responses of sweetpotato to HT, DR or DH stress by RNA-seq and DIA technologies, and set up a controlled experiment and quantified gene expression and protein concentrations from paired samples. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22614

12 Samples

Download data: TXT

(Submitter supplied) In this study, we first analyzed the components of shochu oil and then investigated the effects of shochu oil on short-term memory, using a mouse model exhibiting spontaneous alternating behavior caused by the intracerebroventricular administration of Aß25-35. On the last day of the experiment, we examined gene expression in the mouse hippocampus using DNA microarrays. We confirmed the effect of the oil components derived from sweet potato shochu on impaired short-term memory in mice after amyloid ß25-35 injection. more...

Organism:

Mus musculus; Mus

Type:

Expression profiling by array

Platform:

GPL11202

3 Samples

Download data: TXT

(Submitter supplied) The formation and development of storage roots is an intricate process regulated via a complex transcriptional regulatory network. To significantly advance our understanding of the molecular mechanisms governing storage root initiation and development in sweet potato, we performed a comprehensive analysis of transcriptome dynamics during root development.

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30016

28 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL23698 GPL22614

7 Samples

Download data: BW, TXT

(Submitter supplied) To better understand the regulatory mechanisms of IbBBX24-mediated Fusarium oxysporum Schlecht. f. sp. batatas (Fob) resistance, we performed ChIP-Seq analysis using overexpression line infected with Fob at 1 dpi.

Organism:

Ipomoea batatas

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL22614

1 Sample

Download data: BW, TXT

(Submitter supplied) To better understand the regulatory mechanisms of IbBBX24-mediated Fusarium oxysporum Schlecht. f. sp. batatas (Fob) resistance, we performed RNA-Seq analysis using overexpression line, RNA interference and WT plants infected with Fob at 1 dpi.

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23698

6 Samples

Download data: FA, GTF, TXT

(Submitter supplied) Leaf shape is a spectacularly diverse trait that influences various aspects of plant physiology, and is even correlated with crop yield and quality in multiple species. However, only a few genetic dissections of leaf shape have been accomplished at a species-wide level. Here, we perform an initial characterization of leaf shape variation in Ipomoea batatas, the sweetpotato, at multiple scales of analysis. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22614

19 Samples

Download data: TXT

(Submitter supplied) Plant microRNAs (miRNAs) have emerged as important regulators in developmental processes and stress responses in plants. To identify the wound-responsive miRNAs in the leaves of sweet potato, small RNA deep sequencing was conducted on unwounded and wounded leaves (30 min). Total RNAs were isolated for library construction and analyzed by RNA-sequencing via Illumina Genome Analyzer IIx platform. About 16 million total reads were obtained for each sample.

Organism:

Ipomoea batatas

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17085

2 Samples

Download data: TXT

(Submitter supplied) The present study aimed to assess the molecular bases of cortical compensatory mechanisms following spinal cord injury in primates. To accomplish this, comprehensive changes in gene expression were investigated in the bilateral primary motor cortex (M1), dorsal premotor cortex (PMd), and ventral premotor cortex (PMv) after a unilateral lesion of the lateral corticospinal tract (l-CST). At 2 weeks after the lesion, a large number of genes exhibited altered expression levels in the contralesional M1, which is directly linked to the lesioned l-CST. more...

Organism:

Macaca mulatta

Type:

Expression profiling by array

Platform:

GPL14569

54 Samples

Download data: TXT

(Submitter supplied) we performed de novo transcriptome assembly and digital gene expression (DGE) profiling analyses of sweet potato challenged with Fob using Illumina Hiseq technology. A total of 89,944,188 clean reads were generated and were assembled into 101,988 unigenes with an average length of 666bp, 62,605(61.38%) of them were functional annotated in the non-redundant(nr) protein database from NCBI by using BLASTX with a cut-off E-value of 10-5, and COG,GO and KEGG annotations were examined for better understand their functions. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22614

16 Samples

Download data: FASTA, TXT

(Submitter supplied) In this study, we compared the root transcriptomes between high and low starch content species in three different growth and development periods.This provided a new perspective and resources for the molecular mechanisms study of storage root formation and development process.

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23698

18 Samples

Download data: FASTA, TXT

(Submitter supplied) Small RNAs (sRNAs) play important roles in plants encountering stress environments. However, limited research has been conducted on the sRNAs involved in plant wound responses. To identify potential roles for the wounding-related sRNAs, sRNA deep sequencing was used. After leaves were wounded for 0.5 hour, total RNAs from unwounded and wounded leaves were isolated for sRNA library construction. The Illumina platform was used to sequence sRNA libraries. more...

Organism:

Ipomoea batatas

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL17085

2 Samples

Download data: TXT

(Submitter supplied) Global gene expression signatures was analysed through microarray expression profiling as a discovery platform to identify up and down regulated ESTs that represent genes involved in metabolic pathways in the leaf, fibrous root and storage root (tuber forming root) of sweetpotato (Ipomoea batatas) as affcted by high temperature stress (40oC) compared to ambient temperature (30oC). Also Global gene expression signatures was analysed by the same procedure to explore up and down regulated ESTs in tuberous root of sweet potato in comparison with fibrous root of Ipomoea cornea and identify unique ESTs that represent genes involved in tuber formation in sweet potato.

Organism:

Ipomoea batatas; Ipomoea carnea

Type:

Expression profiling by array

Platform:

GPL17857

7 Samples

Download data: TXT

(Submitter supplied) Investigation of whole transcriptome gene expression level during tuberous root formation and development in sweetpotato (Ipomoea batatas) cv. Guangshu 87 Identification of transcription factors (TFs) during tuberous root formation and development in sweetpotato (Ipomoea batatas) cv. Guangshu 87

Organism:

Ipomoea batatas

Type:

Expression profiling by array

Platform:

GPL17440

14 Samples

Download data: PAIR

(Submitter supplied) Canola (oilseed rape, Brassica napus L.), is susceptible to infection by the biotrophic protist Plasmodiophora brassicae, the causal agent of clubroot. To understand the roles of microRNAs (miRNAs) during the post-transcriptional regulation of disease initiation and progression, we have characterized the changes in miRNA expression profiles in canola roots during clubroot disease development and have compared these to uninfected roots. more...

Organism:

Physcomitrium patens; Persea americana; Populus trichocarpa x Populus deltoides; Malus domestica; Nicotiana sylvestris; Nicotiana tabacum; Petunia x hybrida; Oryza sativa; Lolium arundinaceum; Lotus japonicus; Cenchrus ciliaris; Populus tremula x Populus tremuloides; Nasturtium officinale; Pinus taeda; Liriodendron tulipifera; Phaseolus vulgaris; Ipomoea batatas; Lactuca sativa; Oryza rufipogon; Oryza nivara; Sorghum bicolor; Rorippa indica; Prunus salicina; Populus tremula; Malcolmia maritima; Picea glauca; Populus tremuloides; Populus trichocarpa; Prunus persica; Medicago truncatula; Nicotiana benthamiana; Hordeum vulgare; Ipomoea nil; Prunus armeniaca; Peridictyon sanctum; Oryza barthii; Hordeum vulgare subsp. vulgare; Oenocarpus bataua; Picea sitchensis; Brassica napus; Lupinus luteus; Phaseolus coccineus; Manihot esculenta; Ricinus communis; Oryza brachyantha; Cenchrus americanus; Phleum pratense; Panicum virgatum; Nuphar advena

Type:

Non-coding RNA profiling by array

Platform:

GPL17805

4 Samples

Download data: TXT

(Submitter supplied) More than 3.5 million raw DGE tags were obtained in each library. The clean tags in each sample ranged from 3.35 to 3.63 million, and the distinct clean tags ranged from 93,593 to 139,389. The 21 bp DGE clean tags were mapped to sweet potato transcripts. Then, we compared 7 libraries pair-wisely so that 21 pairs of comparisons were implemented. Among these comparisons, we found that 4,721 to 12,151 transcripts had significant changes in expression, and the average number was 9,657. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15253

7 Samples

Download data