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) 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) 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) 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 carnea; Ipomoea batatas

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; Picea sitchensis; Brassica napus; Lupinus luteus; Phaseolus coccineus; Manihot esculenta; Ricinus communis; Oryza brachyantha; Cenchrus americanus; Phleum pratense; Panicum virgatum; Nuphar advena; 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

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

(Submitter supplied) Sweet potato virus disease (SPVD) is one of the most devastating diseases affecting sweetpotato (Ipomoea batatas), an important food crop in developing countries. SPVD develops when sweetpotato plants are dually infected with sweet potato feathery mottle virus (SPFMV) and sweet potato chlorotic stunt virus (SPCSV). In the current study, global gene expression between SPVD affected plants and virus-tested control plants (VT) were compared in the susceptible ‘Beauregard’ and resistant ‘NASPOT 1’ (Nas) sweetpotato cultivars at 5, 9, 13 and 17 days post inoculation (DPI).

Organism:

Ipomoea batatas

Type:

Expression profiling by array

Platform:

GPL6498

64 Samples

Download data: GPR

(Submitter supplied) Drought is one of the major factor that limits crop production and reduces yield. To understand the early response of plants under nearly natural conditions, pepper plants were grown in a greenhouse and drought stressed by withholding water for one week. Plants adapted to the decreasing water content of the substrate by adjustment of their osmotic potential in roots by accumulation of raffinose, glucose, galactinol and proline. more...

Organism:

Ipomoea batatas; Populus euphratica; Triticum aestivum; Populus trichocarpa x Populus deltoides; Capsicum annuum; Zea mays; Populus tremula x Populus alba; Solanum tuberosum; Homo sapiens; Pinus pinaster

Type:

Expression profiling by array

Platform:

GPL9451

8 Samples

Download data: GPR

(Submitter supplied) A Microarray experiment was carried out in order to establish the genetic processes and control mechanism involved during storage root formation in Sweetpotato. A Sweetpotato cDNA chip was created from five varieties covering all the growth stages between them. mRNA from primordial root, fibrous root, pencil root and thick storage root was extracted from four varieties of Sweetpotato. The expression profiles were compared between the root growth stages. more...

Organism:

Ipomoea batatas

Type:

Expression profiling by array

Platform:

GPL6494

104 Samples

Download data: GPR