Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Whole genome bisulfite sequencing data of cassava

ABSTRACT: Cassava mosaic disease (CMD) suppresses cassava yields across the tropics. It has been reported that landraces lose CMD resistance after regeneration through de novo morphogenesis. We sequenced WGBS data of 14 samples.

ORGANISM(S): Manihot esculenta

PROVIDER: GSE192748 | GEO | 2022/05/27

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Proteome changes in cassava cv. Kasetsart 50 in response to Sri Lankan cassava mosaic virus

Project description:Sri Lankan cassava mosaic virus (SLCMV) is a member of cassava mosaic geminiviruses, family Geminiviridae, genus Begomoviruse which causes cassava mosaic disease (CMD). SLCMV is a widespread plant virus in major cassava production area of in Southeast Asia such as Thailand, Vietnam and Cambodia. Cassava cv. Kasetsart 50 (KU50) is one of the most globally famous cultivars in the world which is planted by many Asian countries farmers and industries. A proteomics approach was used to investigate the proteins involved in KU50 leaf response against SLCMV infection. RT-qPCR were applied to validate protein identifications for genes that are differentially expressed.

2022-08-11 | PXD035792 | JPOST Repository

Large-scale proteome characterization of the cassava root

Project description:Cassava is the most important root crop in the tropics but rapid post-harvest physiological root deterioration (PPD) is a major constraint to commercial cassava production. We used label-free quantitative proteomics to generate an extensive cassava root and PPD proteome. Over 2400 unique proteins were identified in the cassava root and nearly 300 proteins showed significant abundance regulation during PPD. A candidate gene for reducing PPD was identified from the regulated proteins with enzymatic assays and afterwards verified with a transgene approach. This demonstrates the relevance of proteomics approach for crop improvements.

2014-06-03 | PXD000587 | Pride

Digital gene expression analysis of ACMV-infected cassava

Project description:Cassava mosaic disease caused by cassava begomoviruses is the most serious disease of cassava in Africa. However, the molecular mechanisms leading to symptom development of infected cassava plants are poorly understood. Here a high throughput digital gene expression profiling (DGE) based on Illumina Solexa sequencing technology was used to investigate the global transcriptional response of cassava to the African cassava mosaic virus infection. Results showed that 3,210 genes were differentially expressed in virus-infected cassava leaves. Gene Ontology (GO) term and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis indicated that photosynthesis related genes were most affected, which was consistent with the chlorotic symptom on the infected leaves. The upregulation of chlorophyll degradation genes, e.g. the genes encoding chlorophyllase and pheophorbide a oxygenase, as well as the downregulation of the major apoproteins genes in light harvesting complex II (LHCII) identified by the DGE analysis were confirmed by qRT-PCR. Together with the reduction of chlorophyll b content and fewer grana stacks in the infected leaf cells, this study reveals that the degradation of chlorophyll plays an important role during ACMV symptom development for the first time. Meanwhile, we believe that the non-lethal effect on photosystem is a trick for virus to avoid fierce host immune response and a result of the long-term co-evolution. This study will provide a road map for future investigations into virus symptom development. ACMV-infected cassava leaves mixture from three independent replicates were collected for RNA extractions at 20 dpi. Control samples were harvested from empty agrobacteria treated leaves incubated under the same conditions.

2014-04-01 | E-GEOD-47224 | biostudies-arrayexpress

Digital gene expression analysis of ACMV-infected cassava

2014-04-01 | GSE47224 | GEO

Sri Lankan cassava mosaic virus isolate:Surin1 | cultivar:Cassava

Project description:Sri Lankan cassava mosaic virus isolate:Surin1 | cultivar:Cassava Raw sequence reads

| PRJNA587722 | ENA

Sri Lankan cassava mosaic virus isolate:Champ1 | cultivar:Cassava

Project description:Sri Lankan cassava mosaic virus isolate:Champ1 | cultivar:Cassava Raw sequence reads

| PRJNA668191 | ENA

RNA-Seq gives insights into genetic regulation of the drought-stress response in the cassava leaves

Project description:Cassava is a drought–resistant food crop in tropical and subtropical regions. Although cassava is a relatively drought-tolerant species, the development and yields are greatly affected by the adverse drought conditions. Information about molecular breeding will obtain by studying genetic regulatory mechanism. In this study, we demonstrate the drought-tolerant mechanisms in leaves of both cassava varieties(Xinxuan048 and KU50) by using RNA-Seq technique. 1,880 and 2,066 differentially expressed genes(DEGs) were induced by drought stress in leaves of KU50 and Xinxuan048, respectively. DEGs in the response to drought stress involve in many regulated pathways. ROS- and ABA-associated signaling pathways and photosynthesis-associated regulation are mainly elucidated. In addition, alternative splicing and ingle nucleotide polymorphism also involve in drought-stress responses in both cassava varieties, showing their important roles in response to drought stress in leaves. This study not only increases the understanding of physiological and molecular mechanisms to the drought response in cassava, but also lays a solid foundation on the breeding of drought-resistant varieties using molecular methods.

2018-07-01 | GSE98537 | GEO

Small RNA profiles of Sri Lankan Cassava Mosaic Virus (SLCMV) infected Cassava plants

Project description:Small RNA profiles of Sri Lankan Cassava Mosaic Virus (SLCMV) infected Cassava plants

| PRJNA715087 | ENA

Transcriptional response of virus-infected cassava and identification of putative sources of resistance for cassava brown streak disease

Project description:Analysis of transcriptional response of virus-infected cassava and identification of putative sources of resistance for cassava brown streak disease transcriptome analysis of two varieties of cassava that differ in their level of resistance to cassava brown streak virus.

2014-04-03 | E-GEOD-56467 | biostudies-arrayexpress

Complete genome characterization of cassava mosaic geminiviruses in Burkina Faso

Project description:Cassava mosaic geminiviruses in Burkina Faso

| PRJEB48572 | ENA