Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Zm-B73-REFERENCE-NAM-5.0

ABSTRACT: Long-read sequencing and assembly of version 5 of the B73 maize genome

PROVIDER: PRJEB32225 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	Zm-B73-REFERENCE-NAM-5.0.cmap.gz	Other
	ERR3288280_subreads.fastq.gz	Fastqsanger.gz
	ERR3288290_subreads.fastq.gz	Fastqsanger.gz
	ERR3288281_subreads.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 28

Similar Datasets

RNA-seq samples of ten tissues for B73 abnormal 10 (B73_Ab10)

Project description:These RNA-seq samples represent ten different tissue types for a version of the maize reference genome B73 with an abnormal chromosome 10 containing several knobs on the long arm involved in meiotic drive. This genome was sequenced by the NAM Consortium Group. These samples correspond to project ID PRJEB35367.

2020-04-23 | E-MTAB-8641 | biostudies-arrayexpress

RNA-seq samples of ten tissues for B104 and the B73 version 5 control

Project description:These RNA-seq samples represent ten different tissue types for the genome B104 (PRJEB44462) and fifth version of the maize reference genome B73 (PRJEB32225).

2023-09-01 | E-MTAB-10741 | biostudies-arrayexpress

RNA-seq samples of ten tissues for Zea mays subsp. mays B73 (version 5)

Project description:These RNA-seq samples represent ten different tissue types for the fifth version of the maize reference genome B73, sequenced by the NAM Consortium Group. These samples correspond to project ID PRJEB32225.

2020-01-09 | E-MTAB-8628 | biostudies-arrayexpress

Characterization of maize B73 transcriptome by hybrid sequencing

Project description:Zea mays is a leading model for elucidating transcriptional networks in plants, aided by increasingly refined studies of the transcriptome atlas across spatio-temporal, developmental, and environmental dimensions. Limiting this progress are uncertainties about the complete structure mRNA transcripts, particularly with respect to alternatively spliced isoforms. Although second-generation RNA-seq provides a quantitative assay for transcriptional and posttranscriptional events, the accurate reconstruction of full-length mRNA isoforms is challenging with short-read technologies. By producing much longer reads, third generation sequencing offers to solve the assembly problem, but can suffer from lower read accuracy and throughput. Here, we combine these complementary technologies to define and quantify high-confidence transcript isoforms in maize. Six tissues (root, pollen, embryo, endosperm, immature ear, and immature tassel) of the B73 inbred line were used for mRNA sequencing with the Illumina Hiseq2000 PE101 platform to comprehensively quantitate gene/isoform expression. In parallel, intact cDNAs from the same samples were sequenced using the PacBio RS II platform. The latter used six size fractionated libraries (<1kb, 1-2kb, 2-3kb, 3kb-5kb, 4-6kb,>5kb) to generate more than 2 million full length reads. Preliminary findings suggest that mechanisms of alternative splicing are differentially employed between different tissues. In addition, these data show promise to dramatically improve the status of maize genome annotation, with the detection of previously unidentified transcript isoforms, and uncovering previously unrecognized genes. This submission is data of Illumina Hiseq2000 PE101 reads.

2016-06-28 | E-MTAB-3826 | biostudies-arrayexpress

Heat-killed Fusarium-elicited B73 and Mo17 stems for 36 h

Project description:We aim to examine defense transcript changes in maize stems following elicitation with heat-killed Fusarium hyphae in B73 and Mo17.

2020-07-08 | GSE138962 | GEO

Transcriptomic analysis of maize developing earshoot, B73 X Mo17 hybrid

Project description:Maize earshoot is a metabolic sink espcially related to nitrogen metabolism. Studies on the transcriptomic and metabolic changes occuring in earshoot can provide interesting answers about the nitrogen metabolic potential of the maize variety under study. B73 X Mo17 is a model maize hybrid. Developing earshoots from this genotype grown at nitrogen-deficient and nitrogen-sufficient conditions were sampled, processed and analyzed through microarray technology.

2010-01-14 | GSE17932 | GEO

Inner stem tissue of V2 seedlings and husks (maize B73)

Project description:Genome-wide prediction of transcriptional enhancers in maize B73 using DNase-seq and H3K9ac ChIP-seq. RNA-seq data was used to associate potential target genes to enhancer candidates.

2017-07-03 | GSE94254 | GEO

Transcriptional responses of inbred lines B73, B75 and B96 and resulting F1 lines to herbivory by Tetranychus urticae

Project description:The extreme generalist two-spotted spider mite, Tetranychus urticae, which is documented to feed on more than 1100 plant hosts, is becoming an increasingly important agricultural pest. Historically, as studies of plant-herbivore interactions have focused largely on insects, considerably less research has investigated plant responses to spider mite herbivores, especially in grasses. To identify intraspecific differences in maize response to T. urticae, we collected RNA-seq data from three maize (Zea mays) inbred lines (B73, B75 and B49) as well as two F1 lines arising from crosses between B73 x B75 and B73 x B96. For each maize line, RNA-seq data was collected from uninfested leaves (control) and leaves infested with T. urticae for 24 hours.

2018-07-03 | GSE116496 | GEO

Transcriptomic analysis of maize developing earshoot, B73 X Mo17 hybrid

2010-01-13 | E-GEOD-17932 | biostudies-arrayexpress