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Maize Nested Association Mapping (NAM) genome sequencing and assembly project

ABSTRACT: Genome sequence and assembly of the twenty-five founder lines of the the Nested Association Mapping (NAM) population.

PROVIDER: PRJEB31061 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
		Other
	CABHKS01.dat.gz	Other
	CABHKS01.fasta.gz	Fasta.gz
	CABHKS01.master.dat	Other
	CABHKT01.dat.gz	Other

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Reads for NC358 associated with the Maize Nested Association Mapping (NAM) genome sequencing and assembly project

Project description:Illumina and PacBio reads of NC358, one of the twenty-five founder lines of the the Nested Association Mapping (NAM) population.

| PRJEB32404 | ENA

RNA-seq samples of ten tissues for each of the 25 genomes of the Nested Associated Mapping (NAM) maize sequencing project

Project description:These RNA-seq samples represent ten different tissue types within a diverse Nested Association Mapping (NAM) maize population that has been sequenced by the NAM Consortium Group. These samples correspond to project IDs PRJEB31061.

2020-01-12 | E-MTAB-8633 | biostudies-arrayexpress

The NLRomes of Zea mays NAM founder lines and Zea Luxurians Display Presence Absence Variation, Integrated Domain Diversity and Mobility

Project description:We analyzed the nucleotide-binding leucine-rich repeat receptors (NLRs) of 26 recently sequenced diverse founder lines from the maize nested association mapping (NAM) population and compared them to the R gene complement present in a wild relative of maize, Zea luxurians.

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CGH: NAM parent lines vs. Wm82-ISU-01

2014-03-30 | GSE56351 | GEO

Genetic and Molecular Characterization of Submergence Response Identifies Subtol6 as a Major Submergence Tolerance Locus in Maize

Project description:Maize is highly sensitive to short term flooding and submergence. We aimed to discover genetic variation for submergence tolerance in maize and elucidate the genetic basis of submergence tolerance through transcriptional profiling of contrasting genotypes. A diverse set of maize nested association mapping (NAM) founder lines were screened, and two highly tolerant (Mo18W and M162W) and sensitive (B97 and B73) genotypes were identified. Transcriptome analysis was performed on these inbreds to provide genome level insights into the molecular responses to submergence.

2015-01-01 | GSE63429 | GEO

CGH: NAM parent lines vs. Wm82-ISU-01

Project description:Soybean nested association mapping (NAM) parent lines were compared by CGH to catalog structurally variant (e.g. deletion and duplication) regions among these genotypes. The CGH comparisons reveal reveal putative deletions and duplications among the 41 lines. NAM parent lines were compared through a common reference, Wm82-ISU-01 (this is a sub-line isolated from the cultivar Williams 82 stock). Each NAM parent line was represented by a single individual plant. The reported values show the log2 ratio of the normalized NAM parent line hybridization signals (Cy3) over the normalized Wm82-ISU-01 hybridization signal (Cy5).

2014-03-30 | E-GEOD-56351 | biostudies-arrayexpress

RNA-seq samples of ten tissues for each of the 25 genomes of the Nested Associated Mapping (NAM) maize sequencing project

Project description:RNA-seq samples of ten tissues for each of the 25 genomes of the Nested Associated Mapping (NAM) maize sequencing project

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Genetic and Molecular Characterization of Submergence Response Identifies Subtol6 as a Major Submergence Tolerance Locus in Maize

2015-01-01 | E-GEOD-63429 | biostudies-arrayexpress

Effect of NAM on the TGFβ1-induced hESC-derived corneal endothelial progenitor cells

Project description:To further explore the effect of NAM on the TGFβ1-induced hESC-derived corneal endothelial progenitor cells, we have employed whole RNA microarray expression profiling as a discovery platform to identify genes and mechanism of NAM on the EnMT and senescence. hESC-derived endothelial progenotors were culured under 30ng/ml TGFβ1 with or without 50 mM NAM. The cultures were incubated for 72 hours at 37 ºC in a humidified incubator with 5% CO2.

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Development of an Aus-Derived Nested Association Mapping (Aus-NAM) Population in Rice.

Project description:A genetic resource for studying genetic architecture of agronomic traits and environmental adaptation is essential for crop improvements. Here, we report the development of a rice nested association mapping population (aus-NAM) using 7 aus varieties as diversity donors and T65 as the common parent. Aus-NAM showed broad phenotypic variations. To test whether aus-NAM was useful for quantitative trait loci (QTL) mapping, known flowering genes (Ehd1, Hd1, and Ghd7) in rice were characterized using single-family QTL mapping, joint QTL mapping, and the methods based on genome-wide association study (GWAS). Ehd1 was detected in all the seven families and all the methods. On the other hand, Hd1 and Ghd7 were detected in some families, and joint QTL mapping and GWAS-based methods resulted in weaker and uncertain peaks. Overall, the high allelic variations in aus-NAM provide a valuable genetic resource for the rice community.

| S-EPMC8234321 | biostudies-literature

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