Parent-of-Origin Effects on Gene Expression and DNA Methylation in the Maize Endosperm

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dc.contributor.authorWaters, Amanda J
dc.contributor.authorMakarevitch, Irina
dc.contributor.authorEichten, Steven
dc.contributor.authorSwanson-Wagner, Ruth
dc.contributor.authorYeh, Cheng-Ting
dc.contributor.authorXu, Wayne
dc.contributor.authorSchnable, Patrick S.
dc.contributor.authorVaughn, Matthew W
dc.contributor.authorGehring, Mary
dc.contributor.authorSpringer, Nathan M
dc.date.accessioned2015-12-10T22:39:51Z
dc.date.issued2011
dc.date.updated2016-02-24T11:28:33Z
dc.description.abstractImprinting describes the differential expression of alleles based on their parent of origin. Deep sequencing of RNAs from maize (Zea mays) endosperm and embryo tissue 14 d after pollination was used to identify imprinted genes among a set of ~12, 000 genes that were expressed and contained sequence polymorphisms between the B73 and Mo17 genotypes. The analysis of parent-of-origin patterns of expression resulted in the identification of 100 putative imprinted genes in maize endosperm, including 54 maternally expressed genes (MEGs) and 46 paternally expressed genes (PEGs). Three of these genes have been previously identified as imprinted, while the remaining 97 genes represent novel imprinted maize genes. A genome-wide analysis of DNA methylation identified regions with reduced endosperm DNA methylation in, or near, 19 of the 100 imprinted genes. The reduced levels of DNA methylation in endosperm are caused by hypomethylation of the maternal allele for both MEGs and PEGs in all cases tested. Many of the imprinted genes with reduced DNA methylation levels also show endosperm-specific expression patterns. The imprinted maize genes were compared with imprinted genes identified in genome-wide screens of rice (Oryza sativa) and Arabidopsis thaliana, and at least 10 examples of conserved imprinting between maize and each of the other species were identified.
dc.identifier.issn1040-4651
dc.identifier.urihttp://hdl.handle.net/1885/57365
dc.publisherAmerican Society of Plant Biologists
dc.sourceThe Plant Cell
dc.subjectKeywords: allele; Arabidopsis; article; chemistry; DNA methylation; endosperm; gene expression profiling; gene expression regulation; gene locus; genetic polymorphism; genetics; genome imprinting; inheritance; maize; methodology; nucleotide sequence; plant chromoso
dc.titleParent-of-Origin Effects on Gene Expression and DNA Methylation in the Maize Endosperm
dc.typeJournal article
local.bibliographicCitation.lastpage4233
local.bibliographicCitation.startpage4221
local.contributor.affiliationWaters, Amanda J, University of Minnesota
local.contributor.affiliationMakarevitch, Irina, Hamline University
local.contributor.affiliationEichten, Steven, College of Medicine, Biology and Environment, ANU
local.contributor.affiliationSwanson-Wagner, Ruth, University of Minnesota
local.contributor.affiliationYeh, Cheng-Ting, Iowa State University
local.contributor.affiliationXu, Wayne, University of Minnesota
local.contributor.affiliationSchnable, Patrick S., Iowa State University
local.contributor.affiliationVaughn, Matthew W, University of Texas–Austin
local.contributor.affiliationGehring, Mary, Whitehead Institute for Biomedical Research
local.contributor.affiliationSpringer, Nathan M, University of Minnesota
local.contributor.authoremailu5483348@anu.edu.au
local.contributor.authoruidEichten, Steven, u5483348
local.description.embargo2037-12-31
local.description.notesImported from ARIES
local.identifier.absfor060705 - Plant Physiology
local.identifier.absseo970106 - Expanding Knowledge in the Biological Sciences
local.identifier.ariespublicationu4956746xPUB397
local.identifier.citationvolume23
local.identifier.doi10.1105/tpc.111.092668
local.identifier.scopusID2-s2.0-84863393179
local.identifier.uidSubmittedByu4956746
local.type.statusPublished Version

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