title: Utilization of digital differential display to identify differentially expressed genes related to rumen development.
abstract: This study aimed to identify the genes associated with the development of the rumen epithelium by screening for candidate genes by digital differential display (DDD) in silico. Using DDD in NCBI's UniGene database, expressed sequence tag (EST)-based gene expression profiles were analyzed in rumen, reticulum, omasum, abomasum and other tissues in cattle. One hundred and ten candidate genes with high expression in the rumen were derived from a library of all tissues. The expression levels of 11 genes in all candidate genes were analyzed in the rumen, reticulum, omasum and abomasum of nine Japanese Black male calves (5-week-old pre-weaning: n = 3; 15-week-old weaned calves: n = 6). Among the 11 genes, only 3-hydroxy-3-methylglutaryl-CoA synthase 2 (HMGCS2), aldo-keto reductase family 1, member C1-like (AKR1C1), and fatty acid binding protein 3 (FABP3) showed significant changes in the levels of gene expression in the rumen between the pre- and post-weaning of calves. These results indicate that DDD analysis in silico can be useful for screening candidate genes related to rumen development, and that the changes in expression levels of three genes in the rumen may have been caused by weaning, aging or both.
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.
authors.forename: Daichi
authors.initials: D
authors.lastname: Kato
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Suzuki
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.|Grassland Management Research Division, NARO Institute of Livestock and Grassland Science, Nasushiobara, Japan.
authors.forename: Satoshi
authors.initials: S
authors.lastname: Haga
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.
authors.forename: KyoungHa
authors.initials: K
authors.lastname: So
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.
authors.forename: Eri
authors.initials: E
authors.lastname: Yamauchi
authors.affiliation: Grassland Management Research Division, NARO Institute of Livestock and Grassland Science, Nasushiobara, Japan.
authors.forename: Miwa
authors.initials: M
authors.lastname: Nakano
authors.affiliation: Grassland Management Research Division, NARO Institute of Livestock and Grassland Science, Nasushiobara, Japan.
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Ishizaki
authors.affiliation: Grassland and Forage Division, National Institute of Animal Science, RDA, Cheonan, South Korea.
authors.forename: Kichoon
authors.initials: K
authors.lastname: Choi
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.
authors.forename: Kazuo
authors.initials: K
authors.lastname: Katoh
authors.affiliation: Lab of Animal Physiology, Graduate School of Agricultural Science, Tohoku University, Sendai.
authors.forename: Sang-Gun
authors.initials: SG
authors.lastname: Roh
mesh_terms: D015089:20-Hydroxysteroid Dehydrogenases / Q000235:genetics; D000375:Aging / Q000235:genetics; D000818:Animals; D002417:Cattle / Q000235:genetics* / Q000254:growth & development*; D003198:Computer Simulation; D004848:Epithelium / Q000254:growth & development; D020224:Expressed Sequence Tags; D000074026:Fatty Acid Binding Protein 3; D050556:Fatty Acid-Binding Proteins / Q000235:genetics; D015870:Gene Expression; D020869:Gene Expression Profiling / Q000379:methods*; D056726:Genetic Association Studies / Q000662:veterinary*; D005820:Genetic Testing / Q000379:methods*; D006904:Hydroxymethylglutaryl-CoA Synthase / Q000235:genetics; D008297:Male; D009928:Organ Specificity / Q000235:genetics; D012417:Rumen / Q000254:growth & development*; D014886:Weaning
chemical_list: C493408:FABP3 protein, human; D000074026:Fatty Acid Binding Protein 3; D050556:Fatty Acid-Binding Proteins; D015089:20-Hydroxysteroid Dehydrogenases; C115140:3 alpha-beta, 20 beta-hydroxysteroid dehydrogenase; D006904:Hydroxymethylglutaryl-CoA Synthase
keywords: cattle; digital differential display; in silico; rumen; weaning