Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Transcriptome sequencing of Ovis aries

ABSTRACT: We have completed the high quality reference genome for domestic sheep (Oar v3.1) and performed a detailed survey of gene expression across different tissues. RNA-seq data of 7 tissue types from the reference female Texel and skin tissue from a Gansu alpine fine wool sheep were sequenced. Here is the part of the RNA-seq data sequenced in BGI, including 7 tissue types from the reference female Texel and skin type from a Gansu alpine fine wool sheep.

ORGANISM(S): Ovis aries

SUBMITTER: Min Xie

PROVIDER: E-GEOD-56643 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

The sheep genome illuminates biology of the rumen and lipid metabolism.

Jiang Yu Y Xie Min M Chen Wenbin W Talbot Richard R Maddox Jillian F JF Faraut Thomas T Wu Chunhua C Muzny Donna M DM Li Yuxiang Y Zhang Wenguang W Stanton Jo-Ann JA Brauning Rudiger R Barris Wesley C WC Hourlier Thibaut T Aken Bronwen L BL Searle Stephen M J SMJ Adelson David L DL Bian Chao C Cam Graham R GR Chen Yulin Y Cheng Shifeng S DeSilva Udaya U Dixen Karen K Dong Yang Y Fan Guangyi G Franklin Ian R IR Fu Shaoyin S Guan Rui R Highland Margaret A MA Holder Michael E ME Huang Guodong G Ingham Aaron B AB Jhangiani Shalini N SN Kalra Divya D Kovar Christie L CL Lee Sandra L SL Liu Weiqing W Liu Xin X Lu Changxin C Lv Tian T Mathew Tittu T McWilliam Sean S Menzies Moira M Pan Shengkai S Robelin David D Servin Bertrand B Townley David D Wang Wenliang W Wei Bin B White Stephen N SN Yang Xinhua X Ye Chen C Yue Yaojing Y Zeng Peng P Zhou Qing Q Hansen Jacob B JB Kristensen Karsten K Gibbs Richard A RA Flicek Paul P Warkup Christopher C CC Jones Huw E HE Oddy V Hutton VH Nicholas Frank W FW McEwan John C JC Kijas James J Wang Jun J Worley Kim C KC Archibald Alan L AL Cockett Noelle N Xu Xun X Wang Wen W Dalrymple Brian P BP

Science (New York, N.Y.) 20140601 6188

Sheep (Ovis aries) are a major source of meat, milk, and fiber in the form of wool and represent a distinct class of animals that have a specialized digestive organ, the rumen, that carries out the initial digestion of plant material. We have developed and analyzed a high-quality reference sheep genome and transcriptomes from 40 different tissues. We identified highly expressed genes encoding keratin cross-linking proteins associated with rumen evolution. We also identified genes involved in lip ...[more]

PMID: 24904168

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Project description:Sheep provide considerable materials for the animal fibre industry. Identifying genes of major effect for wool growth would offer strategies for improving the quality and increasing the yield of fine wool. In this study, we employed Agilent Sheep Gene Expression Microarray and proteomic technology to investigate the gene expression patterns of body side skin (more wool growing) in Aohan fine wool sheep (a Chinese indigenous breed) in comparison with groin skin (no wool growing) at the anagen stage of wool follicle. Microarray study revealed that 4772 probes were differentially expressed, including 2071 upregulated and 2701 downregulated probes in the comparisons of body side skin versus groin skin (S/G). The microarray results were verified by means of quantitative PCR. 1099 probes were assigned to unique genes/transcripts. The number of distinct genes/transcripts (annotated) was 926, of which 352 were up-regulated and 574 were down-regulated. In S/G, 13 genes were up-regulated by more than 10-fold, while 60 genes were down-regulated by more than 10-fold. Further analysis revealed that the majority of the genes possibly related to the wool growth could be assigned into the categories including regulation of cell division, intermediate filament, cytoskeletal part and growth factor activity. Several potential gene families might participate in hair growth regulation, including fibroblast growth factors, transforming growth factor-Î², WNTs, insulin-like growth factor, vascular endothelial growth factors and so on. Proteomic analysis also got 196 differentially expressed protein points, of which 121 were identified as single protein points. Furthermore, according to the results at both mRNA and protein levels, similar regulation mechanism of gene activity might be engaged during skin development and embryo development. One ram and two ewes of 12-month-old Aohan fine wool sheep were used in the microarray study. These animals were half sibs (sharing the same father). In August 2010, two areas of full-thickness skin were sampled from the same animal under local anaesthesia: body side skin (wool bearing) and groin skin (non-wool bearing) for microarray and proteomic experiments. The area of each sample was about 1 cm2. All samples were immediately put into collection tubes and stored in liquid nitrogen for RNA and protein extraction. A total of 15, 208 probes were spotted on this Agilent Sheep Gene Expression Microarray (Santa Clara, CA, USA).

Dataset Information

Transcriptome sequencing of Ovis aries

Publications

The sheep genome illuminates biology of the rumen and lipid metabolism.

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