Transcriptomic analysis reveals key regulators of mammogenesis and the pregnancy-lactation cycle  

作　　者：ZHOU YuanYuan GONG Wei XIAO JingFa WU JiaYan PAN LinLin LI XiaoNuan WANG XuMin WANG WeiWei HU SongNian YU Jun 

机构地区：[1]Beijing Key Laboratory of Genome and Precision Medicine Technologies,CAS Key Laboratory of Genome Sciences and Information,Beijing Institute of Genomics,Chinese Academy of Sciences [2]University of Chinese Academy of Sciences [3]Division of Gastroenterology,Department of Medicine,University of Alberta

出　　处：《Science China(Life Sciences)》2014年第3期340-355,共16页中国科学（生命科学英文版）

基　　金：supported by grant from Ministry of Science and Technology of China (2011CB944100,2011CB944101)

摘　　要：An organ unique to mammals, the mammary gland develops 90% of its mass after birth and experiences the pregnancy-lactation-involution cycle （PL cycle） during reproduction. To understand mammogenesis at the transcriptomic level and using a ribo-minus RNA-seq protocol, we acquired greater than 50 million reads each for the mouse mammary gland during pregnancy （day 12 of pregnancy）, lactation （day 14 of lactation）, and involution （day 7 of involution）. The pregnancy-, lacta- tion- and involution-related sequencing reads were assembled into 17344, 10160, and 13739 protein-coding transcripts and 1803, 828, and 1288 non-coding RNAs （ncRNAs）, respectively. Differentially expressed genes （DEGs） were defined in the three samples, which comprised 4843 DEGs （749 up-regulated and 4094 down-regulated） from pregnancy to lactation and 4926 DEGs （4706 up-regulated and 220 down-regulated） from lactation to involution. Besides the obvious and substantive up- and down-regulation of the DEGs, we observe that lysosomal enzymes were highly expressed and that their expression coin- cided with milk secretion. Further analysis of transcription factors such as Trpsl, Gtf2i, Tcf712, Nuprl, Vdr, Rbl, and Aebpl, and ncRNAs such as mir-125b, Let7, mir-146a, and mir-15 has enabled us to identify key regulators in mammary gland de- velopment and the PL cycle.An organ unique to mammals,the mammary gland develops 90%of its mass after birth and experiences the pregnancy-lactation-involution cycle(PL cycle)during reproduction.To understand mammogenesis at the transcriptomic level and using a ribo-minus RNA-seq protocol,we acquired greater than 50 million reads each for the mouse mammary gland during pregnancy(day 12 of pregnancy),lactation(day 14 of lactation),and involution(day 7 of involution).The pregnancy-,lactation-and involution-related sequencing reads were assembled into 17344,10160,and 13739 protein-coding transcripts and1803,828,and 1288 non-coding RNAs(ncRNAs),respectively.Differentially expressed genes(DEGs)were defined in the three samples,which comprised 4843 DEGs(749 up-regulated and 4094 down-regulated)from pregnancy to lactation and4926 DEGs(4706 up-regulated and 220 down-regulated)from lactation to involution.Besides the obvious and substantive upand down-regulation of the DEGs,we observe that lysosomal enzymes were highly expressed and that their expression coincided with milk secretion.Further analysis of transcription factors such as Trps1,Gtf2i,Tcf7l2,Nupr1,Vdr,Rb1,and Aebp1,and ncRNAs such as mir-125b,Let7,mir-146a,and mir-15 has enabled us to identify key regulators in mammary gland development and the PL cycle.

关 键 词：mouse mammary gland mammogenesis TRANSCRIPTOME rmRNA-seq miRNAs transcription factors 

分 类 号：R341[医药卫生—基础医学]