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4. Correction: Protein kinase A-mediated phosphorylation of the broad-complex transcription factor in silkworm suppresses its transcriptional activity

Author

Qian, Wenliang, primary, Gang, Xiaoxu, additional, Zhang, Tianlei, additional, Wei, Ling, additional, Yang, Xinxin, additional, Li, Zheng, additional, Yang, Yan, additional, Song, Liang, additional, Wang, Peng, additional, Peng, Jian, additional, Cheng, Daojun, additional, and Xia, Qingyou, additional

Published
2024
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6. A Draft Sequence for the Genome of the Domesticated Silkworm (Bombyx mori)

Author

Xia, Qingyou, Zhou, Zeyang, Lu, Cheng, Cheng, Daojun, Dai, Fangyin, Li, Bin, Zhao, Ping, Zha, Xingfu, Cheng, Tingcai, Chai, Chunli, Pan, Guoqing, Xu, Jinshan, Liu, Chun, Lin, Ying, Qian, Jifeng, Hou, Yong, Wu, Zhengli, Li, Guanrong, Pan, Minhui, Li, Chunfeng, Shen, Yihong, Lan, Xiqian, Yuan, Lianwei, Li, Tian, Xu, Hanfu, Yang, Guangwei, Wan, Yongji, Zhu, Yong, Yu, Maode, Shen, Weide, Wu, Dayang, Xiang, Zhonghuai, Yu, Jun, Wang, Jun, Li, Ruiqiang, Shi, Jianping, Li, Heng, Li, Guangyuan, Su, Jianning, Wang, Xiaoling, Li, Guoqing, Zhang, Zengjin, Wu, Qingfa, Li, Jun, Zhang, Qingpeng, Wei, Ning, Xu, Jianzhe, Sun, Haibo, Dong, Le, Liu, Dongyuan, Zhao, Shengli, Zhao, Xiaolan, Meng, Qingshun, Lan, Fengdi, Huang, Xiangang, Li, Yuanzhe, Fang, Lin, Li, Changfeng, Li, Dawei, Sun, Yongqiao, Zhang, Zhenpeng, Yang, Zheng, Huang, Yanqing, Qi, Qiuhui, He, Dandan, Huang, Haiyan, Zhang, Xiaowei, Wang, Zhiqiang, Li, Wenjie, Cao, Yuzhu, Yu, Yingpu, Yu, Hong, Li, Jinhong, Ye, Jiehua, Chen, Huan, Zhou, Yan, Liu, Bin, Wang, Jing, Ye, Jia, Ji, Hai, Li, Shengting, Ni, Peixiang, Zhang, Jianguo, Zhang, Yong, Zheng, Hongkun, Mao, Bingyu, Wang, Wen, Ye, Chen, Li, Songgang, Wang, Jian, Wong, Gane Ka-Shu, and Yang, Huanming

Published
2004

15. Complete Resequencing of 40 Genomes Reveals Domestication Events and Genes in Silkworm (Bombyx)

Author

Xia, Qingyou, Guo, Yiran, Zhang, Ze, Li, Dong, Xuan, Zhaoling, Li, Zhuo, Dai, Fangyin, Li, Yingrui, Cheng, Daojun, Li, Ruiqiang, Cheng, Tingcai, Jiang, Tao, Becquet, Celine, Xu, Xun, Liu, Chun, Zha, Xingfu, Fan, Wei, Lin, Ying, Shen, Yihong, Jiang, Lan, Jensen, Jeffrey, Hellmann, Ines, Tang, Si, Zhao, Ping, Xu, Hanfu, Yu, Chang, Zhang, Guojie, Li, Jun, Cao, Jianjun, Liu, Shiping, He, Ningjia, Zhou, Yan, Liu, Hui, Zhao, Jing, Ye, Chen, Du, Zhouhe, Pan, Guoqing, Zhao, Aichun, Shao, Haojing, Zeng, Wei, Wu, Ping, Li, Chunfeng, Pan, Minhui, Li, Jingjing, Yin, Xuyang, Li, Dawei, Wang, Juan, Zheng, Huisong, Wang, Wen, Zhang, Xiuqing, Li, Songgang, Yang, Huanming, Lu, Cheng, Nielsen, Rasmus, Zhou, Zeyang, Wang, Jian, Xiang, Zhonghuai, and Wang, Jun

Published
2009
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26. MicroRNA expression profiling during the life cycle of the silkworm (Bombyx mori)

Author

Cheng Daojun, Duan Jun, Zhao Ping, Li Qibin, Zhang Liang, Liu Shiping, Xiang Zhonghuai, and Xia Qingyou

Subjects
Biotechnology, TP248.13-248.65, Genetics, QH426-470
Abstract

Abstract Background MicroRNAs (miRNAs) are expressed by a wide range of eukaryotic organisms, and function in diverse biological processes. Numerous miRNAs have been identified in Bombyx mori, but the temporal expression profiles of miRNAs corresponding to each stage transition over the entire life cycle of the silkworm remain to be established. To obtain a comprehensive overview of the correlation between miRNA expression and stage transitions, we performed a whole-life test and subsequent stage-by-stage examinations on nearly one hundred miRNAs in the silkworm. Results Our results show that miRNAs display a wide variety of expression profiles over the whole life of the silkworm, including continuous expression from embryo to adult (miR-184), up-regulation over the entire life cycle (let-7 and miR-100), down-regulation over the entire life cycle (miR-124), expression associated with embryogenesis (miR-29 and miR-92), up-regulation from early 3rd instar to pupa (miR-275), and complementary pulses in expression between miR-34b and miR-275. Stage-by-stage examinations revealed further expression patterns, such as emergence at specific time-points during embryogenesis and up-regulation of miRNA groups in late embryos (miR-1 and bantam), expression associated with stage transition between instar and molt larval stages (miR-34b), expression associated with silk gland growth and spinning activity (miR-274), continuous high expression from the spinning larval to pupal and adult stages (miR-252 and miR-31a), a coordinate expression trough in day 3 pupae of both sexes (miR-10b and miR-281), up-regulation in pupal metamorphosis of both sexes (miR-29b), and down-regulation in pupal metamorphosis of both sexes (miR-275). Conclusion We present the full-scale expression profiles of miRNAs throughout the life cycle of Bombyx mori. The whole-life expression profile was further investigated via stage-by-stage analysis. Our data provide an important resource for more detailed functional analysis of miRNAs in this animal.

Published
2009
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27. Comparative Transcriptome Analysis Provides Novel Insight into Morphologic and Metabolic Changes in the Fat Body during Silkworm Metamorphosis

Author

Peng, Jian, primary, Li, Zheng, additional, Yang, Yan, additional, Wang, Peng, additional, Zhou, Xuan, additional, Zhao, Tujing, additional, Guo, Mengpei, additional, Meng, Meng, additional, Zhang, Tianlei, additional, Qian, Wenliang, additional, Xia, Qingyou, additional, Cheng, Daojun, additional, and Zhao, Ping, additional

Published
2018
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37. Single base-resolution methylome of the silkworm reveals a sparse epigenomic map

Author

Xiang, Hui, Zhu, Jingde, Chen, Quan, Dai, Fangyin, Li, Xin, Li, Muwang, Zhang, Hongyu, Zhang, Guojie, Li, Dong, Dong, Yang, Zhao, Li, Lin, Ying, Cheng, Daojun, Yu, Jian, Sun, Jinfeng, Zhou, Xiaoyu, Ma, Kelong, He, Yinghua, Zhao, Yangxing, Guo, Shicheng, Ye, Mingzhi, Guo, Guangwu, Li, Yingrui, Li, Ruiqiang, Zhang, Xiuqing, Ma, Lijia, Kristiansen, Karsten, Guo, Qiuhong, Jiang, Jianhao, Beck, Stephan, Xia, Qingyou, Wang, Wen, Wang, Jun, Xiang, Hui, Zhu, Jingde, Chen, Quan, Dai, Fangyin, Li, Xin, Li, Muwang, Zhang, Hongyu, Zhang, Guojie, Li, Dong, Dong, Yang, Zhao, Li, Lin, Ying, Cheng, Daojun, Yu, Jian, Sun, Jinfeng, Zhou, Xiaoyu, Ma, Kelong, He, Yinghua, Zhao, Yangxing, Guo, Shicheng, Ye, Mingzhi, Guo, Guangwu, Li, Yingrui, Li, Ruiqiang, Zhang, Xiuqing, Ma, Lijia, Kristiansen, Karsten, Guo, Qiuhong, Jiang, Jianhao, Beck, Stephan, Xia, Qingyou, Wang, Wen, and Wang, Jun

Abstract

Udgivelsesdato: 2010-May, Epigenetic regulation in insects may have effects on diverse biological processes. Here we survey the methylome of a model insect, the silkworm Bombyx mori, at single-base resolution using Illumina high-throughput bisulfite sequencing (MethylC-Seq). We conservatively estimate that 0.11% of genomic cytosines are methylcytosines, all of which probably occur in CG dinucleotides. CG methylation is substantially enriched in gene bodies and is positively correlated with gene expression levels, suggesting it has a positive role in gene transcription. We find that transposable elements, promoters and ribosomal DNAs are hypomethylated, but in contrast, genomic loci matching small RNAs in gene bodies are densely methylated. This work contributes to our understanding of epigenetics in insects, and in contrast to previous studies of the highly methylated genomes of Arabidopsis and human, demonstrates a strategy for sequencing the epigenomes of organisms such as insects that have low levels of methylation.

Published
2010

42. Erratum: Single base–resolution methylome of the silkworm reveals a sparse epigenomic map

Author

Xiang, Hui, primary, Zhu, Jingde, additional, Chen, Quan, additional, Dai, Fangyin, additional, Li, Xin, additional, Li, Muwang, additional, Zhang, Hongyu, additional, Zhang, Guojie, additional, Li, Dong, additional, Dong, Yang, additional, Zhao, Li, additional, Lin, Ying, additional, Cheng, Daojun, additional, Yu, Jian, additional, Sun, Jinfeng, additional, Zhou, Xiaoyu, additional, Ma, Kelong, additional, He, Yinghua, additional, Zhao, Yangxing, additional, Guo, Shicheng, additional, Ye, Mingzhi, additional, Guo, Guangwu, additional, Li, Yingrui, additional, Li, Ruiqiang, additional, Zhang, Xiuqing, additional, Ma, Lijia, additional, Kristiansen, Karsten, additional, Guo, Qiuhong, additional, Jiang, Jianhao, additional, Beck, Stephan, additional, Xia, Qingyou, additional, Wang, Wen, additional, and Wang, Jun, additional

Published
2010
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43. Single base–resolution methylome of the silkworm reveals a sparse epigenomic map

Author

Xiang, Hui, primary, Zhu, Jingde, additional, Chen, Quan, additional, Dai, Fangyin, additional, Li, Xin, additional, Li, Muwang, additional, Zhang, Hongyu, additional, Zhang, Guojie, additional, Li, Dong, additional, Dong, Yang, additional, Zhao, Li, additional, Lin, Ying, additional, Cheng, Daojun, additional, Yu, Jian, additional, Sun, Jinfeng, additional, Zhou, Xiaoyu, additional, Ma, Kelong, additional, He, Yinghua, additional, Zhao, Yangxing, additional, Guo, Shicheng, additional, Ye, Mingzhi, additional, Guo, Guangwu, additional, Li, Yingrui, additional, Li, Ruiqiang, additional, Zhang, Xiuqing, additional, Ma, Lijia, additional, Kristiansen, Karsten, additional, Guo, Qiuhong, additional, Jiang, Jianhao, additional, Beck, Stephan, additional, Xia, Qingyou, additional, Wang, Wen, additional, and Wang, Jun, additional

Published
2010
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48. Schlank orchestrates insect developmental transition by switching H3K27 acetylation to trimethylation in the prothoracic gland.

Author

Yuan D, Zhang X, Yang Y, Wei L, Li H, Zhao T, Guo M, Li Z, Huang Z, Wang M, Dai Z, Li P, Xia Q, Qian W, and Cheng D

Subjects
Animals, Acetylation, Bombyx metabolism, Bombyx genetics, Bombyx growth & development, Juvenile Hormones metabolism, Methylation, Drosophila melanogaster metabolism, Drosophila melanogaster growth & development, Drosophila melanogaster genetics, Signal Transduction, Pupa metabolism, Pupa growth & development, Pupa genetics, Transcription Factors metabolism, Transcription Factors genetics, Histone Deacetylases metabolism, Histone Deacetylases genetics, Insect Proteins metabolism, Insect Proteins genetics, Repressor Proteins, Basic Helix-Loop-Helix Transcription Factors, Histones metabolism, Drosophila Proteins metabolism, Drosophila Proteins genetics, Ecdysone metabolism, Larva metabolism, Larva growth & development, Larva genetics, Gene Expression Regulation, Developmental
Abstract

Insect developmental transitions are precisely coordinated by ecdysone and juvenile hormone (JH). We previously revealed that accumulated H3K27 trimethylation (H3K27me3) at the locus encoding JH signal transducer Hairy is involved in the larval-pupal transition in insects, but the underlying mechanism remains to be fully defined. Here, we show in Drosophila and Bombyx that Rpd3-mediated H3K27 deacetylation in the prothoracic gland during the last larval instar promotes ecdysone biosynthesis and the larval-pupal transition by enabling H3K27me3 accumulation at the Hairy locus to induce its transcriptional repression. Importantly, we find that the homeodomain transcription factor Schlank acts to switch active H3K27 acetylation (H3K27ac) to repressive H3K27me3 at the Hairy locus by directly binding to the Hairy promoter and then recruiting the histone deacetylase Rpd3 and the histone methyltransferase PRC2 component Su(z)12 through physical interactions. Moreover, Schlank inhibits Hairy transcription to facilitate the larval-pupal transition, and the Schlank signaling cascade is suppressed by JH but regulated in a positive feedback manner by ecdysone. Together, our data uncover that Schlank mediates epigenetic reprogramming of H3K27 modifications in hormone actions during insect developmental transition., Competing Interests: Competing interests statement:The authors declare no competing interest.

Published
2024
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49. Identification and Expression Profiling of the BTB Domain-Containing Protein Gene Family in the Silkworm, Bombyx mori.

Author

Cheng D, Qian W, Meng M, Wang Y, Peng J, and Xia Q

Abstract

The BTB domain is a conserved protein-protein interaction motif. In this study, we identified 56 BTB domain-containing protein genes in the silkworm, in addition to 46 in the honey bee, 55 in the red flour beetle, and 53 in the monarch butterfly. Silkworm BTB protein genes were classified into nine subfamilies according to their domain architecture, and most of them could be mapped on the different chromosomes. Phylogenetic analysis suggests that silkworm BTB protein genes may have undergone a duplication event in three subfamilies: BTB-BACK-Kelch, BTB-BACK-PHR, and BTB-FLYWCH. Comparative analysis demonstrated that the orthologs of each of 13 BTB protein genes present a rigorous orthologous relationship in the silkworm and other surveyed insects, indicating conserved functions of these genes during insect evolution. Furthermore, several silkworm BTB protein genes exhibited sex-specific expression in larval tissues or at different stages during metamorphosis. These findings not only contribute to a better understanding of the evolution of insect BTB protein gene families but also provide a basis for further investigation of the functions of BTB protein genes in the silkworm.

Published
2014
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50. Microarray Analysis of the Juvenile Hormone Response in Larval Integument of the Silkworm, Bombyx mori.

Author

Cheng D, Peng J, Meng M, Wei L, Kang L, Qian W, and Xia Q

Abstract

Juvenile hormone (JH) coordinates with 20-hydroxyecdysone (20E) to regulate larval growth and molting in insects. However, little is known about how this cooperative control is achieved during larval stages. Here, we induced silkworm superlarvae by applying the JH analogue (JHA) methoprene and used a microarray approach to survey the mRNA expression changes in response to JHA in the silkworm integument. We found that JHA application significantly increased the expression levels of most genes involved in basic metabolic processes and protein processing and decreased the expression of genes associated with oxidative phosphorylation in the integument. Several key genes involved in the pathways of insulin/insulin-like growth factor signaling (IIS) and 20E signaling were also upregulated after JHA application. Taken together, we suggest that JH may mediate the nutrient-dependent IIS pathway by regulating various metabolic pathways and further modulate 20E signaling.

Published
2014
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