Research Output

2020

Armitage determines Piwi−piRISC processing from precursor formation and quality control to inter-organelle translocation

Yamashiro, H., Negishi, M., Kinoshita, T., Ishizu, H., Ohtani, H. & Siomi, M. C., 2020 Feb 5, In : EMBO Reports. 21, 2, e48769.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Crystal structure of Drosophila Piwi

Yamaguchi, S., Oe, A., Nishida, K. M., Yamashita, K., Kajiya, A., Hirano, S., Matsumoto, N., Dohmae, N., Ishitani, R., Saito, K., Siomi, H., Nishimasu, H., Siomi, M. C. & Nureki, O., 2020 Dec 1, In : Nature communications. 11, 1, 858.

Research output: Contribution to journalArticle

Open Access
2019

Broad Heterochromatic Domains Open in Gonocyte Development Prior to De Novo DNA Methylation

Yamanaka, S., Nishihara, H., Toh, H., Eijy Nagai, L. A., Hashimoto, K., Park, S. J., Shibuya, A., Suzuki, A. M., Tanaka, Y., Nakai, K., Carninci, P., Sasaki, H. & Siomi, H., 2019 Oct 7, In : Developmental Cell. 51, 1, p. 21-34.e5

Research output: Contribution to journalArticle

3 Citations (Scopus)

Distinct and Collaborative Functions of Yb and Armitage in Transposon-Targeting piRNA Biogenesis

Ishizu, H., Kinoshita, T., Hirakata, S., Komatsuzaki, C. & Siomi, M. C., 2019 May 7, In : Cell Reports. 27, 6, p. 1822-1835.e8

Research output: Contribution to journalArticle

Open Access
6 Citations (Scopus)

Essential roles of Windei and nuclear monoubiquitination of Eggless/SETDB1 in transposon silencing

Osumi, K., Sato, K., Murano, K., Siomi, H. & Siomi, M. C., 2019 Jan 1, (Accepted/In press) In : EMBO Reports. e48296.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Nuclear RNA export factor variant initiates piRNA-guided co-transcriptional silencing

Murano, K., Iwasaki, Y., Ishizu, H., Mashiko, A., Shibuya, A., Kondo, S., Adachi, S., Suzuki, S., Saito, K., Natsume, T., Siomi, M. C. & Siomi, H., 2019 Jan 1, In : EMBO Journal. e102870.

Research output: Contribution to journalArticle

10 Citations (Scopus)

Requirements for multivalent Yb body assembly in transposon silencing in Drosophila

Hirakata, S., Ishizu, H., Fujita, A., Tomoe, Y. & Siomi, M. C., 2019 Jul, In : EMBO Reports. 20, 7, e47708.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Template Activating Factor-I α Regulates Retroviral Silencing during Reprogramming

Bui, P. L., Nishimura, K., Seminario Mondejar, G., Kumar, A., Aizawa, S., Murano, K., Nagata, K., Hayashi, Y., Fukuda, A., Onuma, Y., Ito, Y., Nakanishi, M. & Hisatake, K., 2019 Nov 12, In : Cell Reports. 29, 7, p. 1909-1922.e5

Research output: Contribution to journalArticle

Open Access
2018

Female mice lacking Ftx lncRNA exhibit impaired X-chromosome inactivation and a microphthalmia-like phenotype

Hosoi, Y., Soma, M., Shiura, H., Sado, T., Hasuwa, H., Abe, K., Kohda, T., Ishino, F. & Kobayashi, S., 2018 Dec 1, In : Nature communications. 9, 1, 3829.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Hepatic Ago2-mediated RNA silencing controls energy metabolism linked to AMPK activation and obesity-associated pathophysiology

Zhang, C., Seo, J., Murakami, K., Salem, E. S. B., Bernhard, E., Borra, V. J., Choi, K., Yuan, C. L., Chan, C. C., Chen, X., Huang, T., Weirauch, M. T., Divanovic, S., Qi, N. R., Thomas, H. E., Mercer, C. A., Siomi, H. & Nakamura, T., 2018 Dec 1, In : Nature communications. 9, 1, 3658.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Hierarchical roles of mitochondrial Papi and Zucchini in Bombyx germline piRNA biogenesis

Nishida, K. M., Sakakibara, K., Iwasaki, Y., Yamada, H., Murakami, R., Murota, Y., Kawamura, T., Kodama, T., Siomi, H. & Siomi, M. C., 2018 Mar 8, In : Nature. 555, 7695, p. 260-264 5 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

Piwi Nuclear Localization and Its Regulatory Mechanism in Drosophila Ovarian Somatic Cells

Yashiro, R., Murota, Y., Nishida, K. M., Yamashiro, H., Fujii, K., Ogai, A., Yamanaka, S., Negishi, L., Siomi, H. & Siomi, M. C., 2018 Jun 19, In : Cell Reports. 23, 12, p. 3647-3657 11 p.

Research output: Contribution to journalArticle

15 Citations (Scopus)

Profiling open chromatin structure in the ovarian somatic cells using ATAC-seq

Murano, K., Iwasaki, Y. & Siomi, H., 2018, Methods in Molecular Biology. Humana Press Inc., Vol. 1680. p. 165-177 13 p. (Methods in Molecular Biology; vol. 1680).

Research output: Chapter in Book/Report/Conference proceedingChapter

Tbx6 Induces Nascent Mesoderm from Pluripotent Stem Cells and Temporally Controls Cardiac versus Somite Lineage Diversification

Sadahiro, T., Isomi, M., Muraoka, N., Kojima, H., Haginiwa, S., Kurotsu, S., Tamura, F., Tani, H., Tohyama, S., Fujita, J., Miyoshi, H., Kawamura, Y., Goshima, N., Iwasaki, Y., Murano, K., Saito, K., Oda, M., Andersen, P., Kwon, C., Uosaki, H. & 3 others, Nishizono, H., Fukuda, K. & Ieda, M., 2018 Sep 6, In : Cell Stem Cell. 23, 3, p. 382-395 14 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)
2017

Deep sequencing and high-throughput analysis of PIWI-associated small RNAs

Iwasaki, Y., Ishino, K. & Siomi, H., 2017 Mar 28, (Accepted/In press) In : Methods.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Human PIWI (HIWI) is an azoospermia factor

Hasuwa, H., Ishino, K. & Siomi, H., 2017 Aug 10, (Accepted/In press) In : Science China Life Sciences. p. 1-3 3 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Identification of mouse piRNA pathway components using anti-MIWI2 antibodies

Hirano, T., Hasuwa, H. & Siomi, H., 2017, Methods in Molecular Biology. Humana Press Inc., Vol. 1463. p. 205-216 12 p. (Methods in Molecular Biology; vol. 1463).

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

Mitotic phosphorylation of CCCTC-binding factor (CTCF) reduces its DNA binding activity

Sekiya, T., Murano, K., Kato, K., Kawaguchi, A. & Nagata, K., 2017 Mar 1, In : FEBS Open Bio. 7, 3, p. 397-404 8 p.

Research output: Contribution to journalArticle

12 Citations (Scopus)

Mobile elements control stem cell potency

Hasuwa, H. & Siomi, H., 2017 Feb 10, In : Science. 355, 6325, p. 581-582 2 p.

Research output: Contribution to journalShort survey

2016

Crystal Structure of Silkworm PIWI-Clade Argonaute Siwi Bound to piRNA

Matsumoto, N., Nishimasu, H., Sakakibara, K., Nishida, K. M., Hirano, T., Ishitani, R., Siomi, H., Siomi, M. C. & Nureki, O., 2016 Oct 6, In : Cell. 167, 2, p. 484-497.e9

Research output: Contribution to journalArticle

44 Citations (Scopus)

Homeostatically maintained resting naive CD4+ T cells resist latent HIV reactivation

Tsunetsugu-Yokota, Y., Kobayahi-Ishihara, M., Wada, Y., Terahara, K., Takeyama, H., Kawana-Tachikawa, A., Tokunaga, K., Yamagishi, M., Martinez, J. P. & Meyerhans, A., 2016, In : Frontiers in Microbiology. 7, DEC, 1944.

Research output: Contribution to journalArticle

Open Access
10 Citations (Scopus)

Inheritance of a Nuclear PIWI from Pluripotent Stem Cells by Somatic Descendants Ensures Differentiation by Silencing Transposons in Planarian

Shibata, N., Kashima, M., Ishiko, T., Nishimura, O., Rouhana, L., Misaki, K., Yonemura, S., Saito, K., Siomi, H., Siomi, M. C. & Agata, K., 2016 May 9, In : Developmental Cell. 37, 3, p. 226-237 12 p.

Research output: Contribution to journalArticle

30 Citations (Scopus)

Loss of l(3)mbt leads to acquisition of the ping-pong cycle in Drosophila ovarian somatic cells

Sumiyoshi, T., Sato, K., Yamamoto, H., Iwasaki, Y. W., Siomi, H. & Siomi, M. C., 2016 Jul 15, In : Genes and Development. 30, 14, p. 1617-1622 6 p.

Research output: Contribution to journalArticle

19 Citations (Scopus)

MIWI2 as an Effector of DNA Methylation and Gene Silencing in Embryonic Male Germ Cells

Kojima-Kita, K., Kuramochi-Miyagawa, S., Nagamori, I., Ogonuki, N., Ogura, A., Hasuwa, H., Akazawa, T., Inoue, N. & Nakano, T., 2016 Sep 13, In : Cell Reports. 16, 11, p. 2819-2828 10 p.

Research output: Contribution to journalArticle

15 Citations (Scopus)

Production of small noncoding RNAs from the flamenco locus is regulated by the gypsy retrotransposon of Drosophila melanogaster

Guida, V., Cernilogar, F. M., Filograna, A., De Gregorio, R., Ishizu, H., Siomi, M. C., Schotta, G., Bellenchi, G. C. & Andrenacci, D., 2016 Oct, In : Genetics. 204, 2, p. 631-644 14 p.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Sphere-formation culture of testicular germ cells in the common marmoset, a small New World monkey

Lin, Z. Y. C., Hikabe, O., Suzuki, S., Hirano, T., Siomi, H., Sasaki, E., Imamura, M. & Okano, H., 2016 Jan 1, In : Primates. 57, 1, p. 129-135 7 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)
2015

Crystal structure and activity of the endoribonuclease domain of the piRNA pathway factor maelstrom

Matsumoto, N., Sato, K., Nishimasu, H., Namba, Y., Miyakubi, K., Dohmae, N., Ishitani, R., Siomi, H., Siomi, M. C. & Nureki, O., 2015 Apr 21, In : Cell Reports. 11, 3, p. 366-375 10 p.

Research output: Contribution to journalArticle

19 Citations (Scopus)

Gene expression ontogeny of spermatogenesis in the marmoset uncovers primate characteristics during testicular development

Lin, Z. Y. C., Hirano, T., Shibata, S., Seki, N. M., Kitajima, R., Sedohara, A., Siomi, M. C., Sasaki, E., Siomi, H., Imamura, M. & Okano, H., 2015 Apr 1, In : Developmental Biology. 400, 1, p. 43-58 16 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Identification of species and genotypic compositions of Cryptomonas (Cryptophyceae) populations in the eutrophic Lake Hira, Japan, using single-cell PCR

Nishino, H., Hodoki, Y., Thottathil, S. D., Ohbayashi, K., Takao, Y. & Nakano, S. I., 2015 Sep 28, In : Aquatic Ecology. 49, 3, p. 263-272 10 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Krimper Enforces an Antisense Bias on piRNA Pools by Binding AGO3 in the Drosophila Germline

Sato, K., Iwasaki, Y., Shibuya, A., Carninci, P., Tsuchizawa, Y., Ishizu, H., Siomi, M. C. & Siomi, H., 2015 Aug 20, In : Molecular Cell. 59, 4, p. 553-563 11 p.

Research output: Contribution to journalArticle

30 Citations (Scopus)

Misprocessed tRNA response targets piRNA clusters

Yamanaka, S. & Siomi, H., 2015 Dec 14, In : EMBO Journal. 34, 24, p. 2988-2989 2 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Oseltamivir Expands Quasispecies of Influenza Virus through Cell-to-cell Transmission

Mori, K., Murano, K., Ohniwa, R. L., Kawaguchi, A. & Nagata, K., 2015 Mar 16, In : Scientific reports. 5, 9163.

Research output: Contribution to journalArticle

7 Citations (Scopus)

Phased piRNAs tackle transposons

Siomi, H. & Siomi, M. C., 2015 May 15, In : Science. 348, 6236, p. 756-757 2 p.

Research output: Contribution to journalReview article

11 Citations (Scopus)

PiRNAs derived from ancient viral processed pseudogenes as transgenerational sequence-specific immune memory in mammals

Parrish, N. F., Fujino, K., Shiromoto, Y., Iwasaki, Y. W., Ha, H., Xing, J., Makino, A., Kuramochi-Miyagawa, S., Nakano, T., Siomi, H., Honda, T. & Tomonaga, K., 2015 Oct 1, In : RNA. 21, 10, p. 1691-1703 13 p.

Research output: Contribution to journalArticle

30 Citations (Scopus)

PIWI-interacting RNA: Its biogenesis and functions

Iwasaki, Y. W., Siomi, M. C. & Siomi, H., 2015 Jun 2, In : Annual Review of Biochemistry. 84, p. 405-433 29 p.

Research output: Contribution to journalArticle

255 Citations (Scopus)

Piwi Modulates Chromatin Accessibility by Regulating Multiple Factors Including Histone H1 to Repress Transposons

Iwasaki, Y., Murano, K., Ishizu, H., Shibuya, A., Iyoda, Y., Siomi, M. C., Siomi, H. & Saito, K., 2015 Dec 16, (Accepted/In press) In : Molecular Cell.

Research output: Contribution to journalArticle

54 Citations (Scopus)

Respective functions of two distinct siwi complexes assembled during PIWI-interacting RNA biogenesis in bombyx germ cells

Nishida, K. M., Iwasaki, Y. W., Murota, Y., Nagao, A., Mannen, T., Kato, Y., Siomi, H. & Siomi, M. C., 2015 Jan 13, In : Cell Reports. 10, 2, p. 193-203 11 p.

Research output: Contribution to journalArticle

48 Citations (Scopus)

Small RNAs: Artificial piRNAs for transcriptional silencing

Hirano, T. & Siomi, H., 2015 Jan 1, In : Current Biology. 25, 7, p. R280-R283

Research output: Contribution to journalShort survey

1 Citation (Scopus)

Somatic Primary piRNA Biogenesis Driven by cis-Acting RNA Elements and trans-Acting Yb

Ishizu, H., Iwasaki, Y., Hirakata, S., Ozaki, H., Iwasaki, W., Siomi, H. & Siomi, M. C., 2015 Jul 21, In : Cell Reports. 12, 3, p. 429-440 12 p.

Research output: Contribution to journalArticle

36 Citations (Scopus)

Tudor-domain containing proteins act to make the piRNA pathways more robust in Drosophila

Sato, K., Iwasaki, Y. W., Siomi, H. & Siomi, M. C., 2015 Jan 1, In : Fly. 9, 2, p. 86-90 5 p.

Research output: Contribution to journalArticle

3 Citations (Scopus)
2014

Broad cross-reactive epitopes of the H5N1 influenza virus identified by murine antibodies against the A/Vietnam/1194/2004 hemagglutinin

Kobayashi-Ishihara, M., Takahashi, H., Ohnishi, K., Nishimura, K., Terahara, K., Ato, M., Itamura, S., Kageyama, T. & Tsunetsugu-Yokota, Y., 2014 Jun 19, In : PloS one. 9, 6, e99201.

Research output: Contribution to journalArticle

Open Access
2 Citations (Scopus)

DiRNA-Ago2-RAD51 complexes at double-strand break sites

Yamanaka, S. & Siomi, H., 2014 May, In : Cell Research. 24, 5, p. 511-512 2 p.

Research output: Contribution to journalShort survey

8 Citations (Scopus)

It's time to exploit your favorite quirky organism with new technologies

Siomi, H., 2014 Jun, In : EMBO Reports. 15, 6, p. 620-621 2 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)

miRNA regulatory ecosystem in early development

Iwasaki, Y. W. & Siomi, H., 2014 Dec 4, In : Molecular Cell. 56, 5, p. 615-616 2 p.

Research output: Contribution to journalShort survey

3 Citations (Scopus)

PiRNA clusters and open chromatin structure

Yamanaka, S., Siomi, M. C. & Siomi, H., 2014 Aug 1, In : Mobile DNA. 5, 1, 22.

Research output: Contribution to journalArticle

34 Citations (Scopus)

Reconstitution of human rRNA gene transcription in mouse cells by a complete SL1 complex

Murano, K., Okuwaki, M., Momose, F., Kumakura, M., Ueshima, S., Newbold, R. F. & Nagata, K., 2014, In : Journal of Cell Science. 127, 15, p. 3309-3319 11 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

RNAi and overexpression of genes in ovarian somatic cells

Saito, K., 2014, PIWI-Interacting RNAs: Methods and Protocols. Humana Press Inc., p. 25-33 9 p. (Methods in Molecular Biology; vol. 1093).

Research output: Chapter in Book/Report/Conference proceedingChapter

5 Citations (Scopus)

RNAi and overexpression of genes in ovarian somatic cells

Saito, K., 2014, Methods in Molecular Biology. Vol. 1093. p. 25-33 9 p. (Methods in Molecular Biology; vol. 1093).

Research output: Chapter in Book/Report/Conference proceedingChapter

Small RNA profiling and characterization of piRNA clusters in the adult testes of the common marmoset, a model primate

Hirano, T., Iwasaki, Y. W., Lin, Z. Y. C., Imamura, M., Seki, N. M., Sasaki, E., Saito, K., Okano, H., Siomi, M. C. & Siomi, H., 2014 Aug, In : RNA. 20, 8, p. 1223-1237 15 p.

Research output: Contribution to journalArticle

49 Citations (Scopus)

Yb integrates piRNA intermediates and processing factors into perinuclear bodies to enhance piRISC assembly

Murota, Y., Ishizu, H., Nakagawa, S., Iwasaki, Y. W., Shibata, S., Kamatani, M. K., Saito, K., Okano, H., Siomi, H. & Siomi, M. C., 2014 Jul 10, In : Cell Reports. 8, 1, p. 103-113 11 p.

Research output: Contribution to journalArticle

44 Citations (Scopus)