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      RNA kinase CLP1/Cbc regulates meiosis initiation in spermatogenesis

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          Abstract

          CLP1, TSEN complex, and VCP are evolutionarily conserved proteins whose mutations are associated with neurodegenerative diseases. In this study, we have found that they are also involved in germline differentiation. To optimize both quantity and quality in gametes production, germ cells expand themselves through limited mitotic cycles prior to meiosis. Stemming from our previous findings on the correlation between mRNA 3′-processing and meiosis entry, here we identify that the RNA kinase Cbc, the Drosophila member of the highly conserved CLP1 family, is a component of the program regulating the transition from mitosis to meiosis. Using genetic manipulations in Drosophila testis, we demonstrate that nuclear Cbc is required to promote meiosis entry. Combining biochemical and genetic methods, we reveal that Cbc physically and/or genetically intersects with Tsen54 and TER94 (VCP ortholog) in this process. The C-terminal half of Tsen54 is both necessary and sufficient for its binding with Cbc. Further, we illustrate the functional conservation between Cbc and mammalian CLP1 in the assays of subcellular localization and Drosophila fertility. As CLP1, TSEN complex, and VCP have also been identified in neurodegenerations of animal models, a mechanism involving these factors seems to be shared in gametogenesis and neurogenesis.

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          Most cited references40

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          CDD/SPARCLE: the conserved domain database in 2020

          As NLM’s Conserved Domain Database (CDD) enters its 20th year of operations as a publicly available resource, CDD curation staff continues to develop hierarchical classifications of widely distributed protein domain families, and to record conserved sites associated with molecular function, so that they can be mapped onto user queries in support of hypothesis-driven biomolecular research. CDD offers both an archive of pre-computed domain annotations as well as live search services for both single protein or nucleotide queries and larger sets of protein query sequences. CDD staff has continued to characterize protein families via conserved domain architectures and has built up a significant corpus of curated domain architectures in support of naming bacterial proteins in RefSeq. These architecture definitions are available via SPARCLE, the Subfamily Protein Architecture Labeling Engine. CDD can be accessed at https://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml.
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            An optimized transgenesis system for Drosophila using germ-line-specific phiC31 integrases.

            Germ-line transformation via transposable elements is a powerful tool to study gene function in Drosophila melanogaster. However, some inherent characteristics of transposon-mediated transgenesis limit its use for transgene analysis. Here, we circumvent these limitations by optimizing a phiC31-based integration system. We generated a collection of lines with precisely mapped attP sites that allow the insertion of transgenes into many different predetermined intergenic locations throughout the fly genome. By using regulatory elements of the nanos and vasa genes, we established endogenous sources of the phiC31 integrase, eliminating the difficulties of coinjecting integrase mRNA and raising the transformation efficiency. Moreover, to discriminate between specific and rare nonspecific integration events, a white gene-based reconstitution system was generated that enables visual selection for precise attP targeting. Finally, we demonstrate that our chromosomal attP sites can be modified in situ, extending their scope while retaining their properties as landing sites. The efficiency, ease-of-use, and versatility obtained here with the phiC31-based integration system represents an important advance in transgenesis and opens up the possibility of systematic, high-throughput screening of large cDNA sets and regulatory elements.
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              Highly Specific and Efficient CRISPR/Cas9-Catalyzed Homology-Directed Repair in Drosophila

              We and others recently demonstrated that the readily programmable CRISPR/Cas9 system can be used to edit the Drosophila genome. However, most applications to date have relied on aberrant DNA repair to stochastically generate frameshifting indels and adoption has been limited by a lack of tools for efficient identification of targeted events. Here we report optimized tools and techniques for expanded application of the CRISPR/Cas9 system in Drosophila through homology-directed repair (HDR) with double-stranded DNA (dsDNA) donor templates that facilitate complex genome engineering through the precise incorporation of large DNA sequences, including screenable markers. Using these donors, we demonstrate the replacement of a gene with exogenous sequences and the generation of a conditional allele. To optimize efficiency and specificity, we generated transgenic flies that express Cas9 in the germline and directly compared HDR and off-target cleavage rates of different approaches for delivering CRISPR components. We also investigated HDR efficiency in a mutant background previously demonstrated to bias DNA repair toward HDR. Finally, we developed a web-based tool that identifies CRISPR target sites and evaluates their potential for off-target cleavage using empirically rooted rules. Overall, we have found that injection of a dsDNA donor and guide RNA-encoding plasmids into vasa-Cas9 flies yields the highest efficiency HDR and that target sites can be selected to avoid off-target mutations. Efficient and specific CRISPR/Cas9-mediated HDR opens the door to a broad array of complex genome modifications and greatly expands the utility of CRISPR technology for Drosophila research.
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                Author and article information

                Contributors
                Journal
                Hum Mol Genet
                Hum Mol Genet
                hmg
                Human Molecular Genetics
                Oxford University Press
                0964-6906
                1460-2083
                01 September 2021
                16 April 2021
                16 April 2021
                : 30
                : 17
                : 1569-1578
                Affiliations
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                The University of Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                The University of Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                The University of Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                State Key Laboratory of Molecular Developmental Biology , Institute of Genetics and Developmental Biology, Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                The University of Chinese Academy of Sciences , BeiChenXiLu#1, Beijing 100101, P.R. China
                Author notes
                To whom correspondence should be addressed at: BeiChenXiLu#1, Beijing 100101, P.R. China. Tel: and Fax: 8610-64807783; Email: zhwang@ 123456genetics.ac.cn
                Article
                ddab107
                10.1093/hmg/ddab107
                8369837
                33864361
                ceebd4cc-afc8-4324-abcd-4aa0b42c20a2
                © The Author(s) 2021. Published by Oxford University Press.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

                History
                : 23 February 2021
                : 8 April 2021
                : 8 April 2021
                Page count
                Pages: 10
                Funding
                Funded by: Ministry of Science and Technology of China;
                Award ID: 2018YFC1003300
                Funded by: National Science Foundation, DOI 10.13039/100000001;
                Award ID: 31671495
                Categories
                General Article
                AcademicSubjects/SCI01140

                Genetics
                Genetics

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