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      CRISPR/Cas9-mediated genome editing reveals 30 testis-enriched genes dispensable for male fertility in mice

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      1 , 1 , 2 , 1 , 2 , 1 , 3 , 1 , 1 , 4 , 1 , 1 , 1 , 5 , 1 , 1 , 1 , 6 , 1 , 7 , 1 , 5 , 1 , 8 , 1 , 2 , 9 , 10 , 11 , 12 , 13 , 14 , 8 , 15 , 1 , 9 , 10 , 11 , 13 , 16 , 17 , 9 , 10 , 18 , 1 , 2 , 5 , 6 , 19
      Biology of Reproduction
      Oxford University Press
      CRISPR/Cas9, knockout mice, male infertility, testis expression, spermatogenesis

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          Abstract

          More than 1000 genes are predicted to be predominantly expressed in mouse testis, yet many of them remain unstudied in terms of their roles in spermatogenesis and sperm function and their essentiality in male reproduction. Since individually indispensable factors can provide important implications for the diagnosis of genetically related idiopathic male infertility and may serve as candidate targets for the development of nonhormonal male contraceptives, our laboratories continuously analyze the functions of testis-enriched genes in vivo by generating knockout mouse lines using the CRISPR/Cas9 system. The dispensability of genes in male reproduction is easily determined by examining the fecundity of knockout males. During our large-scale screening of essential factors, we knocked out 30 genes that have a strong bias of expression in the testis and are mostly conserved in mammalian species including human. Fertility tests reveal that the mutant males exhibited normal fecundity, suggesting these genes are individually dispensable for male reproduction. Since such functionally redundant genes are of diminished biological and clinical significance, we believe that it is crucial to disseminate this list of genes, along with their phenotypic information, to the scientific community to avoid unnecessary expenditure of time and research funds and duplication of efforts by other laboratories.

          Abstract

          Thirty testis-enriched genes are dispensable for male fertility based on phenotypic analyses of knockout mice produced by the CRISPR/Cas9 system.

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          Most cited references32

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          Genetic compensation triggered by mutant mRNA degradation

          Genetic robustness, or the ability of an organism to maintain fitness in the presence of mutations, can be achieved via protein feedback loops. Recent evidence suggests that organisms may also respond to mutations by upregulating related gene(s) independently of protein feedback loops, a phenomenon called transcriptional adaptation. However, the prevalence of transcriptional adaptation and its underlying molecular mechanisms are unknown. Here, by analyzing several models of transcriptional adaptation in zebrafish and mouse, we show a requirement for mRNA degradation. Alleles that fail to transcribe the mutated gene do not display transcriptional adaptation and exhibit more severe phenotypes than alleles displaying mutant mRNA decay. Transcriptome analysis reveals the upregulation of a substantial proportion of the genes that exhibit sequence similarity with the mutated gene’s mRNA, suggesting a sequence dependent mechanism. Besides implications for our understanding of disease-causing mutations, these findings will help design mutant alleles with minimal transcriptional adaptation-derived compensation.
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            OrthoDB v10: sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs

            Abstract OrthoDB (https://www.orthodb.org) provides evolutionary and functional annotations of orthologs. This update features a major scaling up of the resource coverage, sampling the genomic diversity of 1271 eukaryotes, 6013 prokaryotes and 6488 viruses. These include putative orthologs among 448 metazoan, 117 plant, 549 fungal, 148 protist, 5609 bacterial, and 404 archaeal genomes, picking up the best sequenced and annotated representatives for each species or operational taxonomic unit. OrthoDB relies on a concept of hierarchy of levels-of-orthology to enable more finely resolved gene orthologies for more closely related species. Since orthologs are the most likely candidates to retain functions of their ancestor gene, OrthoDB is aimed at narrowing down hypotheses about gene functions and enabling comparative evolutionary studies. Optional registered-user sessions allow on-line BUSCO assessments of gene set completeness and mapping of the uploaded data to OrthoDB to enable further interactive exploration of related annotations and generation of comparative charts. The accelerating expansion of genomics data continues to add valuable information, and OrthoDB strives to provide orthologs from the broadest coverage of species, as well as to extensively collate available functional annotations and to compute evolutionary annotations. The data can be browsed online, downloaded or assessed via REST API or SPARQL RDF compatible with both UniProt and Ensembl.
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              The biology of infertility: research advances and clinical challenges.

              Reproduction is required for the survival of all mammalian species, and thousands of essential 'sex' genes are conserved through evolution. Basic research helps to define these genes and the mechanisms responsible for the development, function and regulation of the male and female reproductive systems. However, many infertile couples continue to be labeled with the diagnosis of idiopathic infertility or given descriptive diagnoses that do not provide a cause for their defect. For other individuals with a known etiology, effective cures are lacking, although their infertility is often bypassed with assisted reproductive technologies (ART), some accompanied by safety or ethical concerns. Certainly, progress in the field of reproduction has been realized in the twenty-first century with advances in the understanding of the regulation of fertility, with the production of over 400 mutant mouse models with a reproductive phenotype and with the promise of regenerative gonadal stem cells. Indeed, the past six years have witnessed a virtual explosion in the identification of gene mutations or polymorphisms that cause or are linked to human infertility. Translation of these findings to the clinic remains slow, however, as do new methods to diagnose and treat infertile couples. Additionally, new approaches to contraception remain elusive. Nevertheless, the basic and clinical advances in the understanding of the molecular controls of reproduction are impressive and will ultimately improve patient care.
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                Author and article information

                Journal
                Biol Reprod
                Biol. Reprod
                biolreprod
                Biology of Reproduction
                Oxford University Press
                0006-3363
                1529-7268
                August 2019
                14 June 2019
                14 June 2019
                : 101
                : 2
                : 501-511
                Affiliations
                [1 ]Department of Experimental Genome Research, Research Institute for Microbial Diseases, Osaka University, Suita, Osaka, Japan
                [2 ]Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Osaka, Japan
                [3 ]RIKEN Center for Biosystems Dynamics Research, Kobe, Hyogo, Japan
                [4 ]Department of Bioscience and Genetics, National Cerebral and Cardiovascular Center, Suita, Osaka, Japan
                [5 ]Graduate School of Medicine, Osaka University, Suita, Osaka, Japan
                [6 ]Immunology Frontier Research Center, Osaka University, Osaka, Japan
                [7 ]Laboratory Animal Center, Chongqing Medical University, Chongqing, China
                [8 ]Priority Research Centre for Reproductive Science, Faculty of Science, The University of Newcastle, Callaghan, New South Wales, Australia
                [9 ]Department of Pathology and Immunology, Baylor College of Medicine, Houston, Texas, USA
                [10 ]Center for Drug Discovery, Baylor College of Medicine, Houston, Texas, USA
                [11 ]Dan L Duncan Comprehensive Cancer Center, Baylor College of Medicine, Houston, Texas, USA
                [12 ]Advanced Technology Cores, Baylor College of Medicine, Houston, Texas, USA
                [13 ]Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas, USA
                [14 ]Graduate School of Biological Sciences, Nara Institute of Science and Technology, Nara, Japan
                [15 ]Hunter Medical Research Institute, New Lambton Heights, New South Wales, Australia
                [16 ]Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
                [17 ]Department of Pharmacology and Chemical Biology, Baylor College of Medicine, Houston, Texas, USA
                [18 ]Department of Biology and Biotechnology, University of Houston-Clear Lake, Houston, Texas, USA
                [19 ]The Institute of Medical Science, The University of Tokyo, Tokyo, Japan
                Author notes
                Correspondence: Department of Experimental Genome Research, Research Institute for Microbial Diseases, Osaka University, 3-1 Yamadaoka, Suita, Osaka 5650871, Japan. Tel: +81-6-6879-8375; Fax: +81-6-6879-8376; Email: ikawa@ 123456biken.osaka-u.ac.jp
                Author information
                http://orcid.org/0000-0003-0198-8906
                http://orcid.org/0000-0002-7606-732X
                http://orcid.org/0000-0001-8332-3507
                http://orcid.org/0000-0003-3739-7163
                http://orcid.org/0000-0003-0260-7861
                http://orcid.org/0000-0002-1819-4777
                http://orcid.org/0000-0003-3289-227X
                http://orcid.org/0000-0001-9291-4421
                http://orcid.org/0000-0002-4183-4939
                http://orcid.org/0000-0002-0803-9044
                http://orcid.org/0000-0002-1445-8632
                http://orcid.org/0000-0001-7761-2660
                http://orcid.org/0000-0001-9859-6217
                Article
                ioz103
                10.1093/biolre/ioz103
                6735960
                31201419
                aa974784-b1a3-4e8f-87ec-15dfb6db6c55
                © The Author(s) 2019. Published by Oxford University Press on behalf of Society for the Study of Reproduction.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 07 June 2019
                : 17 May 2019
                Page count
                Pages: 11
                Funding
                Funded by: KAKENHI
                Award ID: JP18K16735
                Award ID: JP17J09669
                Award ID: JP17H06840
                Award ID: JP15H05573
                Award ID: JP16KK0180
                Award ID: JP17K17852
                Award ID: JP17H04987
                Award ID: JPA18J116750
                Award ID: JP18K14612
                Award ID: JP18K14715
                Award ID: JP16H06276
                Award ID: JP17H01394
                Funded by: Lotte Foundation 10.13039/501100012036
                Funded by: Eunice Kennedy Shriver National Institute of Child Health and Human Development 10.13039/100009633
                Award ID: P01HD087157
                Award ID: R01HD088412
                Award ID: R01HD095341
                Funded by: Bill and Melinda Gates Foundation 10.13039/100000865
                Award ID: OPP1160866
                Funded by: Japan Agency for Medical Research and Development 10.13039/100009619
                Award ID: JP18gm5010001
                Categories
                Research Article

                crispr/cas9,knockout mice,male infertility,testis expression,spermatogenesis

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