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      Knockout of the HMG domain of the porcine SRY gene causes sex reversal in gene-edited pigs

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          The present work characterizes the porcine sex-determining region on the Y chromosome (SRY) gene and demonstrates its pivotal role in sex determination. We provide evidence that genetically male pigs with a knockout of the SRY gene undergo sex reversal of the external and internal genitalia. This discovery of SRY as the main switch for sex determination in pigs may provide an alternative for surgical castration in pig production, preventing boar taint. As the pig shares many genetic, physiological, and anatomical similarities with humans, it also provides a suitable large animal model for human sex reversal syndromes, allowing for the development of new interventions for human sex disorders.

          Abstract

          The sex-determining region on the Y chromosome (SRY) is thought to be the central genetic element of male sex development in mammals. Pathogenic modifications within the SRY gene are associated with a male-to-female sex reversal syndrome in humans and other mammalian species, including rabbits and mice. However, the underlying mechanisms are largely unknown. To understand the biological function of the SRY gene, a site-directed mutational analysis is required to investigate associated phenotypic changes at the molecular, cellular, and morphological level. Here, we successfully generated a knockout of the porcine SRY gene by microinjection of two CRISPR-Cas ribonucleoproteins, targeting the centrally located “high mobility group” (HMG), followed by a frameshift mutation of the downstream SRY sequence. This resulted in the development of genetically male (XY) pigs with complete external and internal female genitalia, which, however, were significantly smaller than in 9-mo-old age-matched control females. Quantitative digital PCR analysis revealed a duplication of the SRY locus in Landrace pigs similar to the known palindromic duplication in Duroc breeds. Our study demonstrates the central role of the HMG domain in the SRY gene in male porcine sex determination. This proof-of-principle study could assist in solving the problem of sex preference in agriculture to improve animal welfare. Moreover, it establishes a large animal model that is more comparable to humans with regard to genetics, physiology, and anatomy, which is pivotal for longitudinal studies to unravel mammalian sex determination and relevant for the development of new interventions for human sex development disorders.

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          Most cited references49

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          GUIDE-Seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases

          CRISPR RNA-guided nucleases (RGNs) are widely used genome-editing reagents, but methods to delineate their genome-wide off-target cleavage activities have been lacking. Here we describe an approach for global detection of DNA double-stranded breaks (DSBs) introduced by RGNs and potentially other nucleases. This method, called Genome-wide Unbiased Identification of DSBs Enabled by Sequencing (GUIDE-Seq), relies on capture of double-stranded oligodeoxynucleotides into breaks Application of GUIDE-Seq to thirteen RGNs in two human cell lines revealed wide variability in RGN off-target activities and unappreciated characteristics of off-target sequences. The majority of identified sites were not detected by existing computational methods or ChIP-Seq. GUIDE-Seq also identified RGN-independent genomic breakpoint ‘hotspots’. Finally, GUIDE-Seq revealed that truncated guide RNAs exhibit substantially reduced RGN-induced off-target DSBs. Our experiments define the most rigorous framework for genome-wide identification of RGN off-target effects to date and provide a method for evaluating the safety of these nucleases prior to clinical use.
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            Highly efficient RNA-guided genome editing in human cells via delivery of purified Cas9 ribonucleoproteins

            RNA-guided engineered nucleases (RGENs) derived from the prokaryotic adaptive immune system known as CRISPR (clustered, regularly interspaced, short palindromic repeat)/Cas (CRISPR-associated) enable genome editing in human cell lines, animals, and plants, but are limited by off-target effects and unwanted integration of DNA segments derived from plasmids encoding Cas9 and guide RNA at both on-target and off-target sites in the genome. Here, we deliver purified recombinant Cas9 protein and guide RNA into cultured human cells including hard-to-transfect fibroblasts and pluripotent stem cells. RGEN ribonucleoproteins (RNPs) induce site-specific mutations at frequencies of up to 79%, while reducing off-target mutations associated with plasmid transfection at off-target sites that differ by one or two nucleotides from on-target sites. RGEN RNPs cleave chromosomal DNA almost immediately after delivery and are degraded rapidly in cells, reducing off-target effects. Furthermore, RNP delivery is less stressful to human embryonic stem cells, producing at least twofold more colonies than does plasmid transfection.
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              CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets

              Sensitive detection of off-target effects is important for translating CRISPR-Cas9 nucleases into human therapeutics. In vitro biochemical methods for finding off-targets offer potential advantages of greater reproducibility and scalability while avoiding limitations associated with strategies that require the culture and manipulation of living cells. Here we describe CIRCLE-seq (Circularization for In vitro Reporting of CLeavage Effects by sequencing), a highly sensitive, sequencing-efficient in vitro screening strategy that outperforms existing cell-based or biochemical approaches for identifying CRISPR-Cas9 genome-wide off-target mutations. In contrast to previously described in vitro methods, we show that CIRCLE-seq can be practiced using widely accessible next-generation sequencing technology and does not require reference genome sequence. Importantly, CIRCLE-seq can be used to identify off-target mutations associated with cell-type-specific SNPs, demonstrating the feasibility and importance of generating personalized specificity profiles. CIRCLE-seq provides the most accessible, rapid and comprehensive method for identifying genome-wide off-target mutations of CRISPR-Cas9 described to date.
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                Author and article information

                Journal
                Proc Natl Acad Sci U S A
                Proc Natl Acad Sci U S A
                pnas
                pnas
                PNAS
                Proceedings of the National Academy of Sciences of the United States of America
                National Academy of Sciences
                0027-8424
                1091-6490
                12 January 2021
                22 December 2020
                22 December 2020
                : 118
                : 2
                : e2008743118
                Affiliations
                [1] aInstitute of Farm Animal Genetics, Friedrich-Loeffler-Institut , Mariensee, 31535 Neustadt am Rübenberge, Germany;
                [2] bInstitute of Human Genetics, Hannover Medical School , 30625 Hannover, Germany;
                [3] cClinic for Gastroenterology, Hepatology and Endocrinology, Hannover Medical School , 30625 Hannover, Germany;
                [4] dFriedrich-Loeffler-Institut , 17493 Greifswald, Insel Riems, Germany
                Author notes
                1To whom correspondence may be addressed. Email: bjoern.petersen@ 123456fli.de .

                Edited by R. Michael Roberts, University of Missouri, Columbia, MO, and approved November 23, 2020 (received for review May 5, 2020)

                Author contributions: S.K., H.N., T.C.M., and B.P. designed research; S.K., A.L.-H., B.S., G.G., and B.P. performed research; S.K. contributed new reagents/analytic tools; S.K. and B.P. analyzed data; S.K. wrote the paper; A.L.-H. performed somatic cell nuclear transfer and microinjection techniques; B.S. performed karyotyping, supervised the project, and discussed the results; G.G. performed karyotyping; H.N. discussed the results and contributed to manuscript writing; T.C.M. initiated the project, discussed the results, and contributed to manuscript writing; and B.P. supervised the project, contributed to the design and implementation of the research, performed surgical embryo transfer, discussed the results, and contributed to manuscript writing.

                Author information
                https://orcid.org/0000-0002-9268-4053
                https://orcid.org/0000-0003-0438-7444
                https://orcid.org/0000-0003-0282-9704
                https://orcid.org/0000-0002-8385-7899
                Article
                202008743
                10.1073/pnas.2008743118
                7812820
                33443157
                fd7cb54c-7376-4c37-bc2f-6a13ffd50a14
                Copyright © 2021 the Author(s). Published by PNAS.

                This open access article is distributed under Creative Commons Attribution License 4.0 (CC BY).

                History
                Page count
                Pages: 9
                Categories
                Biological Sciences
                Genetics

                porcine sry gene,sex reversal,crispr/cas9,rnps,hmg domain
                porcine sry gene, sex reversal, crispr/cas9, rnps, hmg domain

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