DOI: 10.1073/pnas.0401355101. Nuclear scaffold/matrix attached region modules linked to a transcription unit are sufficient for replication and maintenance of a mammalian episome

Nuclear scaffold/matrix attached region modules linked to a transcription unit are sufficient for replication and maintenance of a mammalian episome

10.1073/pnas.0401355101

Crossref journal-article

Proceedings of the National Academy of Sciences

Proceedings of the National Academy of Sciences (341)

Abstract

The activation of mammalian origins of replication depends so far on ill understood epigenetic events, such as binding of transcription factors, chromatin structure, and nuclear localization. Understanding these mechanisms is not only a scientific challenge but also represents a prerequisite for the rational design of nonviral episomal vectors for mammalian cells. In this paper, we demonstrate that a tetramer of a 155-bp minimal nuclear scaffold/matrix attached region DNA module linked to an upstream transcription unit is sufficient for replication and mitotic stability of a mammalian episome in the absence of selection. Fluorescence in situ hybridization analyses, crosslinking with cis -diammineplatinum(II)-dichloride and chromatin immunoprecipitation demonstrate that this vector associates with the nuclear matrix or scaffold in vivo by means of specific interaction of the nuclear scaffold/matrix attached region with the nuclear matrix protein SAF-A. Results presented in this paper define the minimal requirements of an episomal vector for mammalian cells on the molecular level.

Bibliography

Jenke, A. C. W., Stehle, I. M., Herrmann, F., Eisenberger, T., Baiker, A., Bode, J., Fackelmayer, F. O., & Lipps, H. J. (2004). Nuclear scaffold/matrix attached region modules linked to a transcription unit are sufficient for replication and maintenance of a mammalian episome. Proceedings of the National Academy of Sciences, 101(31), 11322â11327.

Authors 8

Andreas C. W. Jenke (first)
Isa M. Stehle (additional)
Frank Herrmann (additional)
Tobias Eisenberger (additional)
Armin Baiker (additional)
Jürgen Bode (additional)
Frank O. Fackelmayer (additional)
Hans J. Lipps (additional)

References 35 Referenced 130

10.1016/S1097-2765(00)80317-2
10.1016/S0959-437X(00)00067-8
10.1073/pnas.77.8.4559
10.1073/pnas.96.6.2656
10.1128/MCB.21.4.1098-1110.2001
DePamhilis, M. L. (1999) BioEssays 21, 186–197. / BioEssays (1999)
10.1126/science.1061724
10.1128/MCB.23.5.1832-1842.2003
10.1074/jbc.M207002200
10.1128/mcb.9.3.1026-1033.1989
10.1023/A:1024910307162
10.1126/science.284.5421.1790
10.1038/35084598
Lipps, H., Jenke, A., Nehlsen, K., Scinteie, M., Stehle, I. M. & Bode, J. (2003) Gene 11, 403–412. / Gene (2003)
10.1093/nar/27.2.426
10.1038/sj.emboj.7600029
10.1038/35004061
10.1093/embo-reports/kvf070
10.1023/A:1024962308071
10.1126/science.1553545
10.1023/B:MOLE.0000031363.35839.46
10.1016/S0022-2836(75)80083-0
10.1016/0022-2836(67)90307-5
10.1073/pnas.74.12.5350
Chomczynski, P. (1993) BioTechniques 15, 532–537.7692896 / BioTechniques (1993)
10.1023/A:1007203513462
10.1002/(SICI)1097-4644(19960915)62:4<495::AID-JCB7>3.0.CO;2-H
10.1128/MCB.20.20.7480-7489.2000
Mesner, L. D., Hamlin, J. L. & Dijkwel, P. A. (2003) Proc. Natl. Acad. Sci. USA 18, 3281–3286. / Proc. Natl. Acad. Sci. USA (2003)
10.1073/pnas.93.9.4278
10.1021/bi00484a017
Benham, C., Kohwi-Shigematsu, T. & Bode, J. (1997) J. Mol. Biol. 272, 181–196. / J. Mol. Biol. (1997)
10.1093/nar/17.23.9909
10.1021/bi00200a024
10.1101/gad.1084203

Dates

Type	When
Created	21 years, 1 month ago (July 23, 2004, 9:38 p.m.)
Deposited	3 years, 4 months ago (April 25, 2022, 10:06 p.m.)
Indexed	1 month ago (July 25, 2025, 6:36 a.m.)
Issued	21 years, 1 month ago (July 22, 2004)
Published	21 years, 1 month ago (July 22, 2004)
Published Online	21 years, 1 month ago (July 22, 2004)
Published Print	21 years ago (Aug. 3, 2004)

Funders 0

None

BibTeX

@article{Jenke_2004, title={Nuclear scaffold/matrix attached region modules linked to a transcription unit are sufficient for replication and maintenance of a mammalian episome}, volume={101}, ISSN={1091-6490}, url={http://dx.doi.org/10.1073/pnas.0401355101}, DOI={10.1073/pnas.0401355101}, number={31}, journal={Proceedings of the National Academy of Sciences}, publisher={Proceedings of the National Academy of Sciences}, author={Jenke, Andreas C. W. and Stehle, Isa M. and Herrmann, Frank and Eisenberger, Tobias and Baiker, Armin and Bode, Jürgen and Fackelmayer, Frank O. and Lipps, Hans J.}, year={2004}, month=jul, pages={11322–11327} }

JSON

{
  "indexed": {
    "date-parts": [
      [
        2025,
        7,
        25
      ]
    ],
    "date-time": "2025-07-25T10:36:05Z",
    "timestamp": 1753439765209
  },
  "reference-count": 35,
  "publisher": "Proceedings of the National Academy of Sciences",
  "issue": "31",
  "content-domain": {
    "domain": [
      "www.pnas.org"
    ],
    "crossmark-restriction": true
  },
  "published-print": {
    "date-parts": [
      [
        2004,
        8,
        3
      ]
    ]
  },
  "abstract": "<jats:p>\n            The activation of mammalian origins of replication depends so far on ill understood epigenetic events, such as binding of transcription factors, chromatin structure, and nuclear localization. Understanding these mechanisms is not only a scientific challenge but also represents a prerequisite for the rational design of nonviral episomal vectors for mammalian cells. In this paper, we demonstrate that a tetramer of a 155-bp minimal nuclear scaffold/matrix attached region DNA module linked to an upstream transcription unit is sufficient for replication and mitotic stability of a mammalian episome in the absence of selection. Fluorescence\n            <jats:italic>in situ</jats:italic>\n            hybridization analyses, crosslinking with\n            <jats:italic>cis</jats:italic>\n            -diammineplatinum(II)-dichloride and chromatin immunoprecipitation demonstrate that this vector associates with the nuclear matrix or scaffold\n            <jats:italic>in vivo</jats:italic>\n            by means of specific interaction of the nuclear scaffold/matrix attached region with the nuclear matrix protein SAF-A. Results presented in this paper define the minimal requirements of an episomal vector for mammalian cells on the molecular level.\n          </jats:p>",
  "DOI": "10.1073/pnas.0401355101",
  "type": "journal-article",
  "created": {
    "date-parts": [
      [
        2004,
        7,
        24
      ]
    ],
    "date-time": "2004-07-24T01:38:06Z",
    "timestamp": 1090633086000
  },
  "page": "11322-11327",
  "update-policy": "http://dx.doi.org/10.1073/pnas.cm10313",
  "source": "Crossref",
  "is-referenced-by-count": 130,
  "title": "Nuclear scaffold/matrix attached region modules linked to a transcription unit are sufficient for replication and maintenance of a mammalian episome",
  "prefix": "10.1073",
  "volume": "101",
  "author": [
    {
      "given": "Andreas C. W.",
      "family": "Jenke",
      "sequence": "first",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "Isa M.",
      "family": "Stehle",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "Frank",
      "family": "Herrmann",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "Tobias",
      "family": "Eisenberger",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "Armin",
      "family": "Baiker",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "J\u00fcrgen",
      "family": "Bode",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "Frank O.",
      "family": "Fackelmayer",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    },
    {
      "given": "Hans J.",
      "family": "Lipps",
      "sequence": "additional",
      "affiliation": [
        {
          "name": "Institute of Cell Biology, Witten/Herdecke University, 58448 Witten, Germany; Department of Molecular Cell Biology, Heinrich Pette Institute, 20251 Hamburg, Germany; and Gesellschaft f\u00fcr Biotechnologische Forschung, D-38124 Braunschweig, Germany"
        }
      ]
    }
  ],
  "member": "341",
  "published-online": {
    "date-parts": [
      [
        2004,
        7,
        22
      ]
    ]
  },
  "reference": [
    {
      "key": "e_1_3_2_1_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1016/S1097-2765(00)80317-2"
    },
    {
      "key": "e_1_3_2_2_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1016/S0959-437X(00)00067-8"
    },
    {
      "key": "e_1_3_2_3_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1073/pnas.77.8.4559"
    },
    {
      "key": "e_1_3_2_4_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1073/pnas.96.6.2656"
    },
    {
      "key": "e_1_3_2_5_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1128/MCB.21.4.1098-1110.2001"
    },
    {
      "key": "e_1_3_2_6_2",
      "first-page": "186",
      "volume": "21",
      "year": "1999",
      "unstructured": "DePamhilis, M. L. (1999) BioEssays 21, 186\u2013197.",
      "journal-title": "BioEssays"
    },
    {
      "key": "e_1_3_2_7_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1126/science.1061724"
    },
    {
      "key": "e_1_3_2_8_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1128/MCB.23.5.1832-1842.2003"
    },
    {
      "key": "e_1_3_2_9_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1074/jbc.M207002200"
    },
    {
      "key": "e_1_3_2_10_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1128/mcb.9.3.1026-1033.1989"
    },
    {
      "key": "e_1_3_2_11_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1023/A:1024910307162"
    },
    {
      "key": "e_1_3_2_12_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1126/science.284.5421.1790"
    },
    {
      "key": "e_1_3_2_13_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1038/35084598"
    },
    {
      "key": "e_1_3_2_14_2",
      "first-page": "403",
      "volume": "11",
      "year": "2003",
      "unstructured": "Lipps, H., Jenke, A., Nehlsen, K., Scinteie, M., Stehle, I. M. & Bode, J. (2003) Gene 11, 403\u2013412.",
      "journal-title": "Gene"
    },
    {
      "key": "e_1_3_2_15_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1093/nar/27.2.426"
    },
    {
      "key": "e_1_3_2_16_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1038/sj.emboj.7600029"
    },
    {
      "key": "e_1_3_2_17_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1038/35004061"
    },
    {
      "key": "e_1_3_2_18_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1093/embo-reports/kvf070"
    },
    {
      "key": "e_1_3_2_19_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1023/A:1024962308071"
    },
    {
      "key": "e_1_3_2_20_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1126/science.1553545"
    },
    {
      "key": "e_1_3_2_21_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1023/B:MOLE.0000031363.35839.46"
    },
    {
      "key": "e_1_3_2_22_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1016/S0022-2836(75)80083-0"
    },
    {
      "key": "e_1_3_2_23_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1016/0022-2836(67)90307-5"
    },
    {
      "key": "e_1_3_2_24_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1073/pnas.74.12.5350"
    },
    {
      "key": "e_1_3_2_25_2",
      "first-page": "532",
      "volume": "15",
      "year": "1993",
      "unstructured": "Chomczynski, P. (1993) BioTechniques 15, 532\u2013537.7692896",
      "journal-title": "BioTechniques"
    },
    {
      "key": "e_1_3_2_26_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1023/A:1007203513462"
    },
    {
      "key": "e_1_3_2_27_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1002/(SICI)1097-4644(19960915)62:4<495::AID-JCB7>3.0.CO;2-H"
    },
    {
      "key": "e_1_3_2_28_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1128/MCB.20.20.7480-7489.2000"
    },
    {
      "key": "e_1_3_2_29_2",
      "first-page": "3281",
      "volume": "18",
      "year": "2003",
      "unstructured": "Mesner, L. D., Hamlin, J. L. & Dijkwel, P. A. (2003) Proc. Natl. Acad. Sci. USA 18, 3281\u20133286.",
      "journal-title": "Proc. Natl. Acad. Sci. USA"
    },
    {
      "key": "e_1_3_2_30_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1073/pnas.93.9.4278"
    },
    {
      "key": "e_1_3_2_31_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1021/bi00484a017"
    },
    {
      "key": "e_1_3_2_32_2",
      "first-page": "181",
      "volume": "272",
      "year": "1997",
      "unstructured": "Benham, C., Kohwi-Shigematsu, T. & Bode, J. (1997) J. Mol. Biol. 272, 181\u2013196.",
      "journal-title": "J. Mol. Biol."
    },
    {
      "key": "e_1_3_2_33_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1093/nar/17.23.9909"
    },
    {
      "key": "e_1_3_2_34_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1021/bi00200a024"
    },
    {
      "key": "e_1_3_2_35_2",
      "doi-asserted-by": "publisher",
      "DOI": "10.1101/gad.1084203"
    }
  ],
  "container-title": "Proceedings of the National Academy of Sciences",
  "original-title": [],
  "language": "en",
  "link": [
    {
      "URL": "https://pnas.org/doi/pdf/10.1073/pnas.0401355101",
      "content-type": "unspecified",
      "content-version": "vor",
      "intended-application": "similarity-checking"
    }
  ],
  "deposited": {
    "date-parts": [
      [
        2022,
        4,
        26
      ]
    ],
    "date-time": "2022-04-26T02:06:26Z",
    "timestamp": 1650938786000
  },
  "score": 1,
  "resource": {
    "primary": {
      "URL": "https://pnas.org/doi/full/10.1073/pnas.0401355101"
    }
  },
  "subtitle": [],
  "short-title": [],
  "issued": {
    "date-parts": [
      [
        2004,
        7,
        22
      ]
    ]
  },
  "references-count": 35,
  "journal-issue": {
    "issue": "31",
    "published-print": {
      "date-parts": [
        [
          2004,
          8,
          3
        ]
      ]
    }
  },
  "alternative-id": [
    "10.1073/pnas.0401355101"
  ],
  "URL": "http://dx.doi.org/10.1073/pnas.0401355101",
  "relation": {},
  "ISSN": [
    "0027-8424",
    "1091-6490"
  ],
  "subject": [],
  "container-title-short": "Proc. Natl. Acad. Sci. U.S.A.",
  "published": {
    "date-parts": [
      [
        2004,
        7,
        22
      ]
    ]
  },
  "assertion": [
    {
      "value": "2004-02-26",
      "order": 0,
      "name": "received",
      "label": "Received",
      "group": {
        "name": "publication_history",
        "label": "Publication History"
      }
    },
    {
      "value": "2004-07-22",
      "order": 2,
      "name": "published",
      "label": "Published",
      "group": {
        "name": "publication_history",
        "label": "Publication History"
      }
    }
  ]
}