Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses

Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for h...
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Autor*in:	McLaren, Paul J [verfasserIn] Gawanbacht, Ali Pyndiah, Nitisha Krapp, Christian Hotter, Dominik Kluge, Silvia F Götz, Nicola Heilmann, Jessica Mack, Katharina Sauter, Daniel Thompson, Danielle Perreaud, Jérémie Rausell, Antonio Munoz, Miguel Ciuffi, Angela Kirchhoff, Frank Telenti, Amalio

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2015

Schlagwörter:	Host restrictions factors Evolutionary genomics HIV-1

Anmerkung:	© McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (

Übergeordnetes Werk:	Enthalten in: Retrovirology - London : BioMed Central, 2004, 12(2015), 1 vom: 16. Mai
Übergeordnetes Werk:	volume:12 ; year:2015 ; number:1 ; day:16 ; month:05

Links:	Volltext

DOI / URN:	10.1186/s12977-015-0165-5

Katalog-ID:	SPR029176573

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520			\|a Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells.
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700	1		\|a Kirchhoff, Frank \|4 aut
700	1		\|a Telenti, Amalio \|4 aut
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allfields	10.1186/s12977-015-0165-5 doi (DE-627)SPR029176573 (SPR)s12977-015-0165-5-e DE-627 ger DE-627 rakwb eng McLaren, Paul J verfasserin aut Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses 2015 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. Host restrictions factors (dpeaa)DE-He213 Evolutionary genomics (dpeaa)DE-He213 HIV-1 (dpeaa)DE-He213 Gawanbacht, Ali aut Pyndiah, Nitisha aut Krapp, Christian aut Hotter, Dominik aut Kluge, Silvia F aut Götz, Nicola aut Heilmann, Jessica aut Mack, Katharina aut Sauter, Daniel aut Thompson, Danielle aut Perreaud, Jérémie aut Rausell, Antonio aut Munoz, Miguel aut Ciuffi, Angela aut Kirchhoff, Frank aut Telenti, Amalio aut Enthalten in Retrovirology London : BioMed Central, 2004 12(2015), 1 vom: 16. Mai (DE-627)385612931 (DE-600)2142602-8 1742-4690 nnns volume:12 year:2015 number:1 day:16 month:05 https://dx.doi.org/10.1186/s12977-015-0165-5 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 12 2015 1 16 05
spelling	10.1186/s12977-015-0165-5 doi (DE-627)SPR029176573 (SPR)s12977-015-0165-5-e DE-627 ger DE-627 rakwb eng McLaren, Paul J verfasserin aut Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses 2015 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. Host restrictions factors (dpeaa)DE-He213 Evolutionary genomics (dpeaa)DE-He213 HIV-1 (dpeaa)DE-He213 Gawanbacht, Ali aut Pyndiah, Nitisha aut Krapp, Christian aut Hotter, Dominik aut Kluge, Silvia F aut Götz, Nicola aut Heilmann, Jessica aut Mack, Katharina aut Sauter, Daniel aut Thompson, Danielle aut Perreaud, Jérémie aut Rausell, Antonio aut Munoz, Miguel aut Ciuffi, Angela aut Kirchhoff, Frank aut Telenti, Amalio aut Enthalten in Retrovirology London : BioMed Central, 2004 12(2015), 1 vom: 16. Mai (DE-627)385612931 (DE-600)2142602-8 1742-4690 nnns volume:12 year:2015 number:1 day:16 month:05 https://dx.doi.org/10.1186/s12977-015-0165-5 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 12 2015 1 16 05
allfields_unstemmed	10.1186/s12977-015-0165-5 doi (DE-627)SPR029176573 (SPR)s12977-015-0165-5-e DE-627 ger DE-627 rakwb eng McLaren, Paul J verfasserin aut Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses 2015 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. Host restrictions factors (dpeaa)DE-He213 Evolutionary genomics (dpeaa)DE-He213 HIV-1 (dpeaa)DE-He213 Gawanbacht, Ali aut Pyndiah, Nitisha aut Krapp, Christian aut Hotter, Dominik aut Kluge, Silvia F aut Götz, Nicola aut Heilmann, Jessica aut Mack, Katharina aut Sauter, Daniel aut Thompson, Danielle aut Perreaud, Jérémie aut Rausell, Antonio aut Munoz, Miguel aut Ciuffi, Angela aut Kirchhoff, Frank aut Telenti, Amalio aut Enthalten in Retrovirology London : BioMed Central, 2004 12(2015), 1 vom: 16. Mai (DE-627)385612931 (DE-600)2142602-8 1742-4690 nnns volume:12 year:2015 number:1 day:16 month:05 https://dx.doi.org/10.1186/s12977-015-0165-5 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 12 2015 1 16 05
allfieldsGer	10.1186/s12977-015-0165-5 doi (DE-627)SPR029176573 (SPR)s12977-015-0165-5-e DE-627 ger DE-627 rakwb eng McLaren, Paul J verfasserin aut Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses 2015 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. Host restrictions factors (dpeaa)DE-He213 Evolutionary genomics (dpeaa)DE-He213 HIV-1 (dpeaa)DE-He213 Gawanbacht, Ali aut Pyndiah, Nitisha aut Krapp, Christian aut Hotter, Dominik aut Kluge, Silvia F aut Götz, Nicola aut Heilmann, Jessica aut Mack, Katharina aut Sauter, Daniel aut Thompson, Danielle aut Perreaud, Jérémie aut Rausell, Antonio aut Munoz, Miguel aut Ciuffi, Angela aut Kirchhoff, Frank aut Telenti, Amalio aut Enthalten in Retrovirology London : BioMed Central, 2004 12(2015), 1 vom: 16. Mai (DE-627)385612931 (DE-600)2142602-8 1742-4690 nnns volume:12 year:2015 number:1 day:16 month:05 https://dx.doi.org/10.1186/s12977-015-0165-5 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 12 2015 1 16 05
allfieldsSound	10.1186/s12977-015-0165-5 doi (DE-627)SPR029176573 (SPR)s12977-015-0165-5-e DE-627 ger DE-627 rakwb eng McLaren, Paul J verfasserin aut Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses 2015 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. Host restrictions factors (dpeaa)DE-He213 Evolutionary genomics (dpeaa)DE-He213 HIV-1 (dpeaa)DE-He213 Gawanbacht, Ali aut Pyndiah, Nitisha aut Krapp, Christian aut Hotter, Dominik aut Kluge, Silvia F aut Götz, Nicola aut Heilmann, Jessica aut Mack, Katharina aut Sauter, Daniel aut Thompson, Danielle aut Perreaud, Jérémie aut Rausell, Antonio aut Munoz, Miguel aut Ciuffi, Angela aut Kirchhoff, Frank aut Telenti, Amalio aut Enthalten in Retrovirology London : BioMed Central, 2004 12(2015), 1 vom: 16. Mai (DE-627)385612931 (DE-600)2142602-8 1742-4690 nnns volume:12 year:2015 number:1 day:16 month:05 https://dx.doi.org/10.1186/s12977-015-0165-5 lizenzpflichtig Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 12 2015 1 16 05
language	English
source	Enthalten in Retrovirology 12(2015), 1 vom: 16. Mai volume:12 year:2015 number:1 day:16 month:05
sourceStr	Enthalten in Retrovirology 12(2015), 1 vom: 16. Mai volume:12 year:2015 number:1 day:16 month:05
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	Host restrictions factors Evolutionary genomics HIV-1
isfreeaccess_bool	false
container_title	Retrovirology
authorswithroles_txt_mv	McLaren, Paul J @@aut@@ Gawanbacht, Ali @@aut@@ Pyndiah, Nitisha @@aut@@ Krapp, Christian @@aut@@ Hotter, Dominik @@aut@@ Kluge, Silvia F @@aut@@ Götz, Nicola @@aut@@ Heilmann, Jessica @@aut@@ Mack, Katharina @@aut@@ Sauter, Daniel @@aut@@ Thompson, Danielle @@aut@@ Perreaud, Jérémie @@aut@@ Rausell, Antonio @@aut@@ Munoz, Miguel @@aut@@ Ciuffi, Angela @@aut@@ Kirchhoff, Frank @@aut@@ Telenti, Amalio @@aut@@
publishDateDaySort_date	2015-05-16T00:00:00Z
hierarchy_top_id	385612931
id	SPR029176573
language_de	englisch
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This is an Open Access article distributed under the terms of the Creative Commons Attribution License (</subfield></datafield><datafield tag="520" ind1=" " ind2=" "><subfield code="a">Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. 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author	McLaren, Paul J
spellingShingle	McLaren, Paul J misc Host restrictions factors misc Evolutionary genomics misc HIV-1 Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses
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topic_title	Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses Host restrictions factors (dpeaa)DE-He213 Evolutionary genomics (dpeaa)DE-He213 HIV-1 (dpeaa)DE-He213
topic	misc Host restrictions factors misc Evolutionary genomics misc HIV-1
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title	Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses
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title_full	Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses
author_sort	McLaren, Paul J
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author_browse	McLaren, Paul J Gawanbacht, Ali Pyndiah, Nitisha Krapp, Christian Hotter, Dominik Kluge, Silvia F Götz, Nicola Heilmann, Jessica Mack, Katharina Sauter, Daniel Thompson, Danielle Perreaud, Jérémie Rausell, Antonio Munoz, Miguel Ciuffi, Angela Kirchhoff, Frank Telenti, Amalio
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author-letter	McLaren, Paul J
doi_str_mv	10.1186/s12977-015-0165-5
title_sort	identification of potential hiv restriction factors by combining evolutionary genomic signatures with functional analyses
title_auth	Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses
abstract	Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (
abstractGer	Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (
abstract_unstemmed	Background Known antiretroviral restriction factors are encoded by genes that are under positive selection pressure, induced during HIV-1 infection, up-regulated by interferons, and/or interact with viral proteins. To identify potential novel restriction factors, we performed genome-wide scans for human genes sharing molecular and evolutionary signatures of known restriction factors and tested the anti-HIV-1 activity of the most promising candidates. Results Our analyses identified 30 human genes that share characteristics of known restriction factors. Functional analyses of 27 of these candidates showed that over-expression of a strikingly high proportion of them significantly inhibited HIV-1 without causing cytotoxic effects. Five factors (APOL1, APOL6, CD164, TNFRSF10A, TNFRSF10D) suppressed infectious HIV-1 production in transfected 293T cells by >90% and six additional candidates (FCGR3A, CD3E, OAS1, GBP5, SPN, IFI16) achieved this when the virus was lacking intact accessory vpr, vpu and nef genes. Unexpectedly, over-expression of two factors (IL1A, SP110) significantly increased infectious HIV-1 production. Mechanistic studies suggest that the newly identified potential restriction factors act at different steps of the viral replication cycle, including proviral transcription and production of viral proteins. Finally, we confirmed that mRNA expression of most of these candidate restriction factors in primary CD4+ T cells is significantly increased by type I interferons. Conclusions A limited number of human genes share multiple characteristics of genes encoding for known restriction factors. Most of them display anti-retroviral activity in transient transfection assays and are expressed in primary CD4+ T cells. © McLaren et al.; licensee BioMed Central. 2015. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (
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title_short	Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses
url	https://dx.doi.org/10.1186/s12977-015-0165-5
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author2	Gawanbacht, Ali Pyndiah, Nitisha Krapp, Christian Hotter, Dominik Kluge, Silvia F Götz, Nicola Heilmann, Jessica Mack, Katharina Sauter, Daniel Thompson, Danielle Perreaud, Jérémie Rausell, Antonio Munoz, Miguel Ciuffi, Angela Kirchhoff, Frank Telenti, Amalio
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up_date	2024-07-03T23:49:22.482Z
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Identification of potential HIV restriction factors by combining evolutionary genomic signatures with functional analyses

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