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description Publicationkeyboard_double_arrow_right Article 2016 France EnglishHAL CCSD SSHRC, ANR | CHLORO_SAP, ANR | AmidexSSHRC ,ANR| CHLORO_SAP ,ANR| AmidexSugliani, Matteo; Abdelkefi, Hela; Ke, Hang; Bouveret, Emmanuelle; Robaglia, Christophe; Caffarri, Stefano; Field, Ben;International audience; The chloroplast originated from the endosymbiosis of an ancient photosynthetic bacterium by a eukaryotic cell. Remarkably, the chloroplast has retained elements of a bacterial stress response pathway that is mediated by the signaling nucleotides guanosine penta- and tetraphosphate (ppGpp). However, an understanding of the mechanism and outcomes ofppGppsignaling in the photosynthetic eukaryotes has remained elusive. Using the model plantArabidopsis thaliana, we show thatppGppis a potent regulator of chloroplast gene expression in vivo that directly reduces the quantity of chloroplast transcripts and chloroplast-encoded proteins. We then go on to demonstrate that the antagonistic functions of different plant RelA SpoT homologs together modulateppGpplevels to regulate chloroplast function and show that they are required for optimal plant growth, chloroplast volume, and chloroplast breakdown during dark-induced and developmental senescence. Therefore, our results show thatppGppsignaling is not only linked to stress responses in plants but is also an important mediator of cooperation between the chloroplast and the nucleocytoplasmic compartment during plant growth and development.
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For further information contact us at helpdesk@openaire.eu0 citations 0 popularity Average influence Average impulse Average Powered by BIP!more_vert All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=od______3515::f63a0ebef3a2ab0aca1bd1e62b82c427&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eudescription Publicationkeyboard_double_arrow_right Preprint 2017Cold Spring Harbor Laboratory SSHRC, ANR | Amidex, NSERC +2 projectsSSHRC ,ANR| Amidex ,NSERC ,CIHR ,NSF| Graduate Research Fellowship Program (GRFP)Authors: Knauf, S.; Gogarten, J. ; https://orcid.org/0000-0003-1889-4113; Schuenemann, V.; Nys, H.; +25 AuthorsKnauf, S.; Gogarten, J. ; https://orcid.org/0000-0003-1889-4113; Schuenemann, V.; Nys, H.; Duex, A.; Strouhal, M.; Mikalova, L.; Bos, K. ; https://orcid.org/0000-0003-2937-3006; Armstrong, R.; Batamuzi, E.; Chuma, I.; Davoust, B.; Diatta, G.; Fyumagwa, R.; Kazwala, R.; Keyyu, J.; Lejora, I.; Levasseur, A.; Liu, H.; Mayhew, M.; Mediannikov, O.; Raoult, D.; Wittig, R. ; https://orcid.org/0000-0001-6490-4031; Roos, C.; Leendertz, F.; Smajs, D.; Nieselt, K.; Krause, J. ; https://orcid.org/0000-0001-9144-3920; Calvignac-Spencer, S.;doi: 10.1101/135491
AbstractTreponema pallidumsubsp.pertenue(TPE) is the causative agent of yaws. The disease was subject to global eradication efforts in the mid 20thcentury but reemerged in West Africa, Southern Asia, and the Pacific region. Despite its importance for eradication, detailed data on possible nonhuman disease reservoirs are missing. A number of African nonhuman primates (NHPs) have been reported to show skin ulcerations suggestive of treponemal infection in humans. Furthermore antibodies againstTreponema pallidum(TP) have been repeatedly detected in wild NHP populations. While genetic studies confirmed that NHPs are infected withTPstrains, subspecies identification was only possible once for a strain isolated in 1966, pinpointing the involvement ofTPE. We therefore collected a number of recently isolated simianTPstrains and determined eight whole genome sequences using hybridization capture or long-range PCR combined with next-generation sequencing. These new genomes were compared with those of known humanTPisolates. Our results show that naturally occurring simianTPstrains circulating in three African NHP species all cluster with humanTPEstrains and show the same genomic structure as humanTPEstrains. These data indicate that humans are not the exclusive host for the yaws bacterium and that a One Health approach is required to achieve sustainable eradication of human yaws.
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You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1101/135491&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eu6 citations 6 popularity Average influence Average impulse Top 10% Powered by BIP!more_vert add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1101/135491&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eudescription Publicationkeyboard_double_arrow_right Article 2018 FranceInforma UK Limited SSHRC, ANR | ORDINEQ, ANR | AmidexSSHRC ,ANR| ORDINEQ ,ANR| AmidexAuthors: Dufour, Jean-Marie; Flachaire, Emmanuel; Khalaf, Lynda;Dufour, Jean-Marie; Flachaire, Emmanuel; Khalaf, Lynda;International audience; Asymptotic and bootstrap tests for inequality measures are known to perform poorly in finite samples when the underlying distribution is heavy-tailed. We propose Monte Carlo permutation and bootstrap methods for the problem of testing the equality of inequality measures between two samples. Results cover the Generalized Entropy class, which includes Theil’s index, the Atkinson class of indices, and the Gini index. We analyze finite-sample and asymptotic conditions for the validity of the proposed methods, and we introduce a convenient rescaling to improve finite-sample performance. Simulation results show that size correct inference can be obtained with our proposed methods despite heavy tails if the underlying distributions are sufficiently close in the upper tails. Substantial reduction in size distortion is achieved more generally. Studentized rescaled Monte Carlo permutation tests outperform the competing methods we consider in terms of power.
add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1080/07350015.2017.1371027&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eu9 citations 9 popularity Top 10% influence Average impulse Average Powered by BIP!more_vert add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1080/07350015.2017.1371027&type=result"></script>'); --> </script>
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description Publicationkeyboard_double_arrow_right Article 2016 France EnglishHAL CCSD SSHRC, ANR | CHLORO_SAP, ANR | AmidexSSHRC ,ANR| CHLORO_SAP ,ANR| AmidexSugliani, Matteo; Abdelkefi, Hela; Ke, Hang; Bouveret, Emmanuelle; Robaglia, Christophe; Caffarri, Stefano; Field, Ben;International audience; The chloroplast originated from the endosymbiosis of an ancient photosynthetic bacterium by a eukaryotic cell. Remarkably, the chloroplast has retained elements of a bacterial stress response pathway that is mediated by the signaling nucleotides guanosine penta- and tetraphosphate (ppGpp). However, an understanding of the mechanism and outcomes ofppGppsignaling in the photosynthetic eukaryotes has remained elusive. Using the model plantArabidopsis thaliana, we show thatppGppis a potent regulator of chloroplast gene expression in vivo that directly reduces the quantity of chloroplast transcripts and chloroplast-encoded proteins. We then go on to demonstrate that the antagonistic functions of different plant RelA SpoT homologs together modulateppGpplevels to regulate chloroplast function and show that they are required for optimal plant growth, chloroplast volume, and chloroplast breakdown during dark-induced and developmental senescence. Therefore, our results show thatppGppsignaling is not only linked to stress responses in plants but is also an important mediator of cooperation between the chloroplast and the nucleocytoplasmic compartment during plant growth and development.
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For further information contact us at helpdesk@openaire.eu0 citations 0 popularity Average influence Average impulse Average Powered by BIP!more_vert All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=od______3515::f63a0ebef3a2ab0aca1bd1e62b82c427&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eudescription Publicationkeyboard_double_arrow_right Preprint 2017Cold Spring Harbor Laboratory SSHRC, ANR | Amidex, NSERC +2 projectsSSHRC ,ANR| Amidex ,NSERC ,CIHR ,NSF| Graduate Research Fellowship Program (GRFP)Authors: Knauf, S.; Gogarten, J. ; https://orcid.org/0000-0003-1889-4113; Schuenemann, V.; Nys, H.; +25 AuthorsKnauf, S.; Gogarten, J. ; https://orcid.org/0000-0003-1889-4113; Schuenemann, V.; Nys, H.; Duex, A.; Strouhal, M.; Mikalova, L.; Bos, K. ; https://orcid.org/0000-0003-2937-3006; Armstrong, R.; Batamuzi, E.; Chuma, I.; Davoust, B.; Diatta, G.; Fyumagwa, R.; Kazwala, R.; Keyyu, J.; Lejora, I.; Levasseur, A.; Liu, H.; Mayhew, M.; Mediannikov, O.; Raoult, D.; Wittig, R. ; https://orcid.org/0000-0001-6490-4031; Roos, C.; Leendertz, F.; Smajs, D.; Nieselt, K.; Krause, J. ; https://orcid.org/0000-0001-9144-3920; Calvignac-Spencer, S.;doi: 10.1101/135491
AbstractTreponema pallidumsubsp.pertenue(TPE) is the causative agent of yaws. The disease was subject to global eradication efforts in the mid 20thcentury but reemerged in West Africa, Southern Asia, and the Pacific region. Despite its importance for eradication, detailed data on possible nonhuman disease reservoirs are missing. A number of African nonhuman primates (NHPs) have been reported to show skin ulcerations suggestive of treponemal infection in humans. Furthermore antibodies againstTreponema pallidum(TP) have been repeatedly detected in wild NHP populations. While genetic studies confirmed that NHPs are infected withTPstrains, subspecies identification was only possible once for a strain isolated in 1966, pinpointing the involvement ofTPE. We therefore collected a number of recently isolated simianTPstrains and determined eight whole genome sequences using hybridization capture or long-range PCR combined with next-generation sequencing. These new genomes were compared with those of known humanTPisolates. Our results show that naturally occurring simianTPstrains circulating in three African NHP species all cluster with humanTPEstrains and show the same genomic structure as humanTPEstrains. These data indicate that humans are not the exclusive host for the yaws bacterium and that a One Health approach is required to achieve sustainable eradication of human yaws.
add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1101/135491&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eu6 citations 6 popularity Average influence Average impulse Top 10% Powered by BIP!more_vert add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1101/135491&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eudescription Publicationkeyboard_double_arrow_right Article 2018 FranceInforma UK Limited SSHRC, ANR | ORDINEQ, ANR | AmidexSSHRC ,ANR| ORDINEQ ,ANR| AmidexAuthors: Dufour, Jean-Marie; Flachaire, Emmanuel; Khalaf, Lynda;Dufour, Jean-Marie; Flachaire, Emmanuel; Khalaf, Lynda;International audience; Asymptotic and bootstrap tests for inequality measures are known to perform poorly in finite samples when the underlying distribution is heavy-tailed. We propose Monte Carlo permutation and bootstrap methods for the problem of testing the equality of inequality measures between two samples. Results cover the Generalized Entropy class, which includes Theil’s index, the Atkinson class of indices, and the Gini index. We analyze finite-sample and asymptotic conditions for the validity of the proposed methods, and we introduce a convenient rescaling to improve finite-sample performance. Simulation results show that size correct inference can be obtained with our proposed methods despite heavy tails if the underlying distributions are sufficiently close in the upper tails. Substantial reduction in size distortion is achieved more generally. Studentized rescaled Monte Carlo permutation tests outperform the competing methods we consider in terms of power.
add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1080/07350015.2017.1371027&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eu9 citations 9 popularity Top 10% influence Average impulse Average Powered by BIP!more_vert add ClaimPlease grant OpenAIRE to access and update your ORCID works.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.This Research product is the result of merged Research products in OpenAIRE.
You have already added works in your ORCID record related to the merged Research product.All Research productsarrow_drop_down <script type="text/javascript"> <!-- document.write('<div id="oa_widget"></div>'); document.write('<script type="text/javascript" src="https://www.openaire.eu/index.php?option=com_openaire&view=widget&format=raw&projectId=10.1080/07350015.2017.1371027&type=result"></script>'); --> </script>
For further information contact us at helpdesk@openaire.eu