On the protease gene, no major mutation was detected. However, many minor mutations, feature of the...

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On the protease gene, no major mutation was detected. However, many minor mutations, feature of the non B strains, were present and the most important are: M36I, K20I/R/T, H69K, I13V, L63P/T/H/S/G, I93L, L10I/V, G16E and V77I. HIV-1 drug resistance among naives patients in Senegal Background HAART has dramatically improved survival and quality of life among people living with HIV and AIDS globally. However, drug resistant mutations of HIV are a great challenge to the benefits of HAART In Senegal, HAART is available in the capital city since 1998 and gradually in the decentralized settings since 2001. Secondary resistance can be compared with the rich countries. But, circulating of primary resistance is no studies. Conclusion ARV reduces morbidity and mortality of HIV infected patients but resistance can occur Risk of transmission of resistants virus This study showed an emergence of drug resistance strains in HIV naïve patients (2%). Resistance surveillance and genetic diversity study are necessary and strategies to preserve the first line drugs are needed. . Results Characteristic of population and strains 87 (83, 65%) of 104 patients, were women and 17 were men. Age is only known for 97 patients with an average of 32 years. The median of LTCD4 was of 562 cellules/mm3. Phylogenetic analysis showed a predominance of the recombinant CRF02_AG with 64 strains (61,5%) but also the presence of other strains : A(n=1), A3, (n=2), B (n=4), C (n=8), D’ (n=1), CRF06 (n=2), CRF11_cpx (n=2), of the recombinants unique CFR02/A3 (n=5), F/U (n=1), G/U/G (n=1) CRF36_cpx /CRF02_AG (n=2), U/ CRF02_AG (n=4), U/ CRF37_cpx (n=1), Methodology 104 naive HIV-1 patients were recruited in 2 main clinical care center in 2003, 2005 and 2007 In 2003-2005, they were chosen on the basis of a rate of LTCD4/mm3 superior or equal to 350. In 2007, criteria are TCD4 superior or equal to 500 and/or age under 25 years. 2003- 2005 : a 1850 pb fragment including PR gene et 420 first AA of RT gene was amplified by a nested RT- PCR 2007-2008 : nested RT-PCR was done separatly for PR and RT gene Références Derache A, Maiga A., et coll. Evolution of genetic diversity and drug resistance mutation HIV-1 among untreated patients from Mali Between 2005-2006. PMID: 18556706 Laurent C, Ngom Gueye NF, Ndour CT et coll. Long-term benefits of highly active antiretroviral therapy in Senegalese HIV-1-infected adults. J Acquir Immune Defic Syndr. 2005 Jan 1;38(1):14-7 Nicaise Ndembi, Awet Abraha, et coll. Molecular Characterization of Human Immunodeficiency Virus Type 1(HIV-1) and HIV-2 in Yaounde´, Cameroon: Evidence of Major Drug Resistance Mutations in Newly Diagnosed Patients Infected with Subtypes Other than Subtype B. CLINICAL MICROBIOLOGY, Jan. 2008, p. 177–184 Toni T, Masquelier B et coll. HIV-1 ANTIRETROVIRAL drug resistance in recently infected patients in Abidjan, Cote Ivoire: A 4-years survey 2002-2006. PMID: 1799113 Objectives - To analyze the presence of mutations associated to ARV among newly diagnosed immunocompetent HIV positive patients. - To study strains polymorphism in both Protease (PR) and RT gene Detection of drug resistance mutations On RT gene, 1 sample presents major mutation (G190E) conferred a high level resistance to EFV and NVP. Ten samples present minor resistance mutations of which 4 associated to the NRTIs, 2 (E44D, V108I, K238KN and T215ST) and 6 to the non nucleoside (V179E, T69PT, K103EK, E138A A62V and V118I). According to the Stanford the K238N and the K103EK conferred an intermediate resistance to the DLV and the NVP. The T215ST conferred an intermediate resistance to the ZDV and the D4T. . Figure 2: Phylogenetic tree of 2005 Table 2: Drug resistance mutations on RT gene 2005 Acknowledgments ANRS 1257 financial project ANRS 12134 financial project Contact : [email protected] , [email protected] Figure 3: Phylogénétic tree Figure 1: Characterization of strains A: 2005 B: 2007-2008 Table 3: Drug resistance mutations on RT gene of 2007-2008 Figure 4 : Drug resistance mutations on PR gene 2008 Leye N. 1 , Diop-Ndiaye H. 1 , Kebe K. 1 , Guindo P.M. 1 , Watara B. 3 , Ngom Guèye N.F. 2 , Diouf E B 2 .., Diallo S. 1 , Diop-Diongue O. 1 , Diaw-Diouf N.A. 1 , Gaye-Diallo A. 1 , Sembène M. 3 , Touré-Kane C 1 . and Mboup S. 1 1 Laboratory Bactériology-Virology, University of Dakar N. 3 , - 2 CTA OPALS, CHU de Fann, Sénégal- 3 Center of halth of Roi Baudouin Phylogenetic analysis were done by neighbour-joining method and sequences were submitted on Stanford HIVdb and were compared with the ANRS v2006.7 and Rega v6.4.1algorithms and the IAS Resistance Testing-USA panel (09/2007) ERxample of set of primers used for the long fragment and the DNA analyzer : Applied Biosystems 3100 Avent Viral Check Workshop 21 th -27 th June Dakar Senegal

Transcript of On the protease gene, no major mutation was detected. However, many minor mutations, feature of the...

Page 1: On the protease gene, no major mutation was detected. However, many minor mutations, feature of the non B strains, were present and the most important.

On the protease gene, no major mutation was

detected. However, many minor mutations, feature

of the non B strains, were present and the most

important are: M36I, K20I/R/T, H69K, I13V,

L63P/T/H/S/G, I93L, L10I/V, G16E and V77I.

HIV-1 drug resistance among naives patients in Senegal

BackgroundHAART has dramatically improved survival and quality of life among people living with HIV and AIDS globally. However, drug resistant mutations of HIV are a great challenge to the benefits of HAARTIn Senegal, HAART is available in the capital city since 1998 and gradually in the decentralized settings since 2001. Secondary resistance can be compared with the rich countries. But, circulating of primary resistance is no studies.

ConclusionARV reduces morbidity and mortality of HIV infected patients but resistance can occur Risk of transmission of resistants virus

This study showed an emergence of drug resistance strains in HIV naïve patients (2%). Resistance surveillance and genetic diversity study are necessary and strategies to preserve the first line drugs are needed. .

ResultsCharacteristic of population and strains

87 (83, 65%) of 104 patients, were women and 17 were men. Age is only known for 97 patients with an average of 32 years. The median of LTCD4 was of 562 cellules/mm3.

Phylogenetic analysis showed a predominance of the recombinant CRF02_AG with 64 strains (61,5%) but also the presence of other strains : A(n=1), A3, (n=2), B (n=4), C (n=8), D’ (n=1), CRF06 (n=2), CRF11_cpx (n=2), of the recombinants unique CFR02/A3 (n=5), F/U (n=1), G/U/G (n=1) CRF36_cpx /CRF02_AG (n=2), U/ CRF02_AG (n=4), U/ CRF37_cpx (n=1),

Methodology104 naive HIV-1 patients were recruited in 2 mainclinical care center in 2003, 2005 and 2007In 2003-2005, they were chosen on the basis of a rateof LTCD4/mm3 superior or equal to 350.In 2007, criteria are TCD4 superior or equal to 500and/or age under 25 years.2003- 2005 : a 1850 pb fragment including PR gene et

420 first AA of RT gene was amplified by a nested RT-PCR

2007-2008 : nested RT-PCR was done separatly for PR and RT gene

RéférencesDerache A, Maiga A., et coll. Evolution of genetic diversity and drug resistance mutation HIV-1 among untreated patients from Mali Between 2005-2006. PMID: 18556706

Laurent C, Ngom Gueye NF, Ndour CT et coll. Long-term benefits of highly active antiretroviral therapy in Senegalese HIV-1-infected adults. J Acquir Immune Defic Syndr. 2005 Jan 1;38(1):14-7

Nicaise Ndembi, Awet Abraha, et coll. Molecular Characterization of Human Immunodeficiency Virus Type 1(HIV-1) and HIV-2 in Yaounde´, Cameroon: Evidence of Major Drug Resistance Mutations in Newly Diagnosed Patients Infected with Subtypes Other than Subtype B. CLINICAL MICROBIOLOGY, Jan. 2008, p. 177–184

Toni T, Masquelier B et coll. HIV-1 ANTIRETROVIRAL drug resistance in recently infected patients in Abidjan, Cote Ivoire: A 4-years survey 2002-2006. PMID: 1799113

Objectives- To analyze the presence of mutations associated to ARV among newly diagnosed immunocompetent HIV positive patients.- To study strains polymorphism in both Protease (PR) and RT gene

Detection of drug resistance mutations

On RT gene, 1 sample presents major mutation

(G190E) conferred a high level resistance to EFV

and NVP.

Ten samples present minor resistance mutations of

which 4 associated to the NRTIs, 2 (E44D, V108I,

K238KN and T215ST) and 6 to the non nucleoside

(V179E, T69PT, K103EK, E138A A62V and

V118I).

According to the Stanford the K238N and the

K103EK conferred an intermediate resistance to the

DLV and the NVP. The T215ST conferred an

intermediate resistance to the ZDV and the D4T. 

.

Figure 2: Phylogenetic tree of 2005

Table 2: Drug resistance mutations on RT gene 2005

AcknowledgmentsANRS 1257 financial projectANRS 12134 financial projectContact : [email protected], [email protected]

Figure 3: Phylogénétic tree

Figure 1: Characterization of strains

A: 2005 B: 2007-2008

Table 3: Drug resistance mutations on RT gene of 2007-2008

Figure 4 : Drug resistance mutations on PR gene 2008

Leye N.1, Diop-Ndiaye H.1, Kebe K.1, Guindo P.M.1, Watara B.3, Ngom Guèye N.F.2, Diouf E B2.., Diallo S.1, Diop-Diongue O.1, Diaw-Diouf N.A.1, Gaye-Diallo A.1,

Sembène M.3, Touré-Kane C1. and Mboup S.1

1Laboratory Bactériology-Virology, University of Dakar N.3, - 2CTA OPALS, CHU de Fann, Sénégal- 3 Center of halth of Roi Baudouin

Phylogenetic analysis were done by neighbour-joining method and sequences were submitted on Stanford HIVdb and were compared with the ANRS v2006.7 and Rega v6.4.1algorithms and the IAS Resistance Testing-USA panel (09/2007)

ERxample of set of primers used for the long fragment and the DNA analyzer : Applied Biosystems 3100 Avent

Viral Check Workshop 21th-27th June Dakar Senegal

Serine protease

Serine protease

Mutation analysis and clinical implications of von ...1996 Assink et al: Mutation and clinical implications of vWF-cleaving protease deficiency Table 1. Clinical data of the thrombotic

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Effectofthe mms3 Mutation on Ultraviolet Mutagenesis ... · a/a EFFECT OF mms3 ONUVMUTAGENESIS 685 strains withparticular genotypesrequiredforvarious experiments. Media. The standard

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A+ --> a- mutation (forward mutation) a- --> a+ reverse mutation (reversion)

A+ --> a- mutation (forward mutation) a- --> a+ reverse mutation (reversion)

Prepared for - Pharos Projecto Multiple Ames bacterial reverse mutation assays were identified for 2-ethylhexanol utilizing Salmonella typhimurium tester strains TA98, TA100, TA1535,

Prepared for - Pharos Projecto Multiple Ames bacterial reverse mutation assays were identified for 2-ethylhexanol utilizing Salmonella typhimurium tester strains TA98, TA100, TA1535,

HOMOLOGY MODELING OF FOOD ENZYMES LIKE PROTEASE, …scienceandnature.org/GJBB_Vol7(1)2018/GJBB-V7(1)2018-26.pdfHomology modeling of food enzymes 167 strains was done. The enzyme production,

HOMOLOGY MODELING OF FOOD ENZYMES LIKE PROTEASE, …scienceandnature.org/GJBB_Vol7(1)2018/GJBB-V7(1)2018-26.pdfHomology modeling of food enzymes 167 strains was done. The enzyme production,

Tn5-Induced Protease-Deficient Strains of Aeromonas ... · For50%lethal dose (LD50) determinations, five groups of 10 fish each were injected intramuscularly with0.1-ml doses ofwashedcells

Tn5-Induced Protease-Deficient Strains of Aeromonas ... · For50%lethal dose (LD50) determinations, five groups of 10 fish each were injected intramuscularly with0.1-ml doses ofwashedcells

RELATIONSHIPS BETWEEN A HYPER-REC MUTATION AND …The reml-1 mutation was obtained from JG25- 26A, kindly supplied byJOHN GOLIN (University of Oregon). Some of the strains used in

RELATIONSHIPS BETWEEN A HYPER-REC MUTATION AND …The reml-1 mutation was obtained from JG25- 26A, kindly supplied byJOHN GOLIN (University of Oregon). Some of the strains used in

Decreasing Protease Sensitivity

Decreasing Protease Sensitivity

The Evolution of Mutation Rates - Department of Zoology, …johnson/seminar.pdf · Evolution of new pathogenic strains of bacteria (e.g. LeClerc et al. 1996, Picard et al. 2001) ...

The Evolution of Mutation Rates - Department of Zoology, …johnson/seminar.pdf · Evolution of new pathogenic strains of bacteria (e.g. LeClerc et al. 1996, Picard et al. 2001) ...

DNA repair. spontaneous vs. induced mutation gametic vs. somatic mutation lethal or conditional mutation Classification of the mutation.

DNA repair. spontaneous vs. induced mutation gametic vs. somatic mutation lethal or conditional mutation Classification of the mutation.

Mutation Detection from DNA Sequence Traces with … Mutation Detection... · Mutation Detection from DNA Sequence Traces with Mutation Surveyor and Mutation Explorer ... The green

Mutation Detection from DNA Sequence Traces with … Mutation Detection... · Mutation Detection from DNA Sequence Traces with Mutation Surveyor and Mutation Explorer ... The green

Specific protease mutation patterns are associated …446 Specific protease mutation patterns are associated with oropharyngeal candidiasis in a New Orleans patient cohort of HIV-infected

Specific protease mutation patterns are associated …446 Specific protease mutation patterns are associated with oropharyngeal candidiasis in a New Orleans patient cohort of HIV-infected

Phyto64n01 107...basidiospore isolates to colonize a soil-amended cellulosic substrate. Flentje et al. (6), stressed variation in strains as a process of mutation and suggested that

Phyto64n01 107...basidiospore isolates to colonize a soil-amended cellulosic substrate. Flentje et al. (6), stressed variation in strains as a process of mutation and suggested that

Gene Regulation in Prokaryotes Mutation(Permanent, heritable DNA changes) Point mutation (base substitutions) Missense mutation Nonsense mutation (premature.

Gene Regulation in Prokaryotes Mutation(Permanent, heritable DNA changes) Point mutation (base substitutions) Missense mutation Nonsense mutation (premature.

Automatic Characterisation of Dye Decolorisation in …Automatic Characterisation of Dye Decolorisation in Fungal Strains using Expert, Traditional, and Deep Features 3 and for protease

Automatic Characterisation of Dye Decolorisation in …Automatic Characterisation of Dye Decolorisation in Fungal Strains using Expert, Traditional, and Deep Features 3 and for protease

Mutation Detection from DNA Sequence Traces with Mutation ... Mutation Detection... · Mutation Detection from DNA Sequence Traces with Mutation Surveyor and Mutation Explorer Software

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Chymotrypsin Proteases ClassNucleophile(s)Base Covalent Intermediate Serine protease Cysteine protease Aspartyl protease Metalloprotease (Zn) Ser/water.

Chymotrypsin Proteases ClassNucleophile(s)Base Covalent Intermediate Serine protease Cysteine protease Aspartyl protease Metalloprotease (Zn) Ser/water.

Protease Phylogeny

Protease Phylogeny

Enzyme Protease

Enzyme Protease