Genomic transmission clusters and circulating lineages of Mycobacterium tuberculosis among refugees residing in refugee camps in Ethiopia
CONCLUSION: Four lineages (L1, L3, L4, and L9) were identified, with the majority of strains being L3, reflecting the Mtb L3 dominance in South Sudan, where the majority of refugees originated from. Recent transmission among refugees was relatively low (24%), likely due to the short study period. The improved understanding of the Mtb transmission dynamics using WGS in refugee camps could assist in designing effective TB control programs for refugees.PMID:38008242 | DOI:10.1016/j.meegid.2023.105530 (Source: Infection, Genetics and Evolution)
Source: Infection, Genetics and Evolution - November 26, 2023 Category: Genetics & Stem Cells Authors: Abyot Meaza Emmanuel Riviere Zegeye Bonsa Vincent Rennie Gebremedhin Gebremicael Miguel de Diego-Fuertes Conor J Meehan Girmay Medhin Gemeda Abebe Gobena Ameni Annelies Van Rie Balako Gumi Source Type: research
Genomic transmission clusters and circulating lineages of Mycobacterium tuberculosis among refugees residing in refugee camps in Ethiopia
CONCLUSION: Four lineages (L1, L3, L4, and L9) were identified, with the majority of strains being L3, reflecting the Mtb L3 dominance in South Sudan, where the majority of refugees originated from. Recent transmission among refugees was relatively low (24%), likely due to the short study period. The improved understanding of the Mtb transmission dynamics using WGS in refugee camps could assist in designing effective TB control programs for refugees.PMID:38008242 | DOI:10.1016/j.meegid.2023.105530 (Source: Infection, Genetics and Evolution)
Source: Infection, Genetics and Evolution - November 26, 2023 Category: Genetics & Stem Cells Authors: Abyot Meaza Emmanuel Riviere Zegeye Bonsa Vincent Rennie Gebremedhin Gebremicael Miguel de Diego-Fuertes Conor J Meehan Girmay Medhin Gemeda Abebe Gobena Ameni Annelies Van Rie Balako Gumi Source Type: research
MALDI-TOF MS analysis of Burkholderia pseudomallei and closely related species isolated from soils and water in Khon Kaen, Thailand
This study aims to evaluate MALDI-TOF MS for the identification of Bp and closely related species isolated from environmental samples in Thailand using whole-genome sequencing (WGS) as the gold standard, including determining the best sample preparation method for this purpose. We identified Bp (n = 22), Burkholderia spp. (n = 28), and other bacterial species (n = 32) using WGS. MALDI-TOF analysis of all Bp isolates yielded results consistent with WGS. A decision-tree algorithm identified 16 important variable peaks, using the protein extraction method (PEM), demonstrating distinct MALDI-TOF profiles for the three categori...
Source: Infection, Genetics and Evolution - November 23, 2023 Category: Genetics & Stem Cells Authors: Nut Nithimongkolchai Yothin Hinwan Benjawan Kaewseekhao Pisit Chareonsudjai Pipat Reungsang Ratthaphol Kraiklang Sorujsiri Chareonsudjai Lumyai Wonglakorn Ploenchan Chetchotisakd Auttawit Sirichoat Arnone Nithichanon Kiatichai Faksri Source Type: research
High throughput sequencing technology reveals alteration of lower respiratory tract microbiome in severe aspiration pneumonia and its association with inflammation
CONCLUSIONS: Alteration of the lower respiratory tract microbiome is critically involved in inflammation and disease progression in severe cases of aspiration pneumonia. The potential inflammation regulation properties of the microbiome hold promising value for developing novel therapeutic approaches aimed at mitigating the severity of the disease.PMID:37995886 | DOI:10.1016/j.meegid.2023.105533 (Source: Infection, Genetics and Evolution)
Source: Infection, Genetics and Evolution - November 23, 2023 Category: Genetics & Stem Cells Authors: Pengfei Wang Junming Wang Lina Wang Jiang Lv Yiru Shao Daikun He Source Type: research
MALDI-TOF MS analysis of Burkholderia pseudomallei and closely related species isolated from soils and water in Khon Kaen, Thailand
This study aims to evaluate MALDI-TOF MS for the identification of Bp and closely related species isolated from environmental samples in Thailand using whole-genome sequencing (WGS) as the gold standard, including determining the best sample preparation method for this purpose. We identified Bp (n = 22), Burkholderia spp. (n = 28), and other bacterial species (n = 32) using WGS. MALDI-TOF analysis of all Bp isolates yielded results consistent with WGS. A decision-tree algorithm identified 16 important variable peaks, using the protein extraction method (PEM), demonstrating distinct MALDI-TOF profiles for the three categori...
Source: Infection, Genetics and Evolution - November 23, 2023 Category: Genetics & Stem Cells Authors: Nut Nithimongkolchai Yothin Hinwan Benjawan Kaewseekhao Pisit Chareonsudjai Pipat Reungsang Ratthaphol Kraiklang Sorujsiri Chareonsudjai Lumyai Wonglakorn Ploenchan Chetchotisakd Auttawit Sirichoat Arnone Nithichanon Kiatichai Faksri Source Type: research
High throughput sequencing technology reveals alteration of lower respiratory tract microbiome in severe aspiration pneumonia and its association with inflammation
CONCLUSIONS: Alteration of the lower respiratory tract microbiome is critically involved in inflammation and disease progression in severe cases of aspiration pneumonia. The potential inflammation regulation properties of the microbiome hold promising value for developing novel therapeutic approaches aimed at mitigating the severity of the disease.PMID:37995886 | DOI:10.1016/j.meegid.2023.105533 (Source: Infection, Genetics and Evolution)
Source: Infection, Genetics and Evolution - November 23, 2023 Category: Genetics & Stem Cells Authors: Pengfei Wang Junming Wang Lina Wang Jiang Lv Yiru Shao Daikun He Source Type: research
MALDI-TOF MS analysis of Burkholderia pseudomallei and closely related species isolated from soils and water in Khon Kaen, Thailand
This study aims to evaluate MALDI-TOF MS for the identification of Bp and closely related species isolated from environmental samples in Thailand using whole-genome sequencing (WGS) as the gold standard, including determining the best sample preparation method for this purpose. We identified Bp (n = 22), Burkholderia spp. (n = 28), and other bacterial species (n = 32) using WGS. MALDI-TOF analysis of all Bp isolates yielded results consistent with WGS. A decision-tree algorithm identified 16 important variable peaks, using the protein extraction method (PEM), demonstrating distinct MALDI-TOF profiles for the three categori...
Source: Infection, Genetics and Evolution - November 23, 2023 Category: Genetics & Stem Cells Authors: Nut Nithimongkolchai Yothin Hinwan Benjawan Kaewseekhao Pisit Chareonsudjai Pipat Reungsang Ratthaphol Kraiklang Sorujsiri Chareonsudjai Lumyai Wonglakorn Ploenchan Chetchotisakd Auttawit Sirichoat Arnone Nithichanon Kiatichai Faksri Source Type: research
High throughput sequencing technology reveals alteration of lower respiratory tract microbiome in severe aspiration pneumonia and its association with inflammation
CONCLUSIONS: Alteration of the lower respiratory tract microbiome is critically involved in inflammation and disease progression in severe cases of aspiration pneumonia. The potential inflammation regulation properties of the microbiome hold promising value for developing novel therapeutic approaches aimed at mitigating the severity of the disease.PMID:37995886 | DOI:10.1016/j.meegid.2023.105533 (Source: Infection, Genetics and Evolution)
Source: Infection, Genetics and Evolution - November 23, 2023 Category: Genetics & Stem Cells Authors: Pengfei Wang Junming Wang Lina Wang Jiang Lv Yiru Shao Daikun He Source Type: research
Genetic diversity of Echinococcus multilocularis specimens isolated from Belgian patients with alveolar echinococcosis using EmsB microsatellites analysis
This study also highlights that some specimens share the same EmsB profile with profiles characterized in red foxes from north Belgium, The Netherland, Luxembourg and French department near to the Belgian border. Furthermore, Belgian specimens present a genetic diversity and include one profile that don't share similarities with the ones referenced in the EWET database. However, at this geographical scale, there is no clear correlation between EmsB profiles and geographical location. Further studies including additional clinical samples and isolates from foxes and rodents of south Belgium are necessary to better understand...
Source: Infection, Genetics and Evolution - November 22, 2023 Category: Genetics & Stem Cells Authors: Rosalie Sacheli Jenny Knapp Caroline Pholien Sabrina Egrek Philippe L éonard Jean-Baptiste Giot B énédicte Delaere Noella Bl étard St éphanie Gofflot Marie-C écile Nollevaux Paul Meunier Pierre Lovinfosse Benoit Pirotte Carine Truyens Laurence Millo Source Type: research
Genetic diversity of Echinococcus multilocularis specimens isolated from Belgian patients with alveolar echinococcosis using EmsB microsatellites analysis
This study also highlights that some specimens share the same EmsB profile with profiles characterized in red foxes from north Belgium, The Netherland, Luxembourg and French department near to the Belgian border. Furthermore, Belgian specimens present a genetic diversity and include one profile that don't share similarities with the ones referenced in the EWET database. However, at this geographical scale, there is no clear correlation between EmsB profiles and geographical location. Further studies including additional clinical samples and isolates from foxes and rodents of south Belgium are necessary to better understand...
Source: Infection, Genetics and Evolution - November 22, 2023 Category: Genetics & Stem Cells Authors: Rosalie Sacheli Jenny Knapp Caroline Pholien Sabrina Egrek Philippe L éonard Jean-Baptiste Giot B énédicte Delaere Noella Bl étard St éphanie Gofflot Marie-C écile Nollevaux Paul Meunier Pierre Lovinfosse Benoit Pirotte Carine Truyens Laurence Millo Source Type: research
Disentangling archaic introgression and genomic signatures of selection at human immunity genes
Infect Genet Evol. 2023 Nov 15;116:105528. doi: 10.1016/j.meegid.2023.105528. Online ahead of print.ABSTRACTPathogens and infectious diseases have imposed exceptionally strong selective pressure on ancient and modern human genomes and contributed to the current variation in many genes. There is evidence that modern humans acquired immune variants through interbreeding with ancient hominins, but the impact of such variants on human traits is not fully understood. The main objectives of this research were to infer the genetic signatures of positive selection that may be involved in adaptation to infectious diseases and to in...
Source: Infection, Genetics and Evolution - November 17, 2023 Category: Genetics & Stem Cells Authors: Alina Urnikyte Abigaile Masiulyte Laura Pranckeniene Vaidutis Ku činskas Source Type: research
Genetic markers of Chlamydia pecorum virulence in ruminants support short term host-pathogen evolutionary relationships in the koala, Phascolarctos cinereus
Infect Genet Evol. 2023 Nov 15:105527. doi: 10.1016/j.meegid.2023.105527. Online ahead of print.ABSTRACTIn ruminants infected with Chlamydia pecorum, shorter lengths of coding tandem repeats (CTR) within two genes, the inclusion membrane protein (incA) and Type III secretor protein (ORF663), have been previously associated with pathogenic outcomes. In other chlamydial species, the presence of a chlamydial plasmid has been linked to heightened virulence, and the plasmid is not ubiquitous in C. pecorum across the koala's range. We therefore investigated these three markers: incA, ORF663 and C. pecorum plasmid, as potential i...
Source: Infection, Genetics and Evolution - November 17, 2023 Category: Genetics & Stem Cells Authors: Cristina M Fernandez Mark B Krockenberger Mathew S Crowther Valentina S A Mella Lachlan Wilmott Damien P Higgins Source Type: research
Genomic characterization of extended spectrum beta lactamases producing multidrug-resistant Escherichia coli clinically isolated harboring chromosomally mediated CTX-M-15 from Alkharj, KSA
Infect Genet Evol. 2023 Nov 15;116:105526. doi: 10.1016/j.meegid.2023.105526. Online ahead of print.ABSTRACTExtended Spectrum Beta Lactamases (ESBLs) are the most prevalent enzymes conferring resistance to beta-lactams encoded on plasmids and rarely in chromosomes. This genomic study aims to characterize Escherichia coli to identify antimicrobial resistance genes (ARG), virulence factors, and phylogenetic relationships among ESBL-positive and negative isolates of E. coli obtained from Al-Kharj, Riyadh region, Saudi Arabia. Three clinical isolates from urine and vaginal swabs were obtained and subjected to whole genome sequ...
Source: Infection, Genetics and Evolution - November 17, 2023 Category: Genetics & Stem Cells Authors: Ehssan Moglad Hisham N Altayb Source Type: research
Disentangling archaic introgression and genomic signatures of selection at human immunity genes
Infect Genet Evol. 2023 Nov 15;116:105528. doi: 10.1016/j.meegid.2023.105528. Online ahead of print.ABSTRACTPathogens and infectious diseases have imposed exceptionally strong selective pressure on ancient and modern human genomes and contributed to the current variation in many genes. There is evidence that modern humans acquired immune variants through interbreeding with ancient hominins, but the impact of such variants on human traits is not fully understood. The main objectives of this research were to infer the genetic signatures of positive selection that may be involved in adaptation to infectious diseases and to in...
Source: Infection, Genetics and Evolution - November 17, 2023 Category: Genetics & Stem Cells Authors: Alina Urnikyte Abigaile Masiulyte Laura Pranckeniene Vaidutis Ku činskas Source Type: research
Genetic markers of Chlamydia pecorum virulence in ruminants support short term host-pathogen evolutionary relationships in the koala, Phascolarctos cinereus
Infect Genet Evol. 2023 Nov 15:105527. doi: 10.1016/j.meegid.2023.105527. Online ahead of print.ABSTRACTIn ruminants infected with Chlamydia pecorum, shorter lengths of coding tandem repeats (CTR) within two genes, the inclusion membrane protein (incA) and Type III secretor protein (ORF663), have been previously associated with pathogenic outcomes. In other chlamydial species, the presence of a chlamydial plasmid has been linked to heightened virulence, and the plasmid is not ubiquitous in C. pecorum across the koala's range. We therefore investigated these three markers: incA, ORF663 and C. pecorum plasmid, as potential i...
Source: Infection, Genetics and Evolution - November 17, 2023 Category: Genetics & Stem Cells Authors: Cristina M Fernandez Mark B Krockenberger Mathew S Crowther Valentina S A Mella Lachlan Wilmott Damien P Higgins Source Type: research
