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Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity
Severe Helicobacter pylori-linked gastric disorders are especially prevalent in the East Asia region. The ability of H. pylori to cause different clinical outcomes is thought to be associated with unique sets of its genetic features. However, only few genetic features have been definitively linked t...
Autores principales: | , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Taylor & Francis
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8081043/ https://www.ncbi.nlm.nih.gov/pubmed/33904371 http://dx.doi.org/10.1080/21505594.2021.1920762 |
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author | Yang, Feng Zhang, Jinghao Wang, Su Sun, Zhaoyang Zhou, Jun Li, Feng Liu, Yue Ding, Li Liu, Yixin Chi, Wenjing Liu, Tao He, Yongqun Xiang, Ping Bao, Zhijun Olszewski, Michal A. Zhao, Hu Zhang, Yanmei |
author_facet | Yang, Feng Zhang, Jinghao Wang, Su Sun, Zhaoyang Zhou, Jun Li, Feng Liu, Yue Ding, Li Liu, Yixin Chi, Wenjing Liu, Tao He, Yongqun Xiang, Ping Bao, Zhijun Olszewski, Michal A. Zhao, Hu Zhang, Yanmei |
author_sort | Yang, Feng |
collection | PubMed |
description | Severe Helicobacter pylori-linked gastric disorders are especially prevalent in the East Asia region. The ability of H. pylori to cause different clinical outcomes is thought to be associated with unique sets of its genetic features. However, only few genetic features have been definitively linked to specific gastrointestinal pathologies. Genome heterogeneity of clinical H. pylori strains from patients with four different gastric disorders was studied to explore the population structure and molecular genomic features and their association with pathogenicity. Population analysis showed that 92.9% of the Shanghai H. pylori isolates were clustered in the East Asia group. Among 2,866 genes detected in all genomes, 1,146 genes formed the core genome, whereas 209 unique genes were detected in individual disease groups. The unique genes of peptic ulcer and gastric cancer groups represented the inorganic ion transport and metabolism function gene clusters. Sixteen virulence genes were detected with statistically different detection rates among the four disease groups. Furthermore, 127 clustered regularly interspaced short palindromic repeats were found with significantly different rates in the four disease groups. A total of 337 putative genomic islands were identified, and three genomic islands were individually found in more than 10% of strains. The genomic islands included several metabolism-associated genes and many genes with unknown function. In total, 88 sequence types were detected among the 112 Shanghai H. pylori isolates. Our study provides an essential milestone in the mapping of specific genomic features and their functions to identify factors needed to induce specific gastric disorders in H. pylori. |
format | Online Article Text |
id | pubmed-8081043 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Taylor & Francis |
record_format | MEDLINE/PubMed |
spelling | pubmed-80810432021-05-13 Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity Yang, Feng Zhang, Jinghao Wang, Su Sun, Zhaoyang Zhou, Jun Li, Feng Liu, Yue Ding, Li Liu, Yixin Chi, Wenjing Liu, Tao He, Yongqun Xiang, Ping Bao, Zhijun Olszewski, Michal A. Zhao, Hu Zhang, Yanmei Virulence Research Paper Severe Helicobacter pylori-linked gastric disorders are especially prevalent in the East Asia region. The ability of H. pylori to cause different clinical outcomes is thought to be associated with unique sets of its genetic features. However, only few genetic features have been definitively linked to specific gastrointestinal pathologies. Genome heterogeneity of clinical H. pylori strains from patients with four different gastric disorders was studied to explore the population structure and molecular genomic features and their association with pathogenicity. Population analysis showed that 92.9% of the Shanghai H. pylori isolates were clustered in the East Asia group. Among 2,866 genes detected in all genomes, 1,146 genes formed the core genome, whereas 209 unique genes were detected in individual disease groups. The unique genes of peptic ulcer and gastric cancer groups represented the inorganic ion transport and metabolism function gene clusters. Sixteen virulence genes were detected with statistically different detection rates among the four disease groups. Furthermore, 127 clustered regularly interspaced short palindromic repeats were found with significantly different rates in the four disease groups. A total of 337 putative genomic islands were identified, and three genomic islands were individually found in more than 10% of strains. The genomic islands included several metabolism-associated genes and many genes with unknown function. In total, 88 sequence types were detected among the 112 Shanghai H. pylori isolates. Our study provides an essential milestone in the mapping of specific genomic features and their functions to identify factors needed to induce specific gastric disorders in H. pylori. Taylor & Francis 2021-04-27 /pmc/articles/PMC8081043/ /pubmed/33904371 http://dx.doi.org/10.1080/21505594.2021.1920762 Text en © 2021 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Paper Yang, Feng Zhang, Jinghao Wang, Su Sun, Zhaoyang Zhou, Jun Li, Feng Liu, Yue Ding, Li Liu, Yixin Chi, Wenjing Liu, Tao He, Yongqun Xiang, Ping Bao, Zhijun Olszewski, Michal A. Zhao, Hu Zhang, Yanmei Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
title | Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
title_full | Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
title_fullStr | Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
title_full_unstemmed | Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
title_short | Genomic population structure of Helicobacter pylori Shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
title_sort | genomic population structure of helicobacter pylori shanghai isolates and identification of genomic features uniquely linked with pathogenicity |
topic | Research Paper |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8081043/ https://www.ncbi.nlm.nih.gov/pubmed/33904371 http://dx.doi.org/10.1080/21505594.2021.1920762 |
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