Genomic analyses of multidrug resistant Pseudomonas aeruginosa PA1 resequenced by single-molecule real-time sequencing Article Swipe
Gang Li
,
Mengyu Shen
,
Shuai Le
,
Yinling Tan
,
Ming Li
,
Xia Zhao
,
Wei Shen
,
Yuhui Yang
,
Jing Wang
,
Hongbin Zhu
,
Shu Li
,
Xiancai Rao
,
Fuquan Hu
,
Shuguang Lu
·
YOU?
·
· 2016
· Open Access
·
· DOI: https://doi.org/10.1042/bsr20160282
YOU?
·
· 2016
· Open Access
·
· DOI: https://doi.org/10.1042/bsr20160282
As a third-generation sequencing (TGS) method, single-molecule real-time (SMRT) technology provides long read length, and it is well suited for resequencing projects and de novo assembly. In the present study, Pseudomonas aeruginosa PA1 was characterized and resequenced using SMRT technology. PA1 was also subjected to genomic, comparative and pan-genomic analyses. The multidrug resistant strain PA1 possesses a 6,498,072 bp genome and a sequence type of ST-782. The genome of PA1 was also visualized, and the results revealed the details of general genome annotations, virulence factors, regulatory proteins (RPs), secretion system proteins, type II toxin–antitoxin (T–A) pairs and genomic islands. Whole genome comparison analysis suggested that PA1 exhibits similarity to other P. aeruginosa strains but differs in terms of horizontal gene transfer (HGT) regions, such as prophages and genomic islands. Phylogenetic analyses based on 16S rRNA sequences demonstrated that PA1 is closely related to PAO1, and P. aeruginosa strains can be divided into two main groups. The pan-genome of P. aeruginosa consists of a core genome of approximately 4,000 genes and an accessory genome of at least 6,600 genes. The present study presented a detailed, visualized and comparative analysis of the PA1 genome, to enhance our understanding of this notorious pathogen.
Related Topics
Concepts
Genome
Biology
Prophage
Genetics
Horizontal gene transfer
Whole genome sequencing
Gene
Genomic island
Phylogenetic tree
Bacteriophage
Escherichia coli
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1042/bsr20160282
- https://portlandpress.com/bioscirep/article-pdf/36/6/e00418/429591/bsr036e418.pdf
- OA Status
- gold
- Cited By
- 13
- References
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- Related Works
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- OpenAlex ID
- https://openalex.org/W2533688570
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W2533688570Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1042/bsr20160282Digital Object Identifier
- Title
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Genomic analyses of multidrug resistant Pseudomonas aeruginosa PA1 resequenced by single-molecule real-time sequencingWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2016Year of publication
- Publication date
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2016-10-21Full publication date if available
- Authors
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Gang Li, Mengyu Shen, Shuai Le, Yinling Tan, Ming Li, Xia Zhao, Wei Shen, Yuhui Yang, Jing Wang, Hongbin Zhu, Shu Li, Xiancai Rao, Fuquan Hu, Shuguang LuList of authors in order
- Landing page
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https://doi.org/10.1042/bsr20160282Publisher landing page
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https://portlandpress.com/bioscirep/article-pdf/36/6/e00418/429591/bsr036e418.pdfDirect link to full text PDF
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YesWhether a free full text is available
- OA status
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goldOpen access status per OpenAlex
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https://portlandpress.com/bioscirep/article-pdf/36/6/e00418/429591/bsr036e418.pdfDirect OA link when available
- Concepts
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Genome, Biology, Prophage, Genetics, Horizontal gene transfer, Whole genome sequencing, Gene, Genomic island, Phylogenetic tree, Bacteriophage, Escherichia coliTop concepts (fields/topics) attached by OpenAlex
- Cited by
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13Total citation count in OpenAlex
- Citations by year (recent)
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2023: 1, 2022: 2, 2021: 1, 2020: 1, 2018: 4Per-year citation counts (last 5 years)
- References (count)
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79Number of works referenced by this work
- Related works (count)
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.possesses | 55 |
| abstract_inverted_index.presented | 181 |
| abstract_inverted_index.prophages | 125 |
| abstract_inverted_index.proteins, | 90 |
| abstract_inverted_index.real-time | 7 |
| abstract_inverted_index.resistant | 52 |
| abstract_inverted_index.secretion | 88 |
| abstract_inverted_index.sequences | 135 |
| abstract_inverted_index.subjected | 43 |
| abstract_inverted_index.suggested | 103 |
| abstract_inverted_index.virulence | 83 |
| abstract_inverted_index.aeruginosa | 31, 111, 146, 159 |
| abstract_inverted_index.comparison | 101 |
| abstract_inverted_index.horizontal | 118 |
| abstract_inverted_index.pan-genome | 156 |
| abstract_inverted_index.regulatory | 85 |
| abstract_inverted_index.sequencing | 3 |
| abstract_inverted_index.similarity | 107 |
| abstract_inverted_index.technology | 9 |
| abstract_inverted_index.visualized | 184 |
| abstract_inverted_index.Pseudomonas | 30 |
| abstract_inverted_index.comparative | 46, 186 |
| abstract_inverted_index.pan-genomic | 48 |
| abstract_inverted_index.resequenced | 36 |
| abstract_inverted_index.technology. | 39 |
| abstract_inverted_index.visualized, | 72 |
| abstract_inverted_index.Phylogenetic | 129 |
| abstract_inverted_index.annotations, | 82 |
| abstract_inverted_index.demonstrated | 136 |
| abstract_inverted_index.resequencing | 20 |
| abstract_inverted_index.approximately | 166 |
| abstract_inverted_index.characterized | 34 |
| abstract_inverted_index.understanding | 195 |
| abstract_inverted_index.single-molecule | 6 |
| abstract_inverted_index.third-generation | 2 |
| abstract_inverted_index.toxin–antitoxin | 93 |
| cited_by_percentile_year.max | 98 |
| cited_by_percentile_year.min | 89 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 14 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/14 |
| sustainable_development_goals[0].score | 0.7799999713897705 |
| sustainable_development_goals[0].display_name | Life below water |
| citation_normalized_percentile.value | 0.83653875 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |