New Insights into Microbial Ecology through Subtle Nucleotide Variation
The 16S ribosomal RNA gene commonly serves as a molecular marker for investigating microbial community composition and structure. Vast amounts of 16S rRNA amplicon data generated from environmental samples thanks to the recent advances in sequencing technologies allowed microbial ecologists to explo...
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| Formatua: | Online |
| Hizkuntza: | ingelesa |
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Frontiers Media SA
2021
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| Sarrera elektronikoa: | 18375 |
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| _version_ | 1869521041845387264 |
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| author | A. Murat Eren Mitchell Sogin Lois Maignien |
| author_browse | A. Murat Eren Lois Maignien Mitchell Sogin |
| author_facet | A. Murat Eren Mitchell Sogin Lois Maignien |
| author_sort | A. Murat Eren |
| collection | Directory of Open Access Books |
| description | The 16S ribosomal RNA gene commonly serves as a molecular marker for investigating microbial community composition and structure. Vast amounts of 16S rRNA amplicon data generated from environmental samples thanks to the recent advances in sequencing technologies allowed microbial ecologists to explore microbial community dynamics over temporal and spatial scales deeper than ever before. However, widely used methods for the analysis of bacterial communities generally ignore subtle nucleotide variations among high-throughput sequencing reads and often fail to resolve ecologically meaningful differences between closely related organisms in complex microbial datasets. Lack of proper partitioning of the sequencing data into relevant units often masks important ecological patterns. Our research topic contains articles that use oligotyping to demonstrate the importantance of high-resolution analyses of marker gene data, and providides further evidence why microbial ecologists should open the "black box" of OTUs identified through arbitrary sequence similarity thresholds. |
| format | Online |
| id | doab-20.500.12854ir-54590 |
| institution | Directory of Open Access Books |
| language | eng |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Frontiers Media SA |
| publisherStr | Frontiers Media SA |
| record_format | ojs |
| spelling | doab-20.500.12854ir-545902024-04-05T17:31:01Z New Insights into Microbial Ecology through Subtle Nucleotide Variation A. Murat Eren Mitchell Sogin Lois Maignien QR1-502 Q1-390 high-resolution oligotyping Minimum Entropy Decomposition microbiome 16S rRNA gene thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical) The 16S ribosomal RNA gene commonly serves as a molecular marker for investigating microbial community composition and structure. Vast amounts of 16S rRNA amplicon data generated from environmental samples thanks to the recent advances in sequencing technologies allowed microbial ecologists to explore microbial community dynamics over temporal and spatial scales deeper than ever before. However, widely used methods for the analysis of bacterial communities generally ignore subtle nucleotide variations among high-throughput sequencing reads and often fail to resolve ecologically meaningful differences between closely related organisms in complex microbial datasets. Lack of proper partitioning of the sequencing data into relevant units often masks important ecological patterns. Our research topic contains articles that use oligotyping to demonstrate the importantance of high-resolution analyses of marker gene data, and providides further evidence why microbial ecologists should open the "black box" of OTUs identified through arbitrary sequence similarity thresholds. 2021-02-11T20:55:11Z 2021-02-11T20:55:11Z 2016-01-19 14:05:46 2016 book 18375 16648714 9782889199884 https://directory.doabooks.org/handle/20.500.12854/54590 eng Frontiers Research Topics image/jpeg Attribution 4.0 International http://www.frontiersin.org/books/New_Insights_into_Microbial_Ecology_through_Subtle_Nucleotide_Variation/1039 http://journal.frontiersin.org/researchtopic/2427/new-insights-into-microbial-ecology-through-subtle-nucleotide-variation Frontiers Media SA 10.3389/978-2-88919-988-4 10.3389/978-2-88919-988-4 bf5ce210-e72e-4860-ba9b-c305640ff3ae 9782889199884 133 open access |
| spellingShingle | QR1-502 Q1-390 high-resolution oligotyping Minimum Entropy Decomposition microbiome 16S rRNA gene thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical) A. Murat Eren Mitchell Sogin Lois Maignien New Insights into Microbial Ecology through Subtle Nucleotide Variation |
| title | New Insights into Microbial Ecology through Subtle Nucleotide Variation |
| title_full | New Insights into Microbial Ecology through Subtle Nucleotide Variation |
| title_fullStr | New Insights into Microbial Ecology through Subtle Nucleotide Variation |
| title_full_unstemmed | New Insights into Microbial Ecology through Subtle Nucleotide Variation |
| title_short | New Insights into Microbial Ecology through Subtle Nucleotide Variation |
| title_sort | new insights into microbial ecology through subtle nucleotide variation |
| topic | QR1-502 Q1-390 high-resolution oligotyping Minimum Entropy Decomposition microbiome 16S rRNA gene thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical) |
| topic_facet | QR1-502 Q1-390 high-resolution oligotyping Minimum Entropy Decomposition microbiome 16S rRNA gene thema EDItEUR::P Mathematics and Science::PS Biology, life sciences::PSG Microbiology (non-medical) |
| url | 18375 |
| work_keys_str_mv | AT amurateren newinsightsintomicrobialecologythroughsubtlenucleotidevariation AT mitchellsogin newinsightsintomicrobialecologythroughsubtlenucleotidevariation AT loismaignien newinsightsintomicrobialecologythroughsubtlenucleotidevariation |