Bioinformatics for whole-genome shotgun sequencing of microbial communities.
The application of whole-genome shotgun sequencing to microbial communities represents a major development in metagenomics, the study of uncultured microbes via the tools of modern genomic analysis. In the past year, whole-genome shotgun sequencing projects of prokaryotic communities from an acid mi...
| Format: | Article |
|---|---|
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2005-07-01
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| Series: | PLoS Computational Biology |
| Online Access: | http://dx.doi.org/10.1371/journal.pcbi.0010024 |
| _version_ | 1811305413294948352 |
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| collection | DOAJ |
| description | The application of whole-genome shotgun sequencing to microbial communities represents a major development in metagenomics, the study of uncultured microbes via the tools of modern genomic analysis. In the past year, whole-genome shotgun sequencing projects of prokaryotic communities from an acid mine biofilm, the Sargasso Sea, Minnesota farm soil, three deep-sea whale falls, and deep-sea sediments have been reported, adding to previously published work on viral communities from marine and fecal samples. The interpretation of this new kind of data poses a wide variety of exciting and difficult bioinformatics problems. The aim of this review is to introduce the bioinformatics community to this emerging field by surveying existing techniques and promising new approaches for several of the most interesting of these computational problems. |
| first_indexed | 2024-04-13T08:25:51Z |
| format | Article |
| id | doaj.art-ce5036e24cf84cd28c83dfd68b86d985 |
| institution | Directory Open Access Journal |
| issn | 1553-734X 1553-7358 |
| language | English |
| last_indexed | 2024-04-13T08:25:51Z |
| publishDate | 2005-07-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Computational Biology |
| spelling | doaj.art-ce5036e24cf84cd28c83dfd68b86d9852022-12-22T02:54:29ZengPublic Library of Science (PLoS)PLoS Computational Biology1553-734X1553-73582005-07-0112e24Bioinformatics for whole-genome shotgun sequencing of microbial communities.The application of whole-genome shotgun sequencing to microbial communities represents a major development in metagenomics, the study of uncultured microbes via the tools of modern genomic analysis. In the past year, whole-genome shotgun sequencing projects of prokaryotic communities from an acid mine biofilm, the Sargasso Sea, Minnesota farm soil, three deep-sea whale falls, and deep-sea sediments have been reported, adding to previously published work on viral communities from marine and fecal samples. The interpretation of this new kind of data poses a wide variety of exciting and difficult bioinformatics problems. The aim of this review is to introduce the bioinformatics community to this emerging field by surveying existing techniques and promising new approaches for several of the most interesting of these computational problems.http://dx.doi.org/10.1371/journal.pcbi.0010024 |
| spellingShingle | Bioinformatics for whole-genome shotgun sequencing of microbial communities. PLoS Computational Biology |
| title | Bioinformatics for whole-genome shotgun sequencing of microbial communities. |
| title_full | Bioinformatics for whole-genome shotgun sequencing of microbial communities. |
| title_fullStr | Bioinformatics for whole-genome shotgun sequencing of microbial communities. |
| title_full_unstemmed | Bioinformatics for whole-genome shotgun sequencing of microbial communities. |
| title_short | Bioinformatics for whole-genome shotgun sequencing of microbial communities. |
| title_sort | bioinformatics for whole genome shotgun sequencing of microbial communities |
| url | http://dx.doi.org/10.1371/journal.pcbi.0010024 |