Removal of sequencing adapter contamination improves microbial genome databases.
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PubMed
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| Format: | Artículo científico |
| Sprache: | en |
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BMC genomics
2024
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| author | Moeller, Andrew H Dillard, Brian A Goldman, Samantha L Real, Madalena V F Sprockett, Daniel D |
| author_facet | Moeller, Andrew H Dillard, Brian A Goldman, Samantha L Real, Madalena V F Sprockett, Daniel D Moeller, Andrew H Dillard, Brian A Goldman, Samantha L Real, Madalena V F Sprockett, Daniel D |
| collection | PubMed - marine biology |
| contents | Removal of sequencing adapter contamination improves microbial genome databases. Moeller, Andrew H Dillard, Brian A Goldman, Samantha L Real, Madalena V F Sprockett, Daniel D Animals Databases, Genetic DNA Contamination Genome, Microbial Humans Sequence Analysis, DNA High-Throughput Nucleotide Sequencing Cattle Mice Swine Advances in assembling microbial genomes have led to growth of reference genome databases, which have been transformative for applied and basic microbiome research. Here we show that published microbial genome databases from humans, mice, cows, pigs, fish, honeybees, and marine environments contain significant sequencing-adapter contamination that systematically reduces assembly accuracy and contiguousness. By removing the adapter-contaminated ends of contiguous sequences and reassembling MGnify reference genomes, we improve the quality of assemblies in these databases. |
| format | Artículo científico |
| id | pubmed_39497067 |
| institution | PubMed |
| language | en |
| publishDate | 2024 |
| publisher | BMC genomics |
| record_format | pubmed |
| spellingShingle | Removal of sequencing adapter contamination improves microbial genome databases. Moeller, Andrew H Dillard, Brian A Goldman, Samantha L Real, Madalena V F Sprockett, Daniel D Animals Databases, Genetic DNA Contamination Genome, Microbial Humans Sequence Analysis, DNA High-Throughput Nucleotide Sequencing Cattle Mice Swine Removal of sequencing adapter contamination improves microbial genome databases. Moeller, Andrew H Dillard, Brian A Goldman, Samantha L Real, Madalena V F Sprockett, Daniel D Animals Databases, Genetic DNA Contamination Genome, Microbial Humans Sequence Analysis, DNA High-Throughput Nucleotide Sequencing Cattle Mice Swine Advances in assembling microbial genomes have led to growth of reference genome databases, which have been transformative for applied and basic microbiome research. Here we show that published microbial genome databases from humans, mice, cows, pigs, fish, honeybees, and marine environments contain significant sequencing-adapter contamination that systematically reduces assembly accuracy and contiguousness. By removing the adapter-contaminated ends of contiguous sequences and reassembling MGnify reference genomes, we improve the quality of assemblies in these databases. |
| title | Removal of sequencing adapter contamination improves microbial genome databases. |
| topic | Animals Databases, Genetic DNA Contamination Genome, Microbial Humans Sequence Analysis, DNA High-Throughput Nucleotide Sequencing Cattle Mice Swine |
| url | https://pubmed.ncbi.nlm.nih.gov/39497067/ |