Whole genome amplification and long read sequencing using ONT v1 Article Swipe
Yi‐Chien Lee
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.17504/protocols.io.j8nlko5q5v5r/v1
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.17504/protocols.io.j8nlko5q5v5r/v1
A genome reference is a prerequisite for a complete understanding of the biology and evolution of a species.However, the major challenge remains to obtain high-quality DNA and RNA from the majority of organisms. Therefore, there is a need for having a protocol to bypassed the challenging stage of obtaining axenic cultures and limited the amount of DNA material from a limit individual. This protocol build on whole genome sequencing single nematode. With multiple displacement amplification (MDA) allows the genome from a single nematode to be amplified and can sequence with both long- and short-read sequencing. This protocol can be completed within two week including genome amplification and sequencing.Also, combines MDA and Oxford Nanopore sequencing and provides a cost- and labor-effective solution to generate complete assemblies in organisms with as little as 50 picograms of starting material and assemble a draft genome assembly.
Related Topics
Concepts
Genome
Multiple displacement amplification
Biology
Nanopore sequencing
Sequence assembly
Computational biology
Reference genome
Whole genome sequencing
DNA sequencing
DNA sequencer
Hybrid genome assembly
Genetics
Cancer genome sequencing
Illumina dye sequencing
DNA
Gene
Polymerase chain reaction
DNA extraction
Gene expression
Transcriptome
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.17504/protocols.io.j8nlko5q5v5r/v1
- https://www.protocols.io/view/whole-genome-amplification-and-long-read-sequencin-cv99w996.pdf
- OA Status
- gold
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4385297446
All OpenAlex metadata
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https://openalex.org/W4385297446Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.17504/protocols.io.j8nlko5q5v5r/v1Digital Object Identifier
- Title
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Whole genome amplification and long read sequencing using ONT v1Work title
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preprintOpenAlex work type
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enPrimary language
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2023Year of publication
- Publication date
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2023-06-26Full publication date if available
- Authors
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Yi‐Chien LeeList of authors in order
- Landing page
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https://doi.org/10.17504/protocols.io.j8nlko5q5v5r/v1Publisher landing page
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https://www.protocols.io/view/whole-genome-amplification-and-long-read-sequencin-cv99w996.pdfDirect link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://www.protocols.io/view/whole-genome-amplification-and-long-read-sequencin-cv99w996.pdfDirect OA link when available
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Genome, Multiple displacement amplification, Biology, Nanopore sequencing, Sequence assembly, Computational biology, Reference genome, Whole genome sequencing, DNA sequencing, DNA sequencer, Hybrid genome assembly, Genetics, Cancer genome sequencing, Illumina dye sequencing, DNA, Gene, Polymerase chain reaction, DNA extraction, Gene expression, TranscriptomeTop concepts (fields/topics) attached by OpenAlex
- Cited by
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0Total citation count in OpenAlex
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.evolution | 14 |
| abstract_inverted_index.including | 103 |
| abstract_inverted_index.nematode. | 70 |
| abstract_inverted_index.obtaining | 48 |
| abstract_inverted_index.organisms | 126 |
| abstract_inverted_index.picograms | 132 |
| abstract_inverted_index.reference | 2 |
| abstract_inverted_index.Therefore, | 33 |
| abstract_inverted_index.assemblies | 124 |
| abstract_inverted_index.organisms. | 32 |
| abstract_inverted_index.sequencing | 68, 113 |
| abstract_inverted_index.short-read | 93 |
| abstract_inverted_index.challenging | 45 |
| abstract_inverted_index.individual. | 61 |
| abstract_inverted_index.sequencing. | 94 |
| abstract_inverted_index.displacement | 73 |
| abstract_inverted_index.high-quality | 24 |
| abstract_inverted_index.prerequisite | 5 |
| abstract_inverted_index.amplification | 74, 105 |
| abstract_inverted_index.understanding | 9 |
| abstract_inverted_index.labor-effective | 119 |
| abstract_inverted_index.sequencing.Also, | 107 |
| abstract_inverted_index.species.However, | 17 |
| cited_by_percentile_year | |
| corresponding_author_ids | https://openalex.org/A5024508176 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 1 |
| corresponding_institution_ids | https://openalex.org/I134161618, https://openalex.org/I185940356, https://openalex.org/I4210138331, https://openalex.org/I84653119 |
| citation_normalized_percentile.value | 0.04935925 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |