Evidence map›Paper›PMID 34207615›Full record

ArticleMicroorganisms2021

Benchmarking DNA Extraction Methods for Phylogenomic Analysis of Sub-Antarctic

Akhikun Nahar, Anthony L Baker, David S Nichols, John P Bowman, Margaret L Britz

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microorganisms, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
0.8field-weighted citation impact, top 29% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

6 citing papers in PubMed, 11 citations in OpenAlex.

  1. Article
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  4. Review
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors at 1 institution in 1 country.

Akhikun NaharTasmanian Institute of Agriculture, University of Tasmania, Hobart, TAS 7005, Australia.
Anthony L BakerTasmanian Institute of Agriculture, University of Tasmania, Hobart, TAS 7005, Australia.
David S NicholsCentral Science Laboratory, Division of Research, University of Tasmania, Hobart, TAS 7005, Australia.ORCID 0000-0002-8066-3132
John P BowmanTasmanian Institute of Agriculture, University of Tasmania, Hobart, TAS 7005, Australia.
Margaret L BritzTasmanian Institute of Agriculture, University of Tasmania, Hobart, TAS 7005, Australia.ORCID 0000-0002-6413-3756
University of Tasmania · AU

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Bacteria containing mycolic acids in their cell envelope are often recalcitrant to cell lysis, so extracting DNA of sufficient quality for third-generation sequencing and high-fidelity genome assembly requires optimization, even when using commercial kits with protocols for hard-to-lyse bacteria. We benchmarked three spin-column-based kits against a classical DNA extraction method employing lysozyme, proteinase K and SDS for six lysozyme-resistant, sub-Antarctic strains of

Indexed as

ActinobacteriaANIDNA extractionmycolic acidsnext-generation sequencingpsychrotrophicRhodococcus erythropolisRhodococcus qingshengiiWilliamsia

Identifiers

PMID34207615
PMCPMC8227252
OpenAlexW3170610925

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.