Evidence map›Paper›PMID 38861195›Full record

ArticleVirus genes2024

Detection of four isomers of the human cytomegalovirus genome using nanopore long-read sequencing.

Hideaki Nanamiya, Daisuke Tanaka, Gen Hiyama, Takao Isogai, Shinya Watanabe

Abstract read
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Article in Virus genes, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
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

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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

2 citing papers in PubMed.

  1. Article
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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.

Hideaki NanamiyaFukushima Translational Research Foundation, Capital Front Bldg., 7-4, 1-35, Sakae-Machi, Fukushima, 960-8031, Japan. h-nanamy@ftrf.jp.
Daisuke TanakaTranslational Research Center, Fukushima Medical University, 1, Hikarigaoka, Fukushima, 960-1295, Japan.
Gen HiyamaTranslational Research Center, Fukushima Medical University, 1, Hikarigaoka, Fukushima, 960-1295, Japan.
Takao IsogaiTranslational Research Center, Fukushima Medical University, 1, Hikarigaoka, Fukushima, 960-1295, Japan.
Shinya WatanabeTranslational Research Center, Fukushima Medical University, 1, Hikarigaoka, Fukushima, 960-1295, Japan.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Human cytomegalovirus has a linear DNA genome with a total length of approximately 235 kb. This large genome is divided into two domains, "Long" and "Short". There are four isomers of the cytomegalovirus genome with different orientations of each domain. To confirm the presence of four types of isomers, it is necessary to identify the sequence of the junction between the domains. However, due to the presence of repeat sequences, it is difficult to determine the junction sequences by next-generation sequencing analysis. To solve this problem, long-read sequencing was performed using the Oxford Nanopore sequencer and the junctions were successfully identified in four isomers in strain Merin and ATCC-2011-3. Nanopore sequencing also revealed the presence of multiple copies of the "a" sequence (a-seq) in the junctions, indicating the diversity of the junction sequences. These results strongly suggest that long-read sequencing using the nanopore sequencer would be beneficial for identifying the complex structure of the cytomegalovirus genome.

Indexed as

CytomegalovirusGenome, ViralHigh-Throughput Nucleotide SequencingNanopore SequencingDNA, ViralHumansNanoporesSequence Analysis, DNADNA, ViralHuman cytomegalovirusLong-read sequencingNanopore sequencerStructural variation

Identifiers

PMID38861195

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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.