Evidence map›Paper›PMID 40399693›Full record

ArticleNature biotechnology2026

A multi-kingdom genetic barcoding system for precise clone isolation.

Soh Ishiguro, Kana Ishida, Rina C Sakata, Minori Ichiraku, Ren Takimoto, Rina Yogo, Yusuke Kijima, Hideto Mori, Mamoru Tanaka, Samuel King and 18 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature biotechnology, 2026. 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
–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

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.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Article
  6. Review
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

28 authors.

Soh Ishiguro *School of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.
Kana Ishida *Spiber Inc, Tsuruoka, Japan.
Rina C Sakata *School of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0003-1254-1755
Minori IchirakuCenter for iPS Cell Research and Application, Kyoto University, Kyoto, Japan.
Ren TakimotoSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.
Rina YogoSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0002-1595-0194
Yusuke KijimaSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0002-7934-6762
Hideto MoriPremium Research Institute for Human Metaverse Medicine (WPI-PRIMe), The University of Osaka, Osaka, Japan.ORCID http://orcid.org/0000-0003-4849-0056
Mamoru TanakaResearch Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Samuel KingSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0002-1260-5045
Shoko TarumotoInstitute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Kyoto, Japan.
Taro TsujimuraInstitute for the Advanced Study of Human Biology (WPI-ASHBi), Kyoto University, Kyoto, Japan.
Omar BashthSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.
Nanami MasuyamaSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.
Arman AdelSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.
Hiromi ToyoshimaResearch Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.
Motoaki SekiResearch Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-4207-1408
Ju Hee OhBC Children's Hospital Research Institute, Department of Pathology and Laboratory Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.
Anne-Sophie ArchambaultBC Children's Hospital Research Institute, Department of Pathology and Laboratory Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0001-7243-7445
Keiji NishidaEngineering Biology Research Center, Kobe University, Kobe, Japan.ORCID http://orcid.org/0000-0002-9371-4971
Akihiko KondoBC Children's Hospital Research Institute, Department of Pathology and Laboratory Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0003-1527-5288
Satoru KuharaGraduate School of Bioresource and Bioenvironmental Sciences, Faculty of Agriculture, Kyushu University, Fukuoka, Japan.
Hiroyuki AburataniResearch Center for Advanced Science and Technology, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-0438-1544
Ramon I Klein GeltinkBC Children's Hospital Research Institute, Department of Pathology and Laboratory Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0003-4610-3059
Takuya YamamotoCenter for iPS Cell Research and Application, Kyoto University, Kyoto, Japan.ORCID http://orcid.org/0000-0002-0022-3947
Nika ShakibaSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0003-2985-3130
Yasuhiro TakashimaCenter for iPS Cell Research and Application, Kyoto University, Kyoto, Japan.ORCID http://orcid.org/0000-0003-0126-7260
Nozomu YachieSchool of Biomedical Engineering, Faculty of Applied Science and Faculty of Medicine, The University of British Columbia, Vancouver, British Columbia, Canada. nozomu.yachie@ubc.ca.ORCID http://orcid.org/0000-0003-1582-6027

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Cell-tagging strategies with DNA barcodes have enabled the analysis of clone size dynamics and clone-restricted transcriptomic landscapes in heterogeneous populations. However, isolating a target clone that displays a specific phenotype from a complex population remains challenging. Here we present a multi-kingdom genetic barcoding system, CloneSelect, which enables a target cell clone to be triggered to express a reporter gene for isolation through barcode-specific CRISPR base editing. In CloneSelect, cells are first stably tagged with DNA barcodes and propagated so that their subpopulation can be subjected to a given experiment. A clone that shows a phenotype or genotype of interest at a given time can then be isolated from the initial or subsequent cell pools stored during the experiment using CRISPR base editing. CloneSelect is scalable and compatible with single-cell RNA sequencing. We demonstrate the versatility of CloneSelect in human embryonic kidney 293T cells, mouse embryonic stem cells, human pluripotent stem cells, yeast cells and bacterial cells.

Indexed as

DNA Barcoding, TaxonomicAnimalsClone CellsCRISPR-Cas SystemsGene EditingGenes, ReporterHEK293 CellsHumansMiceSingle-Cell Analysis

Identifiers

PMID40399693
PMCPMC13090120

What OpenQuestion holds

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LicenceCC BY-NC-ND
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.